GgaINT1028432 @ galGal4
Intron Retention
Gene
ENSGALG00000009014 | TRAF2
Description
TRAF2 protein [Source:UniProtKB/TrEMBL;Acc:E1BTY1]
Coordinates
chr17:535795-536937:-
Coord C1 exon
chr17:536863-536937
Coord A exon
chr17:536155-536862
Coord C2 exon
chr17:535795-536154
Length
708 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
ATATATTTCTCTTCATGTAGGTG
3' ss Score
8.45
Exon sequences
Seq C1 exon
TTTCAGGACCACGTGAAGAACTGCGGCAAATGCAAAGTGCCTTGCAGATTCAAGGTTGTCGGCTGTGCTGAGATG
Seq A exon
GTAAGGGTTATCTGCTCTTGTCTGCCTTGCTTTCAGTTCCAGTGTTAGCTGTGACCTGCAGATGACCGTAGCCCAACCTGTTACAGGTCCTGGTGCTCAGCTATTTCAGCAGAGTGGTATTTTAGACCCTTTGTAAATGGCTCTTTGCATTGTCTACTGCCCAGATTTTGGGTACCAGAGAATGAGCAATGCAGAAGGACATTTTGAGAACTGAACCAAATGCTTTGAGGCTCCGGGTGGTTGTGGTGCTGACAGCTGTCAGCATGGACCTGGGCGTCCCATGGCTTGTTCCACTGCTAGAGCTTGGGCAGGGCAGTATTTCTCCATGTGACGTGGTTTTCTCAGCTCTTACTGGTGATGTCAGTGTAAATCCCTTCTCAGAAGGATTATATGAGGCTTTGTCCATTGGTGCTGTTAAGTCGGTCTGACAGAGCCGTTCTGCAAAGGACTGGAGGAGGGCAGAGTAGAACAGTGTGTGCAGCTGAGGGAACATTAAGCATCCATCACTGCATATGATCACAGCTTTTCTGTAACAAAACAAGAACACCAACAAAATCCACGTTTTTTAAACTGTTTTCCTTTGTTTTTTTGTTGTTTTTTTTTCCCTTTATAATTTGAAGCTAACATTGTGGCCTCAAGAGGAGGACGTTTTTCTGTGGATGGTGACAGCTTGAGCTTGCTGAATGGGATATATTTCTCTTCATGTAG
Seq C2 exon
GTGGAAAATGAAAAGCTACCAGAACACGAAAGCAAGTGCCTGGCAGAGCATCTATACATGCTGCTGAGTTTTGTGCTCAGCCTCAAGAGTGGATCTGGAGACCTGAAGCACCTTCCTGCCATTCCCTCATCACAGAGCAGCTCCCCGCTGCTGGCAGCAAACTCCCTGTGCCCGGAGTCGGAGCTCTTCAAATCCCTGGAGCTCTTGGGAAGGTGTGACGCCCTGGAGAAGAAAACAGTGACCTTTGAGAACATCGTCTGCGTGCTCAATAGAGAGGTAGAAAGGGTATCTCTGACAGCTGAAGCGTACAGCCGGCAGCATCGATTAGACCAGGAGCAGATCGAGACGCTGAGTAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009014:ENSGALT00000014665:6
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=0.008
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=FE(41.4=100)
A:
NA
C2:
PF0217613=zf-TRAF=PD(13.8=6.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGACCACGTGAAGAACTGC
R:
ATTGAGCACGCAGACGATGTT
Band lengths:
342-1050
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]