GgaINT0116810 @ galGal4
Intron Retention
Gene
ENSGALG00000015842 | TIAM1
Description
T-cell lymphoma invasion and metastasis 1 [Source:HGNC Symbol;Acc:HGNC:11805]
Coordinates
chr1:103847710-103849555:-
Coord C1 exon
chr1:103849331-103849555
Coord A exon
chr1:103847896-103849330
Coord C2 exon
chr1:103847710-103847895
Length
1435 bp
Sequences
Splice sites
5' ss Seq
CAAGTAATC
5' ss Score
0.66
3' ss Seq
TCGATCTTTTCTGTGTACAGATT
3' ss Score
7.87
Exon sequences
Seq C1 exon
ACCTCTAGCCAGACCGAACTCGAGAACTGGATCACTGCAATCCATTCAGCTTGTGCAACCGCGGTTGCAAGGCAGCATCACAAAGAGGACACTGTCAAGCTCCTGAAAACAGAGATAAAAAAGCTGGAGCAGAAGATCGATATGGATGAGAAGATGAAGAAAATGGGTGAAATGCAGCTGTCCTCAGTAACGGACTCCAAGAAGAAGAAGACTATACTGGATCAA
Seq A exon
GTAATCTTGCTTATGTGAAATGGGCCCCTGGCAAATGTTTAAGGCCTTCTGTACCTTAGTGGTACCTCTGTCTGTTCCCACTCTGCTGCATGTGTGTGCTGGGAGAGCTTCCCTGAGTAGATAGGATGTGTGTTGGCAGGAGAGTAGAGCCAGCAGCCCAAGTCGCAACATTTCTCCACCCAACATGCTCTAAGCTACAGCACAGGTTCTCTCCTCTTAATCTTCATGCAAAGGATTTTGCTAGCTGCATGGAGATTAGTGAGAGCCTTAGGGGAGCAAAGAGGCTACCAGAATATTGTGGGGAAGAGGCAGCAGGATGTTGTAGCGAGAGCTGGTTGTAGACCAGCAAATCCTGCTGCCACCCTTGTCTTCAGCATAGAAGAGGCTGATTCTTGAACCGGCAGATGGGATGAGGAAGCCATCCCTGGTTTCTTCTAGTTACAAGGATCTGCCCTGATCTCATGGCTGAAACCCTCACCACAAGTCTTTCTGACTTCAAGTGGACAATACAGTTGCATTTGAGAAGCAGAGAGCCTAGAGCAGATGTCTCTCCTACTGTTGCAGTGGCACCTTATTTTAGGAAACTAACATATGGTGCCTATTTCATTAGTTTGTAGCTCTTTTACCACGGCTGCCAAATGTGCCTGCGATGCAAACTGCAGGGAGTGGCTGGGGCCATCATGTGCTGAACTGAAGGGGTTTTGTACCCTTAGTAATTTGTGGGAAGAGCTGAGAGAGGAGATGCTCGCTGCTGTTCAAAGGGCTCCACTCAAAGGCTGTCAGTCACAGCGAGAGGGCAAAGCAGACCCTCCTTTGACGTAAAGGAGTTTTTCTAAACACTTTGAAACTGTTTCCTATCAGCAATTTGAATTATTTAATTCCTCACATAGGCTGATTACAGTACTCTTCCACTGATAAGATTAATTATTCCCAGTGTACTACACTTCTTCAAATATAGCGAGCTCCATTTGTGCTTATGGCAGTGCTACTGCGGCTGTTTTGGGGTACTCTGTTTGTGAAACTGGGTGGTTTTTGGTCTTGTTTCTCAGATGCCCTTGATGCATGAAAGAAGCCTCTTGAGGGAATACTCAGTAAAGAATCCTGAAATACAAAGAAAATTAAAACTGGAATGTTAATGCTATTAATTAGCATTGTATCAAAGGGGCGGCTGTCCCAGGAGAAAGCTTCTGCCTTGAACACTGAAAAAATGTTTTACATCTAATGAAAAGTTCTTAAAAAATTGTTTTTTTATTATCCTTTTTGGGATTAAGAGTGTAGGGAAGAGTGAATCGAGGTTTCTTTTCCTTGAAAATGAGATCAGCGTTGGTGAAAAATCGATTTTGCTGGGAACAGTGGACATTTTTCAAGGTATTTACTACTCTGTTGTTCTTCTCTCCACTTCTCCTGCACCTTACTCGATCTTTTCTGTGTACAG
Seq C2 exon
ATTTTTGTTTGGGAGCAAAATCTCGAGCAGTTCCAGATGGATCTATTTCGGTACCGCTGTTACTTGGCTAGTCTCCAAGGAGGGGAGCTCCCAAACCCTAAAAGACTGCTTGCTTTTGCCAGCCGTCCAACTAAAGTTGCAATGGGCCGCCTTGGAATCTTTTCAGTCTCTTCGTTCCATGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015842:ENSGALT00000025542:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=PD(15.8=24.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAGCCAGACCGAACTCGAGA
R:
TAGTTGGACGGCTGGCAAAAG
Band lengths:
354-1789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]