GgaINT0116820 @ galGal3
Intron Retention
Gene
ENSGALG00000015842 | TIAM1
Description
NA
Coordinates
chr1:107932984-107933689:-
Coord C1 exon
chr1:107933510-107933689
Coord A exon
chr1:107933053-107933509
Coord C2 exon
chr1:107932984-107933052
Length
457 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGG
5' ss Score
2.67
3' ss Seq
ATCTCTTTCTGAACTTTTAGGAC
3' ss Score
10.4
Exon sequences
Seq C1 exon
AGTACAGAGCAGGTCGCCGCTTTCTGTCGCAGTCTTCATGAGATGAACCCTTCTGACTCAAGTGCACATCCTCAGGAATTCACAGGACCCCAACTGGCCACCATGAGACAGCTCACAGATGCAGATAAACTGCGAAAGGTCATCTGCGAACTTCTCGAAACAGAGCGCACCTACGTCAAA
Seq A exon
GTAGGGAATTTGATGTGTTGTTTCACTCTGCTCACGTTTCTCCTTCTGGATAGCCTTGTTAGCCACTTCTCTACTTCAAGTCCCATTTTGTGCACGTATCTCTTATTGGATTCTACAGTCTGTGACTATATACTATACCATTCTATATGCTATAGAATAGTAATTTAAGCAACCCTCTGAAATAAGTAGGCATTCAAAACTGATACTCAGTAATCTTGAAATTTCTTTACTTGACTGAAATGCAGAGTAACAGTGGTCTGTGAAATCTGGTATTGATTTTCTTAGTAAACCTGTGTAAGTGTCTCCTCTTACACAGTCATAGATTCAGTGAAATCTGACTCGTCTTCTGTGTGGGGAGGTAAAATCCATACACTGGGAAAACTGTGATCTTAACCACTTCAGTAAATATTCAGAGAGTTCAAGGAACCGACATGGGAATCTCTTTCTGAACTTTTAG
Seq C2 exon
GACCTAAACTGCCTAATGGAGAGATACCTGAAGCCTCTACAAAAGGAAACGTTCCTCACACCAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015842:ENSGALT00000025542:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.439 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=PU(13.3=21.7)
A:
NA
C2:
PF0062115=RhoGEF=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTACAGAGCAGGTCGCCG
R:
CTCATCTGGTGTGAGGAACGT
Band lengths:
249-706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]