GgaINT0116830 @ galGal3
Intron Retention
Gene
ENSGALG00000015842 | TIAM1
Description
NA
Coordinates
chr1:107919572-107921934:-
Coord C1 exon
chr1:107921762-107921934
Coord A exon
chr1:107919790-107921761
Coord C2 exon
chr1:107919572-107919789
Length
1972 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TTATCTTTGTGTGTGCACAGTGT
3' ss Score
8.53
Exon sequences
Seq C1 exon
TTCACCAGAACACAGGAAGGACTTTCTGAAGGCAGTGCATTCGATTCTGCGGGATAAGCACAGAAGGCAGCTTCTTAAAACCGAAAGTTTGCCCTCATCCCAGCAATATGTTCCTTTTGGTGGAAAAAGATTGTGTGCTCTAAAAGGTGCAAGGCCAGCCATGAACAGGGCAG
Seq A exon
GTACTGTAGGGCTACAGACTTTCAAGATCCCAGTAACCCCAGCACCATTGTAGGATGTGGTGGTGTCTGATATTTGCACATTACTGTTGGCGTTCTCTCTTGTGTATGTAAAAAAAAACAACCTGCTGTTTTTCCATGCTTCACCTCTTCCGGAGCCTTAAATTGCCTCTATTTACCTTGCTTTGCACTCGAGGCTCAGCTTCAGAGCGGTCCTCCTGGCATGGAAGGGAGAAAAGGGATTCCTGTCGATACCAATTGGCTGTGCACTTTAATCTGGAAATGGGTCTCAACTGAAGAAAGCAGAAGCCCACTGCATATTTTTTTAAACAAAAGCATGTACAGAATTTTTGAACTAACCCAAGCACTTTTAAAGTAAAATGCACAAGAAAGATCTGCGTGAGGGATGTGGTTTGAAGAGACAGCTCGTTATGCCCTCCATTTTAGCCTTTTCAGCTTTATGGCTTATAAAGGCACGTGCTTCTACTTCTCGCACTTTGAGAGGCATACGTTTGATATTCTTATTGTAATGGTCTGTCCTAAACCGTGGATTTTCCTTTTCAGTTGACTGCAGGCAAAAGCAGTGAGAAAATCCCAGGGAAAAGCAGGTTTTCATTTTCAGAACACTAGATGATGGAGGGATGAAACACTTGCTTCCAACTGAAAAATACACGGCCCCGCTACGTGTTTTGTTCTGGTCTGTTTTTTGTTTTTACTTTTATTTTTTTCTGCTCATTAGATCCAGCAGTGTAGACAATCAGGCTTTCTGTTCCTCTTCTGTAATGGGCAGGCCAGACCAATAGCATTTTTAGCAGCATGGCTTCTCAGTTGAAGCGATGTTAGCCATCTGCTTCACAGACACTTAAAATCATAGGCAAGAAGATGCGAGGGAAGGCCAAATTGCAATGGTTTTAGCAGTGCTCCTTCAGTCAGCCTGTGGGGCTGATGTGTGGATGCCAAACCTTATTTTATTTTGGCTTGTCAGTGCATTTGCGTGATGAATTCTGCTGAGATGAAAATCTTTCGAAGTCCAGACCTTTTGCTATAGTTAAAATCTGCAACTGCTTAGCTGCTATCCTTTGTGCATGTTTTGAGGCTCAGGGATATTAAAATATAACCCATGCTCCCCAGGCTGCTAGAGATCAGTGAGTATTCTGCAAGTGCTAAGGTGCTGTTGAGTGAAGAAGGACAAACTATAACCTCACAGTTCACCTGCTTGCAACAGAACTGAGTGTGTGCACGTAAAGCACTGGGATGCTGCAGGTCCTCCTGCTGCAGGACTCATCCCCTGCTTTTTTGTCACACAAGCCTCTTAGGATGATGTTCCAACACAGAAGATGTGAATTTGCTAATTGGGCCATTTGCAAAAGCTAGTAGACCAGCTGATGCTGAGTAAGGAACTTCTGAAAGGGTTTTTTTGTTGTTGGTTTTTTTTTCCTCTCTCTTCCCTCCCTCTTCCCTGGCAGGGAGAAAGTGGAGAAGAGGCTAGCACAGCTTGGATCGAAAACACACCATAAATAAAGCAACAATTGCAGCACCTTCAGTAATGAGGTAGCTGTTTGGAAACCTGTAATGTTGCTCTTACCCGAGACAAAGCAGTTTCCCATATTGAGGTGTAAAGCTAGCTGGGTTTTGCTGTGTACTCACGGCAGGGTGCTTCTTGCAAGAAGCTGAGCTGAGCAGATGCACTTTGTGCTGGCTGGCTGCCTACCACTTAGGAGGAACAGTAATTGTGGGCCATTATCCCAGCCATGGATCTGAGTAGCAGAAACTCCTTTTTCAGCTGGAAAGAGACTTGTGCCGAGGAGCTGAGTGAAGCCCACAGGGAGGATGCGGAATGACTAGGTCATTCTTGGGAGTCTGCCCGGTTTGTGCCTAGCGGTGTTAAATAAAGGGCCCTTGGAAGACTAACTTTTTAGAGAGAATTGTACCGTGTGTAAAAAGCCTCTGGGGTTTTATCTTTGTGTGTGCACAG
Seq C2 exon
TGTCAGCCCCAAGCAAGTCTCTTGGGAGGAGGAGGCGGCGGCTGGCCCGAAACAGGTTTACCATTGACTCAGATGCCGTCTTCACAAGCAGCCCCGAAAAAGAGCCCCAGCAGCCCACGCACGGTGGGGACACTGACCGCTGGGTAGAGGAACAGTTTGACCTTGCTCAGTATGAGGAGCAGGAGGACATCAAGGAAACGGACATCCTCAGCGATGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015842:ENSGALT00000025542:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.685
Domain overlap (PFAM):
C1:
PF0016924=PH=PD(12.9=28.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTGCGGGATAAGCACAGAAGG
R:
CATCGCTGAGGATGTCCGTTT
Band lengths:
343-2315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]