HsaINT1042982 @ hg38
Intron Retention
Gene
ENSG00000138385 | SSB
Description
Sjogren syndrome antigen B [Source:HGNC Symbol;Acc:HGNC:11316]
Coordinates
chr2:169806785-169807071:+
Coord C1 exon
chr2:169806785-169806892
Coord A exon
chr2:169806893-169806970
Coord C2 exon
chr2:169806971-169807071
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
ATTTTCCTTCCTTTTTACAGGGA
3' ss Score
11.13
Exon sequences
Seq C1 exon
AAAGGCTTCCCAACTGATGCAACTCTTGATGACATAAAAGAATGGTTAGAAGATAAAGGTCAAGTACTAAATATTCAGATGAGAAGAACATTGCATAAAGCATTTAAG
Seq A exon
GTATGATAATACAGACTTTTTCTAGTTTTAAAATATATGGGACATAACTTAAAAAAATATTTTCCTTCCTTTTTACAG
Seq C2 exon
GGATCAATTTTTGTTGTGTTTGATAGCATTGAATCTGCTAAGAAATTTGTAGAGACCCCTGGCCAGAAGTACAAAGAAACAGACCTGCTAATACTTTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138385:ENST00000260956:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(50.7=100)
A:
NA
C2:
PF0007617=RRM_1=PD(42.0=85.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCCCAACTGATGCAACT
R:
TGGCCAGGGGTCTCTACAAAT
Band lengths:
170-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains