YJU2 (YJU2 splicing factor homolog) - Rat Genome Database

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Gene: YJU2 (YJU2 splicing factor homolog) Sus scrofa
Analyze
Symbol: YJU2
Name: YJU2 splicing factor homolog
RGD ID: 13852594
Description: ENCODES a protein that exhibits metal ion binding (inferred); INVOLVED IN generation of catalytic spliceosome for first transesterification step (inferred); mRNA processing (inferred); mRNA splicing, via spliceosome (inferred); ASSOCIATED WITH amenorrhea (ortholog); genetic disease (ortholog); FOUND IN nucleus (inferred); spliceosomal complex (inferred); U2-type catalytic step 1 spliceosome (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: CCDC94; coiled-coil domain containing 94; coiled-coil domain-containing protein 94
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl274,509,739 - 74,528,300 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1274,507,830 - 74,528,333 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2275,001,394 - 75,022,973 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
YJU2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl274,509,739 - 74,528,300 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1274,507,830 - 74,528,333 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2275,001,394 - 75,022,973 (-)NCBISscrofa10.2Sscrofa10.2susScr3
YJU2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,247,080 - 4,269,088 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl194,247,080 - 4,269,088 (+)EnsemblGRCh38hg38GRCh38
GRCh37194,247,077 - 4,269,085 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,198,111 - 4,220,085 (+)NCBINCBI36Build 36hg18NCBI36
Celera194,186,494 - 4,208,470 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef194,010,325 - 4,032,247 (+)NCBIHuRef
CHM1_1194,246,732 - 4,268,702 (+)NCBICHM1_1
T2T-CHM13v2.0194,229,720 - 4,252,363 (+)NCBIT2T-CHM13v2.0
Yju2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391756,266,187 - 56,274,951 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1756,266,099 - 56,275,285 (+)EnsemblGRCm39 Ensembl
GRCm381755,959,187 - 55,967,951 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1755,959,099 - 55,968,285 (+)EnsemblGRCm38mm10GRCm38
MGSCv371756,098,610 - 56,107,374 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361755,552,467 - 55,561,574 (+)NCBIMGSCv36mm8
Celera1759,377,714 - 59,386,478 (+)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.08NCBI
Yju2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89876,790 - 886,687 (+)NCBIGRCr8
mRatBN7.29789,603 - 799,505 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9789,606 - 799,496 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,236,798 - 1,246,612 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,583,974 - 6,593,798 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,541,835 - 5,551,650 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0911,098,914 - 11,108,806 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl911,098,924 - 11,108,741 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0910,084,078 - 10,093,964 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,706,956 - 7,716,779 (-)NCBICelera
Cytogenetic Map9q11NCBI
Yju2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554954,592,523 - 4,606,005 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554954,591,242 - 4,605,403 (-)NCBIChiLan1.0ChiLan1.0
YJU2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2208,644,495 - 8,666,464 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1197,874,484 - 7,896,519 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0193,270,432 - 3,292,457 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1194,217,448 - 4,239,684 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl194,217,457 - 4,239,684 (+)Ensemblpanpan1.1panPan2
YJU2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12055,367,512 - 55,380,755 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2055,368,480 - 55,380,679 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2055,095,555 - 55,108,798 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02056,026,737 - 56,039,990 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2056,026,667 - 56,039,942 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12055,086,676 - 55,099,906 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,567,887 - 55,581,120 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02055,766,561 - 55,779,809 (-)NCBIUU_Cfam_GSD_1.0
Yju2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118215,395,972 - 215,407,869 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365882,427,126 - 2,440,939 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365882,426,786 - 2,438,811 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
YJU2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.163,995,769 - 4,013,288 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660814,200,131 - 4,223,532 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Yju2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248285,381,617 - 5,397,782 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248285,381,387 - 5,397,893 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in YJU2
333 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1 1
Low 10 4 3 4 2 22 2 3 3
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000014745   ⟹   ENSSSCP00000014347
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl274,509,739 - 74,528,291 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000069355   ⟹   ENSSSCP00000072731
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl274,509,716 - 74,528,280 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000072636   ⟹   ENSSSCP00000068755
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl274,511,579 - 74,528,300 (-)Ensembl
RefSeq Acc Id: XM_003123059   ⟹   XP_003123107
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1274,510,072 - 74,528,333 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013994769   ⟹   XP_013850223
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1274,507,830 - 74,528,333 (-)NCBI
Sequence:
RefSeq Acc Id: XP_013850223   ⟸   XM_013994769
- Peptide Label: isoform X1
- UniProtKB: A0A4X1VTX3 (UniProtKB/TrEMBL),   A0A8D0NN65 (UniProtKB/TrEMBL),   F1S7N8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003123107   ⟸   XM_003123059
- Peptide Label: isoform X2
- UniProtKB: F1S7N8 (UniProtKB/TrEMBL),   A0A480PXK7 (UniProtKB/TrEMBL),   A0A4X1VM71 (UniProtKB/TrEMBL),   A0A8D0NN65 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000072731   ⟸   ENSSSCT00000069355
RefSeq Acc Id: ENSSSCP00000014347   ⟸   ENSSSCT00000014745
RefSeq Acc Id: ENSSSCP00000068755   ⟸   ENSSSCT00000072636


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000013499 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005036942 UniProtKB/TrEMBL
  ENSSSCG00015039281 UniProtKB/TrEMBL
  ENSSSCG00025024117 UniProtKB/TrEMBL
  ENSSSCG00030042409 UniProtKB/TrEMBL
  ENSSSCG00035017030 UniProtKB/TrEMBL
  ENSSSCG00040043429 UniProtKB/TrEMBL
  ENSSSCG00045018563 UniProtKB/TrEMBL
  ENSSSCG00050049762 UniProtKB/TrEMBL
  ENSSSCG00055027102 UniProtKB/TrEMBL
  ENSSSCG00060005897 UniProtKB/TrEMBL
  ENSSSCG00065026881 UniProtKB/TrEMBL
  ENSSSCG00070026301 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000014745 ENTREZGENE
  ENSSSCT00000014745.4 UniProtKB/TrEMBL
  ENSSSCT00000072636.1 UniProtKB/TrEMBL
  ENSSSCT00005058987.1 UniProtKB/TrEMBL
  ENSSSCT00005059016.1 UniProtKB/TrEMBL
  ENSSSCT00005059037.1 UniProtKB/TrEMBL
  ENSSSCT00015052252.1 UniProtKB/TrEMBL
  ENSSSCT00015052297.1 UniProtKB/TrEMBL
  ENSSSCT00025032586.1 UniProtKB/TrEMBL
  ENSSSCT00025032633.1 UniProtKB/TrEMBL
  ENSSSCT00025032693.1 UniProtKB/TrEMBL
  ENSSSCT00025032750.1 UniProtKB/TrEMBL
  ENSSSCT00030059015.1 UniProtKB/TrEMBL
  ENSSSCT00030059022.1 UniProtKB/TrEMBL
  ENSSSCT00030059038.1 UniProtKB/TrEMBL
  ENSSSCT00030059049.1 UniProtKB/TrEMBL
  ENSSSCT00035021825.1 UniProtKB/TrEMBL
  ENSSSCT00035021830.1 UniProtKB/TrEMBL
  ENSSSCT00040058130.1 UniProtKB/TrEMBL
  ENSSSCT00040058218.1 UniProtKB/TrEMBL
  ENSSSCT00040058294.1 UniProtKB/TrEMBL
  ENSSSCT00040058376.1 UniProtKB/TrEMBL
  ENSSSCT00045031572.1 UniProtKB/TrEMBL
  ENSSSCT00050067681.1 UniProtKB/TrEMBL
  ENSSSCT00050067688.1 UniProtKB/TrEMBL
  ENSSSCT00050067701.1 UniProtKB/TrEMBL
  ENSSSCT00050067710.1 UniProtKB/TrEMBL
  ENSSSCT00055053558.1 UniProtKB/TrEMBL
  ENSSSCT00055053605.1 UniProtKB/TrEMBL
  ENSSSCT00060007460.1 UniProtKB/TrEMBL
  ENSSSCT00060007464.1 UniProtKB/TrEMBL
  ENSSSCT00060007471.1 UniProtKB/TrEMBL
  ENSSSCT00060007475.1 UniProtKB/TrEMBL
  ENSSSCT00065036165.1 UniProtKB/TrEMBL
  ENSSSCT00065036169.1 UniProtKB/TrEMBL
  ENSSSCT00070052713.1 UniProtKB/TrEMBL
  ENSSSCT00070052714.1 UniProtKB/TrEMBL
InterPro CWC16 UniProtKB/TrEMBL
  Yju2 UniProtKB/TrEMBL
KEGG Report ssc:100522786 UniProtKB/TrEMBL
NCBI Gene YJU2 ENTREZGENE
PANTHER PTHR12111 UniProtKB/TrEMBL
  SPLICING FACTOR YJU2 UniProtKB/TrEMBL
Pfam DUF572 UniProtKB/TrEMBL
UniProt A0A480PXK7 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VM71 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VTX3 ENTREZGENE, UniProtKB/TrEMBL
  A0A5G2QX80_PIG UniProtKB/TrEMBL
  A0A8D0K7R9_PIG UniProtKB/TrEMBL
  A0A8D0K8L5_PIG UniProtKB/TrEMBL
  A0A8D0K9N3_PIG UniProtKB/TrEMBL
  A0A8D0NN65 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0R911_PIG UniProtKB/TrEMBL
  A0A8D0RK29_PIG UniProtKB/TrEMBL
  A0A8D0U312_PIG UniProtKB/TrEMBL
  A0A8D0YWJ3_PIG UniProtKB/TrEMBL
  A0A8D1C8W7_PIG UniProtKB/TrEMBL
  A0A8D1KC12_PIG UniProtKB/TrEMBL
  A0A8D1MWZ9_PIG UniProtKB/TrEMBL
  F1S7N8 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:95033 ENTREZGENE