HsaINT0159322 @ hg38
Intron Retention
Gene
ENSG00000138385 | SSB
Description
Sjogren syndrome antigen B [Source:HGNC Symbol;Acc:HGNC:11316]
Coordinates
chr2:169798812-169801026:+
Coord C1 exon
chr2:169798812-169798976
Coord A exon
chr2:169798977-169800951
Coord C2 exon
chr2:169800952-169801026
Length
1975 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TAATTTGGGAAATTTTACAGATA
3' ss Score
3.4
Exon sequences
Seq C1 exon
GCTCCACCTCGTCCGTGGCCCTGCCCACCCAGGCCGCAAGAGCTGCCGGGACGGTCCCCATCTTCTTGGAGCGCTTTAGGCTGGCCGGCGGCGCTGGGAGGTGGAGTCGTTGCTGTTGCTGTTTGTGAGCCTGTGGCGCGGCTTCTGTGGGCCGGAACCTTAAAG
Seq A exon
GTGAGTAACTCTCGGTGGCTAATGAGAAGCTACAAAAGGGTCCGCTTTGCTGGTGCGCGACTGCGCGTTTCCGTTCTTTACTGCTTCTCGCGGCGTCCGTCCGCCCCTCGCCTTCCTCACGTTCAGGCCGAGCGCCGCGTGGGCCGCAGCCGGAGGCGGCGGAGCCGAGGGGGCGCGGGCGGCGGCGAGGCTGCCCCCGCGAGGAATGCGGGATCCTGGGGTTCCCCGCACGTGGCTGGTGCCCAGGCAGTTCCGCGGTTGCTTAGAGACGGGACTGTGGCTGCCCTCATCCCCATTGCGTCTTTTTTTTTTTTTTTTTTTTTTACCTCCACCGCCTTCTAGTCTCACCGAAGGCTTGTGGCCATCTCTGTAAAGTTTCTGGGGAGGTGGGCACGGGGTAAACGCCGGAGGGTTCTGTGGAGCCTATGGGACTGACTGGAGGCCAAAGAACTTTGGGCCGCAGATGTACACCAGCGTCACTCTTTTGGTCTGTTAGGGCCTTCATCGCTCACATCAGGTTTCAGTGTGAAACGGGAAAACGTGGGTAATATTTCATTTACAGTCGTACATTCTGGAAAAGTATCTGATGAAACGCAGTTCCAAAATTAGGCCAAATAGGTTTTGCAGGGTCTAAATAGTTATTTTATTTCATCGTTTGCTTTGTAGGGGGCCCTAGATCACGGTAGTAACTTAGGAGTGTAGATTGTGATAGACAAGACAATGCATAAAATTGAGTAATTTCTCTAGGGGGATGTGGATCACACAGTACCCCGTTGCAAGTGCTTCCTATGTGTATCCATGGTATCGAATGCAATTGCAGTGTGTCAGGGGATGCTTCCAGGAAGTGTACCTACATCAGTTCATAACTAGAGTCAACTAATGGCAATATTCTCGATGATTTGTTCACATAACTTTTGTACAGTTGGGATGACTGGGTGGCTTAGTAGAGTCCTGGAGGCAAGTACTTTGTAAGTAGAAGACTTGGTTTGTAATTTCTAGCAAACTAATAGCACAGCTTCCTTTTTTCATTGCAGTGCTAATGTCAGGAATACGAAACAGGAAACTGGCTATCCAATGTATTAGTAAATTAGTAGGCATACTCCCCAGTTTAATGTTGTGTTAGTATGACCACATTCTCCCATTTTTGTTTTCGTATGTTCCTTAGCATAGAGTATCTAAGGAACTGTAACATTTTTCACCTTAAAGTTATGATGTCTAACTTGGTAACAAGGTTTGGGTAAGTCAGTTGTGACTACATTTTAAAAGAAATGAGGCCGGGCGCGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCGCCAGAGGTCAGGAGTTCAAGACCAGTCTGACCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGTCAGCCGCAGCCGTGGTGGTGGGCGCCTGTAATCCCAGCTACTCAGGAGGCGAAGGCGGAATCGCTGGAACCTGGGAGGCAGAGGTTGCAGTGAGCCGAGATCGCACCATTGCACTCCAGCCTGGGCAACAAAAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAGAGGTGAACCCATACCAAACAAATGCACAGAGAGCCATGGTAATATACAGATAGATAGTTATCTGTTTAAAACTGGAAATGGTTGGTAAGTGATTGGAGTTTTTTTCCCTAAAGCTTGCTTGACCAGCTAAGTGAAGATAAACAGTTTCTTGTTATAGAAGATGGGGTAGTGATTTACTGAAAGACAAGTTTTTTATAGTTTTTAGATTTTTTCATCACTTATTCCAAAGTGTTGCTTTGTTGAGATATTTGAGAACTGAGTAAAGAAACTGAACCCGTGAAAATAGAAATTCTTGATTTTTTAAGAAAACGGGATATTAATACTTTGTAAACATTATCTTTCTATTCTTGAGTTTTATATAAAAAATAACTTTATGCTAATTTGGGAAATTTTACAG
Seq C2 exon
ATAGCCGCAATGGCTGAAAATGGTGATAATGAAAAGATGGCTGCCCTGGAGGCCAAAATCTGTCATCAAATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138385:ENST00000260956:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.273
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0538312=La=PU(8.5=22.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGTCCCCATCTTCTTGGA
R:
TCAATTTGATGACAGATTTTGGCCT
Band lengths:
190-2165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains