Mixl1 (Mix paired-like homeobox 1) - Rat Genome Database

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Gene: Mixl1 (Mix paired-like homeobox 1) Rattus norvegicus
Analyze
Symbol: Mixl1
Name: Mix paired-like homeobox 1
RGD ID: 1310011
Description: Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein homodimerization activity. Predicted to be involved in several processes, including endodermal cell differentiation; negative regulation of hematopoietic progenitor cell differentiation; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including cell migration involved in gastrulation; endoderm development; and positive regulation of mesoderm development. Predicted to be located in chromatin and nucleus. Orthologous to human MIXL1 (Mix paired-like homeobox); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: homeobox protein MIXL1; LOC289311; Mix paired-like homeobox; Mix1 homeobox-like 1; Mix1 homeobox-like 1 (Xenopus laevis); NEWGENE_1310011
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81394,953,907 - 94,957,938 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1394,953,907 - 94,957,938 (-)EnsemblGRCr8
mRatBN7.21392,422,031 - 92,426,065 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,422,031 - 92,426,065 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1394,927,431 - 94,931,466 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01396,327,378 - 96,331,405 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,502,070 - 93,506,101 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01397,278,258 - 97,282,299 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1398,973,041 - 98,975,426 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl1397,278,258 - 97,282,299 (-)Ensemblrn6Rnor6.0
Rnor_5.013103,973,473 - 103,977,504 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41396,427,597 - 96,431,628 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1391,967,784 - 91,971,815 (-)NCBICelera
RGSC_v3.11396,618,156 - 96,620,542 (-)NCBI
Cytogenetic Map13q26NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (IEA,ISO)
nucleoplasm  (IEA)
nucleus  (IEA,ISO)

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12117810   PMID:12619131   PMID:16403910   PMID:17151016   PMID:19038793   PMID:19711456   PMID:22164283   PMID:22265737  


Genomics

Comparative Map Data
Mixl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81394,953,907 - 94,957,938 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1394,953,907 - 94,957,938 (-)EnsemblGRCr8
mRatBN7.21392,422,031 - 92,426,065 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1392,422,031 - 92,426,065 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1394,927,431 - 94,931,466 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01396,327,378 - 96,331,405 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01393,502,070 - 93,506,101 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01397,278,258 - 97,282,299 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1398,973,041 - 98,975,426 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl1397,278,258 - 97,282,299 (-)Ensemblrn6Rnor6.0
Rnor_5.013103,973,473 - 103,977,504 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41396,427,597 - 96,431,628 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1391,967,784 - 91,971,815 (-)NCBICelera
RGSC_v3.11396,618,156 - 96,620,542 (-)NCBI
Cytogenetic Map13q26NCBI
MIXL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381226,223,664 - 226,227,060 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1226,223,618 - 226,227,060 (+)Ensemblhg38GRCh38
GRCh371226,411,365 - 226,414,761 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361224,478,006 - 224,480,136 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341222,718,117 - 222,720,248NCBI
Celera1199,602,144 - 199,604,274 (+)NCBICelera
Cytogenetic Map1q42.12NCBI
HuRef1196,928,386 - 196,930,516 (+)NCBIHuRef
CHM1_11227,684,126 - 227,686,256 (+)NCBICHM1_1
T2T-CHM13v2.01225,411,532 - 225,414,928 (+)NCBIT2T-CHM13v2.0
Mixl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391180,520,608 - 180,524,599 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1180,520,608 - 180,524,599 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381180,693,043 - 180,697,034 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1180,693,043 - 180,697,034 (-)Ensemblmm10GRCm38
MGSCv371182,623,174 - 182,627,165 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361182,529,718 - 182,533,709 (-)NCBIMGSCv36mm8
Celera1187,754,505 - 187,758,493 (-)NCBICelera
Cytogenetic Map1H4NCBI
cM Map184.46NCBI
Mixl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955489418,652 - 420,900 (+)Ensembl
ChiLan1.0NW_004955489418,650 - 422,428 (+)NCBIChiLan1.0ChiLan1.0
MIXL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2123,312,503 - 23,316,315 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1123,260,972 - 23,264,778 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01201,682,488 - 201,686,358 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11206,671,344 - 206,679,904 (+)NCBIPanPan1.1PanPan1.1panPan2
MIXL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1738,651,481 - 38,652,560 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha738,132,918 - 38,135,788 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0738,485,283 - 38,487,650 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.1738,323,946 - 38,326,305 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0738,330,845 - 38,333,218 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0738,602,254 - 38,605,581 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Mixl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934451,756,331 - 51,762,377 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365262,984,907 - 2,987,893 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365262,984,900 - 2,989,494 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MIXL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1014,102,290 - 14,105,983 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11014,102,273 - 14,105,544 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21015,667,360 - 15,670,704 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MIXL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1253,542,923 - 3,546,561 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl253,544,169 - 3,546,305 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660553,543,098 - 3,548,489 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mixl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624807322,723 - 326,149 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624807322,723 - 325,089 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Mixl1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11059,017,923 - 59,020,200 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Mixl1
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:243
Count of miRNA genes:161
Interacting mature miRNAs:187
Transcripts:ENSRNOT00000004244, ENSRNOT00000074370
Prediction methods:Microtar, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)1365613454109350286Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1368983334109350286Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1367635937109350286Rat
1576318Schws5Schwannoma susceptibility QTL 50.0351nervous system integrity trait (VT:0010566)post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)1364497900109350286Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1338975045103588154Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)1371610804109350286Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1383286150109350286Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137298450699745408Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1367635937109350286Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1364375743109350286Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1367635937109350286Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
10 11 23 74 41 44 25 34 25 161 71 5 67 47 44 19 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000004244   ⟹   ENSRNOP00000004244
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1394,953,907 - 94,957,938 (-)Ensembl
mRatBN7.2 Ensembl1392,422,031 - 92,426,065 (-)Ensembl
Rnor_6.0 Ensembl1397,278,258 - 97,282,299 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000074370   ⟹   ENSRNOP00000064882
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1398,973,041 - 98,975,426 (-)Ensembl
RefSeq Acc Id: NM_001105979   ⟹   NP_001099449
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,953,907 - 94,957,938 (-)NCBI
mRatBN7.21392,422,031 - 92,426,065 (-)NCBI
Rnor_6.01397,278,258 - 97,282,299 (-)NCBI
Rnor_5.013103,973,473 - 103,977,504 (-)NCBI
RGSC_v3.41396,427,597 - 96,431,628 (-)RGD
Celera1391,967,784 - 91,971,815 (-)RGD
Sequence:
RefSeq Acc Id: XM_063272166   ⟹   XP_063128236
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81394,954,741 - 94,957,916 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001099449 (Get FASTA)   NCBI Sequence Viewer  
  XP_063128236 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94829 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004244
  ENSRNOP00000004244.2
RefSeq Acc Id: NP_001099449   ⟸   NM_001105979
- UniProtKB: D4A558 (UniProtKB/TrEMBL),   A6JGH3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064882   ⟸   ENSRNOT00000074370
Ensembl Acc Id: ENSRNOP00000004244   ⟸   ENSRNOT00000004244
RefSeq Acc Id: XP_063128236   ⟸   XM_063272166
- Peptide Label: isoform X1
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A558-F1-model_v2 AlphaFold D4A558 1-231 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310011 AgrOrtholog
BioCyc Gene G2FUF-17116 BioCyc
Ensembl Genes ENSRNOG00000003176 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000048085 Ensembl
Ensembl Transcript ENSRNOT00000004244 ENTREZGENE
  ENSRNOT00000004244.5 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  MIXL1 UniProtKB/TrEMBL
KEGG Report rno:289311 UniProtKB/TrEMBL
NCBI Gene 289311 ENTREZGENE
PANTHER HOMEOBOX PROTEIN MIXL1 UniProtKB/TrEMBL
  PTHR47656 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
PhenoGen Mixl1 PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003176 RatGTEx
  ENSRNOG00000048085 RatGTEx
SMART HOX UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A6JGH3 ENTREZGENE, UniProtKB/TrEMBL
  D4A558 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Mixl1  Mix paired-like homeobox 1  NEWGENE_1310011  Mix paired-like homeobox  Data merged from RGD:11496769 737654 PROVISIONAL
2016-08-02 NEWGENE_1310011  Mix paired-like homeobox      Symbol and Name status set to provisional 70820 PROVISIONAL
2011-08-02 Mixl1  Mix paired-like homeobox 1  Mixl1  Mix1 homeobox-like 1 (Xenopus laevis)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Mixl1  Mix1 homeobox-like 1 (Xenopus laevis)   Mixl1_predicted  Mix1 homeobox-like 1 (Xenopus laevis) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Mixl1_predicted  Mix1 homeobox-like 1 (Xenopus laevis) (predicted)      Symbol and Name status set to approved 70820 APPROVED