Rad21l1 (RAD21 cohesin complex component like 1) - Rat Genome Database

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Gene: Rad21l1 (RAD21 cohesin complex component like 1) Rattus norvegicus
Analyze
Symbol: Rad21l1
Name: RAD21 cohesin complex component like 1
RGD ID: 1587557
Description: Predicted to enable chromatin binding activity. Predicted to be involved in replication-born double-strand break repair via sister chromatid exchange and sister chromatid cohesion. Predicted to act upstream of or within several processes, including double-strand break repair via homologous recombination; homologous chromosome segregation; and seminiferous tubule development. Predicted to be located in lateral element. Predicted to be part of meiotic cohesin complex. Orthologous to human RAD21L1 (RAD21 cohesin complex component like 1); INTERACTS WITH 6-propyl-2-thiouracil; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: double-strand-break repair protein rad21-like protein 1; LOC689823; RAD21-like 1; RAD21-like 1 (S. pombe); similar to RAD21 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83160,620,500 - 160,648,716 (-)NCBIGRCr8
mRatBN7.23140,160,128 - 140,188,324 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3140,160,118 - 140,188,298 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.03147,163,335 - 147,191,008 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3147,163,838 - 147,188,929 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03153,516,755 - 153,544,210 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera3138,919,326 - 138,946,960 (-)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21242291   PMID:21527826   PMID:21743440   PMID:22164254   PMID:22711701   PMID:24589552   PMID:24797475  


Genomics

Comparative Map Data
Rad21l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83160,620,500 - 160,648,716 (-)NCBIGRCr8
mRatBN7.23140,160,128 - 140,188,324 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3140,160,118 - 140,188,298 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.03147,163,335 - 147,191,008 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3147,163,838 - 147,188,929 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03153,516,755 - 153,544,210 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera3138,919,326 - 138,946,960 (-)NCBICelera
Cytogenetic Map3q41NCBI
RAD21L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38201,226,044 - 1,255,876 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl201,226,044 - 1,296,421 (+)EnsemblGRCh38hg38GRCh38
GRCh37201,206,688 - 1,236,520 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36201,154,700 - 1,183,101 (+)NCBINCBI36Build 36hg18NCBI36
Celera201,303,090 - 1,331,471 (+)NCBICelera
Cytogenetic Map20p13NCBI
HuRef201,161,202 - 1,187,291 (+)NCBIHuRef
CHM1_1201,206,765 - 1,235,147 (+)NCBICHM1_1
T2T-CHM13v2.0201,273,334 - 1,303,183 (+)NCBIT2T-CHM13v2.0
Rad21l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392151,486,286 - 151,512,542 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2151,487,324 - 151,510,453 (-)EnsemblGRCm39 Ensembl
GRCm382151,644,366 - 151,670,622 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2151,645,404 - 151,668,533 (-)EnsemblGRCm38mm10GRCm38
MGSCv372151,471,140 - 151,494,269 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362151,336,845 - 151,359,974 (-)NCBIMGSCv36mm8
Celera2157,462,516 - 157,485,682 (-)NCBICelera
Cytogenetic Map2G3NCBI
cM Map274.83NCBI
Rad21l1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955596457,835 - 486,046 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955596455,932 - 485,853 (+)NCBIChiLan1.0ChiLan1.0
RAD21L1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2212,263,920 - 2,296,123 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1202,260,749 - 2,292,952 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0201,385,935 - 1,413,301 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1201,153,378 - 1,179,801 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl201,153,384 - 1,231,383 (+)Ensemblpanpan1.1panPan2
RAD21L1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12419,741,398 - 19,771,675 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2419,699,792 - 19,771,679 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2419,395,679 - 19,425,941 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02420,431,965 - 20,462,227 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2420,387,160 - 20,462,205 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12419,709,731 - 19,739,954 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02419,815,102 - 19,845,324 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02420,246,438 - 20,276,321 (-)NCBIUU_Cfam_GSD_1.0
Rad21l1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640168,981,343 - 169,006,392 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648517,413,006 - 17,435,951 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648517,413,006 - 17,435,951 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAD21L1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11734,035,526 - 34,064,215 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21738,591,104 - 38,611,242 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RAD21L1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1255,299,061 - 55,335,200 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl255,307,711 - 55,333,874 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660871,712,827 - 1,741,923 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rad21l1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247412,485,471 - 2,542,500 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247412,486,612 - 2,542,452 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rad21l1
79 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:67
Count of miRNA genes:58
Interacting mature miRNAs:59
Transcripts:ENSRNOT00000055455
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3140069424146976080Rat


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
Medium 5
Low 48 22
Below cutoff 1 1 17 11 13 11 1 1 26 20 12 2 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000055455   ⟹   ENSRNOP00000052321
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3140,160,118 - 140,188,298 (-)Ensembl
Rnor_6.0 Ensembl3147,163,838 - 147,188,929 (-)Ensembl
RefSeq Acc Id: XM_001072159   ⟹   XP_001072159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83160,620,500 - 160,648,716 (-)NCBI
mRatBN7.23140,160,128 - 140,188,324 (-)NCBI
Rnor_6.03147,163,335 - 147,191,008 (-)NCBI
Rnor_5.03153,516,755 - 153,544,210 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_001072159 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052321
  ENSRNOP00000052321.4
Reference Protein Sequences
RefSeq Acc Id: XP_001072159   ⟸   XM_001072159
- UniProtKB: D4ADQ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000052321   ⟸   ENSRNOT00000055455
Protein Domains
Rad21/Rec8-like protein C-terminal eukaryotic   Rad21/Rec8-like protein N-terminal

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:1587557 AgrOrtholog
BioCyc Gene G2FUF-47306 BioCyc
Ensembl Genes ENSRNOG00000022335 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055455.4 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.580 UniProtKB/TrEMBL
InterPro NXP1_M-like UniProtKB/TrEMBL
  Rad21/Rec8-like UniProtKB/TrEMBL
  Rad21/Rec8_C UniProtKB/TrEMBL
  Rad21_Rec8_N UniProtKB/TrEMBL
  ScpA-like_C UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
NCBI Gene 689823 ENTREZGENE
PANTHER DOUBLE-STRAND-BREAK REPAIR PROTEIN RAD21-LIKE PROTEIN 1 UniProtKB/TrEMBL
  PTHR12585 UniProtKB/TrEMBL
Pfam Rad21_Rec8 UniProtKB/TrEMBL
  Rad21_Rec8_N UniProtKB/TrEMBL
PhenoGen Rad21l1 PhenoGen
RatGTEx ENSRNOG00000022335 RatGTEx
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt D4ADQ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-01 Rad21l1  RAD21 cohesin complex component like 1  Rad21l1  RAD21-like 1 (S. pombe)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Rad21l1  RAD21-like 1 (S. pombe)  LOC689823  similar to RAD21 homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689823  similar to RAD21 homolog  LOC682264  similar to Double-strand-break repair protein rad21 homolog (Pokeweed agglutinin-binding protein 29) (PW29) (SCC1 homolog)  Data merged from RGD:1585728 1643240 APPROVED
2006-11-19 LOC689823  similar to RAD21 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682264  similar to Double-strand-break repair protein rad21 homolog (Pokeweed agglutinin-binding protein 29) (PW29) (SCC1 homolog)      Symbol and Name status set to provisional 70820 PROVISIONAL