Itih4 (inter-alpha-trypsin inhibitor heavy chain 4) - Rat Genome Database

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Gene: Itih4 (inter-alpha-trypsin inhibitor heavy chain 4) Rattus norvegicus
Analyze
Symbol: Itih4
Name: inter-alpha-trypsin inhibitor heavy chain 4
RGD ID: 70881
Description: Predicted to have serine-type endopeptidase inhibitor activity. Predicted to be involved in acute-phase response and response to cytokine. Localizes to extracellular space. Biomarker of amyotrophic lateral sclerosis and obesity. Human ortholog(s) of this gene implicated in intermediate coronary syndrome and myocardial infarction. Orthologous to human ITIH4 (inter-alpha-trypsin inhibitor heavy chain 4); INTERACTS WITH 1,3-dinitrobenzene; 17beta-estradiol; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: inter alpha-trypsin inhibitor, heavy chain 4; inter-alpha-inhibitor H4 heavy chain; inter-alpha-trypsin inhibitor heavy chain family, member 4; inter-alpha-trypsin inhibitor heavy chain H4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2166,080,539 - 6,095,710 (+)NCBI
Rnor_6.0 Ensembl166,970,342 - 6,985,579 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0166,970,367 - 6,985,538 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0166,896,782 - 6,912,274 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,319,608 - 6,334,782 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1166,319,608 - 6,334,777 (+)NCBI
Celera169,093,866 - 9,109,046 (-)NCBICelera
Cytogenetic Map16p16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
aluminium oxide  (ISO)
amiodarone  (EXP)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
cisplatin  (ISO)
clofibrate  (EXP,ISO)
cobalt dichloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
diethyl maleate  (ISO)
diethylstilbestrol  (EXP)
fumonisin B1  (ISO)
furan  (EXP)
indometacin  (ISO)
isoprenaline  (ISO)
L-ethionine  (EXP)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methapyrilene  (EXP)
methotrexate  (EXP)
methylmercury chloride  (ISO)
nickel atom  (ISO)
olanzapine  (ISO)
omeprazole  (EXP)
p-toluidine  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sodium fluoride  (ISO)
testosterone undecanoate  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
Triptolide  (EXP)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zidovudine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
1. Choi JW, etal., J Proteomics. 2012 Feb 2;75(4):1386-400. doi: 10.1016/j.jprot.2011.11.012. Epub 2011 Nov 20.
2. Desoubeaux G, etal., Int J Med Microbiol. 2014 May;304(3-4):327-38. doi: 10.1016/j.ijmm.2013.11.015. Epub 2013 Dec 1.
3. Fujita Y, etal., J Hum Genet. 2004;49(1):24-8. Epub 2003 Dec 6.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Ivancic MM, etal., Cancer Prev Res (Phila). 2014 Nov;7(11):1160-9. doi: 10.1158/1940-6207.CAPR-14-0056. Epub 2014 Sep 8.
7. Lubieniecka JM, etal., PLoS One. 2011 Apr 29;6(4):e19247. doi: 10.1371/journal.pone.0019247.
8. Ma Y, etal., Cytokine. 2020 Dec 18;138:155377. doi: 10.1016/j.cyto.2020.155377.
9. MGD Curation, June 12, 2002
10. MGD data from the GO Consortium
11. NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Noh CK, etal., Clin Biochem. 2014 Sep;47(13-14):1257-61. doi: 10.1016/j.clinbiochem.2014.05.002. Epub 2014 May 14.
13. OMIM Disease Annotation Pipeline
14. Pineiro M, etal., Biochem Biophys Res Commun. 1999 Sep 16;263(1):224-9.
15. RGD automated data pipeline
16. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. RGD automated import pipeline for gene-chemical interactions
18. RGD comprehensive gene curation
19. Soury E, etal., Biochem Biophys Res Commun 1998 Feb 13;243(2):522-30.
20. Tanaka H, etal., J Neurol. 2013 Jul;260(7):1782-97. doi: 10.1007/s00415-013-6877-3. Epub 2013 Feb 23.
21. Wang J, etal., Emerg Microbes Infect. 2018 Apr 11;7(1):63. doi: 10.1038/s41426-018-0066-5.
Additional References at PubMed
PMID:10712621   PMID:11803570   PMID:12477932   PMID:19056867   PMID:19263524   PMID:22516433   PMID:23376485   PMID:23533145  


Genomics

Comparative Map Data
Itih4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2166,080,539 - 6,095,710 (+)NCBI
Rnor_6.0 Ensembl166,970,342 - 6,985,579 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0166,970,367 - 6,985,538 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0166,896,782 - 6,912,274 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4166,319,608 - 6,334,782 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1166,319,608 - 6,334,777 (+)NCBI
Celera169,093,866 - 9,109,046 (-)NCBICelera
Cytogenetic Map16p16NCBI
ITIH4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl352,812,962 - 52,830,688 (-)EnsemblGRCh38hg38GRCh38
GRCh38352,812,962 - 52,830,672 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37352,846,978 - 52,864,688 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36352,822,046 - 52,839,734 (-)NCBINCBI36hg18NCBI36
Build 34352,822,045 - 52,839,734NCBI
Celera352,825,723 - 52,843,435 (-)NCBI
Cytogenetic Map3p21.1NCBI
HuRef352,908,665 - 52,926,377 (-)NCBIHuRef
CHM1_1352,799,205 - 52,816,916 (-)NCBICHM1_1
Itih4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391430,608,433 - 30,623,943 (+)NCBIGRCm39mm39
GRCm39 Ensembl1430,608,433 - 30,624,310 (+)Ensembl
GRCm381430,886,476 - 30,901,986 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1430,886,476 - 30,902,353 (+)EnsemblGRCm38mm10GRCm38
MGSCv371431,699,678 - 31,715,169 (+)NCBIGRCm37mm9NCBIm37
MGSCv361429,715,522 - 29,730,858 (+)NCBImm8
Celera1427,143,865 - 27,159,266 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.09NCBI
Itih4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554302,770,373 - 2,789,131 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554302,772,064 - 2,787,912 (-)NCBIChiLan1.0ChiLan1.0
ITIH4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1353,980,529 - 54,000,560 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl353,980,668 - 53,998,038 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0352,754,664 - 52,774,867 (-)NCBIMhudiblu_PPA_v0panPan3
ITIH4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2036,984,232 - 36,999,685 (+)NCBI
ROS_Cfam_1.02037,352,995 - 37,368,452 (+)NCBI
UNSW_CanFamBas_1.02037,125,001 - 37,140,491 (+)NCBI
UU_Cfam_GSD_1.02037,402,544 - 37,418,024 (+)NCBI
Itih4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118170,434,701 - 170,450,834 (-)NCBI
SpeTri2.0NW_0049364733,573,282 - 3,589,345 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITIH4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1334,915,855 - 34,948,229 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11334,928,455 - 34,948,250 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21338,197,507 - 38,209,005 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ITIH4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12214,194,979 - 14,216,180 (-)NCBI
ChlSab1.1 Ensembl2214,195,701 - 14,213,603 (-)Ensembl
Itih4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248224,397,704 - 4,411,562 (+)NCBI

Position Markers
RH128651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2166,095,503 - 6,095,686 (+)MAPPER
Rnor_6.0166,985,332 - 6,985,514NCBIRnor6.0
Rnor_5.0166,912,068 - 6,912,250UniSTSRnor5.0
RGSC_v3.4166,334,576 - 6,334,758UniSTSRGSC3.4
Celera169,093,890 - 9,094,072UniSTS
RH 3.4 Map1645.0UniSTS
Cytogenetic Map16p16UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16110660736Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16124228366Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16127556253Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16127556253Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16127556253Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16131816439Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16133160624Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16134465490Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16141240937Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16141240937Rat
631561Hcuc2Hepatic copper content QTL 22.8hepatic copper amount (VT:0003065)liver total copper weight (CMO:0001507)16141240957Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)1624459345244593Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)16109005486162972Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16134074146340741Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)16155018749247447Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)16155018763210301Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16155018763210301Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)16155018763210301Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)16155018763210301Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16172829746728297Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16329668817464293Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16413635523105837Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16413635545905331Rat
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16501380218360147Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16501380245905331Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16501380245905331Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16501380245905331Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16501380250013802Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16501380250169318Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16501380252144919Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16501380264012784Rat
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16509870419398181Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:72
Count of miRNA genes:33
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000048344, ENSRNOT00000061294
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 27 27 21
Medium 16 14 14 2 2
Low 11 20 6 18 6 8 8 60 25 27 9 8
Below cutoff 3 32 1 2 14 10 10

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000048344   ⟹   ENSRNOP00000048673
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl166,970,382 - 6,985,388 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000061294   ⟹   ENSRNOP00000058007
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl166,970,342 - 6,985,579 (+)Ensembl
RefSeq Acc Id: NM_019369   ⟹   NP_062242
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2166,080,539 - 6,095,710 (+)NCBI
Rnor_6.0166,970,367 - 6,985,538 (+)NCBI
Rnor_5.0166,896,782 - 6,912,274 (+)NCBI
RGSC_v3.4166,319,608 - 6,334,782 (+)RGD
Celera169,093,866 - 9,109,046 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062242 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH89806 (Get FASTA)   NCBI Sequence Viewer  
  CAA72155 (Get FASTA)   NCBI Sequence Viewer  
  EDL88978 (Get FASTA)   NCBI Sequence Viewer  
  EDL88979 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_062242   ⟸   NM_019369
- Peptide Label: precursor
- UniProtKB: Q5EBC0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000058007   ⟸   ENSRNOT00000061294
RefSeq Acc Id: ENSRNOP00000048673   ⟸   ENSRNOT00000048344
Protein Domains
VIT   VWFA

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13699915
Promoter ID:EPDNEW_R10439
Type:multiple initiation site
Name:Itih4_1
Description:inter-alpha-trypsin inhibitor heavy chain family, member 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0166,970,355 - 6,970,415EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
16 6902231 6902232 T G snv SR/JrHsd (MCW), ACI/EurMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
16 6324736 6324737 T G snv SR/JrHsd (MCW), ACI/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70881 AgrOrtholog
Ensembl Genes ENSRNOG00000017381 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000048673 UniProtKB/TrEMBL
  ENSRNOP00000058007 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000048344 UniProtKB/TrEMBL
  ENSRNOT00000061294 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7326076 IMAGE-MGC_LOAD
InterPro ITI_HC_C UniProtKB/TrEMBL
  VIT UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:54404 UniProtKB/TrEMBL
MGC_CLONE MGC:108706 IMAGE-MGC_LOAD
NCBI Gene 54404 ENTREZGENE
Pfam ITI_HC_C UniProtKB/TrEMBL
  VIT UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
PhenoGen Itih4 PhenoGen
PROSITE VIT UniProtKB/TrEMBL
  VWFA UniProtKB/TrEMBL
SMART VIT UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
Superfamily-SCOP SSF53300 UniProtKB/TrEMBL
UniProt D3ZFC6_RAT UniProtKB/TrEMBL
  O35802_RAT UniProtKB/TrEMBL
  Q5EBC0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-10 Itih4  inter-alpha-trypsin inhibitor heavy chain 4  Itih4  inter-alpha-trypsin inhibitor heavy chain family, member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-01-17 Itih4  inter-alpha-trypsin inhibitor heavy chain family, member 4  Itih4  inter alpha-trypsin inhibitor, heavy chain 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-07-09 Itih4  inter alpha-trypsin inhibitor, heavy chain 4      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains collagen-like pattern with 6 repeats of a Gly-X-Pro motifs 633094
gene_domains only member of inter-alpha-inhibitor family to have a Pro-rich region (PRR) in its C-terminal 633094
gene_regulation mRNA up-regulated by an acute, systemic inflammation in the liver 633094