DreINT0134417 @ danRer10
Intron Retention
Gene
ENSDARG00000010956 | sh3glb1b
Description
SH3-domain GRB2-like endophilin B1b [Source:ZFIN;Acc:ZDB-GENE-030131-6851]
Coordinates
chr2:16512642-16512976:+
Coord C1 exon
chr2:16512642-16512775
Coord A exon
chr2:16512776-16512883
Coord C2 exon
chr2:16512884-16512976
Length
108 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
TGATGTTTTTGTCTTCACAGAAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
GTAGTGCTCTTATTAAATGCGGGGAGACGGAAAAGCTGTTAGGCAGTGCAGAGAAAGAGTTCATTCACAGCTCTGCCATCAACTTCCTCACTCCTTTTAGGAACTTCATTGAGGGAGATTTTAAAACCATATTG
Seq A exon
GTGAGCATGCATTTTAATTCATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTTTTAAACTGTTGTATTGATGTTTTTGTCTTCACAG
Seq C2 exon
AAAGAACGGAAACTGCTTCAGAATAAGCGTCTAGATTTGGATGCAGCTAAAAACAGAATGAAGAAGGCTAGAGTGGCTGATGCTCGCTCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010956:ENSDART00000045933:4
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=0.048
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(18.3=100)
A:
NA
C2:
PF0311413=BAR=FE(12.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAGTGCTCTTATTAAATGCGGGGA
R:
GCAGAGCGAGCATCAGCC
Band lengths:
226-334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]