HsaINT0148710 @ hg19
Intron Retention
Gene
ENSG00000156304 | SFRS15
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:19304]
Coordinates
chr21:33074557-33076239:-
Coord C1 exon
chr21:33076078-33076239
Coord A exon
chr21:33074693-33076077
Coord C2 exon
chr21:33074557-33074692
Length
1385 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAA
5' ss Score
7.08
3' ss Seq
GTGTTTCTCATGCGTAACAGAGT
3' ss Score
6.17
Exon sequences
Seq C1 exon
TGTAAACCAGAATACAAGGTTCCGGGATTATATGTAATTGACTCAATTGTGCGACAGTCTCGTCATCAGTTTGGAACTGATAAAGATGTTTTTGGGCCAAGATTCTCTAAAAACATAACTGCCACATTCCAATATTTATATCTTTGTCCATCTGAAGATAAG
Seq A exon
GTATAATTAATTTTTAAACTAAAACTTGTATTCTTTAAAAAATATTATTTTAAATGTATGTTAGATATTTGGAGCCTACTATATTACCAGATAAGATTTTCATGTAGCGATGTCTGTGAGCTTGAAACAAAACAGTTTTTTTCTTCAGTGGTCATTTCGTGTTTATTTTCTTATGAGTTCTTCAGGATTATCAGTCATACTGTTGAAATATGACAGGAACAAAATTTATAGAATCAAAGAGTTTAATAGTGGTTGCCAGGGACTAGGGGTAAGGGAAACATTAGGAGCTGCTAATCAATAGGTATGACATTTCAGTTAAGCAAGATGAATAGGTTGTAGAGATCTGCTGAACAACCTTGTACCTATAGTTAACAATTCTGTATTGTACACTTAAAAATTGGCTAAGTGAGTAGATCTCATGTTAAGTGTTCTTATCACAGTAAAGTAAAATTTTTAAAAAATAATATGAAAGGCGCATCATCTTTAAAGAAGATATCGTTGGAAAGATGTGCTTGTGTAGTTGAGTAAGGAAGAAATTGTGCAGTAGGAAAAGACAGCGATCATCTGATTGTGGTTATTCCAGAAAGAAAGAGCCAATAATAGATGTTCTTCCCCAACATATAGAGATACTAAAGTTTAAGTGGTATTCATTAGCAATCAGACTACAGTATTTAATTCCTTATATATACAGTTGGCTTTACAACATACTATATAAAAGTAGAAAAACATTACAGATATAGTAGCTGACTATAAGTAGATAGGAGGAATTATACTAGTAAACATACTCAGAATAATGAAGAACGGAGACATTTACAATAAACAGCATATAAATTTCAGTGTCATAGGTGCTGTTTTTATATTCTTGGAAGAATGCTCTTGTGGGAAAAATACACCCAAAACCAAGATGATTCCTTGAGTAAAGATAAAAGTTGTGCCCATGAATAACATATATTCTCTGGATCTTCATATTTGCTTGGCCACATAATTTAAGTTTTGACTACAGGCCAGTTGCTTAAATATTTTAGCTGTTATAATTACTCTGAAGAAATTCTCCTTCATTTACTTCAAGATAGCTTTTTTTTGGGGGGTCAGTGATAGTTTATTTGTAACCATAAGTAAAATAAAATGAAAATGTCAAATAATAAATTTCTTTTTATTGTCTGGGTCTATAGTCCATCTCTGTTCCTTACTCTAGATGATACCACTGAAGAAAGACTAATTAGTTTAACCAGGTTGTAATTCTGATTTTTTTTTTTCCTTGTTTATGAAACACACATAGTATGGAAATATTAGCCTAGGGAGTTTTCCTCTCTTTTTTTTGTAAGAGTATAATCGGTTATTTATGCAAATATTTATTGTATATTTGTGTTTCTCATGCGTAACAG
Seq C2 exon
AGTAAAATAGTTCGTGTGCTGAACCTTTGGCAAAAAAATGGAGTGTTCAAAATTGAAATTATTCAACCTCTTTTGGACATGGCAGCGGGAACCAGTAATGCAGCCCCAGTAGCAGAAAATGTTACCAATAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000156304-SFRS15:NM_001145444:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.261
Domain overlap (PFAM):
C1:
PF048188=CTD_bind=PU(72.7=88.9)
A:
NA
C2:
PF048188=CTD_bind=PD(24.2=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCAGAATACAAGGTTCCGGG
R:
TGGTAACATTTTCTGCTACTGGGG
Band lengths:
286-1671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)