GgaINT1028433 @ galGal4
Intron Retention
Gene
ENSGALG00000009014 | TRAF2
Description
TRAF2 protein [Source:UniProtKB/TrEMBL;Acc:E1BTY1]
Coordinates
chr17:534848-536154:-
Coord C1 exon
chr17:535795-536154
Coord A exon
chr17:535026-535794
Coord C2 exon
chr17:534848-535025
Length
769 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
AGGTCTGTCCCACCGAGCAGGTT
3' ss Score
4
Exon sequences
Seq C1 exon
GTGGAAAATGAAAAGCTACCAGAACACGAAAGCAAGTGCCTGGCAGAGCATCTATACATGCTGCTGAGTTTTGTGCTCAGCCTCAAGAGTGGATCTGGAGACCTGAAGCACCTTCCTGCCATTCCCTCATCACAGAGCAGCTCCCCGCTGCTGGCAGCAAACTCCCTGTGCCCGGAGTCGGAGCTCTTCAAATCCCTGGAGCTCTTGGGAAGGTGTGACGCCCTGGAGAAGAAAACAGTGACCTTTGAGAACATCGTCTGCGTGCTCAATAGAGAGGTAGAAAGGGTATCTCTGACAGCTGAAGCGTACAGCCGGCAGCATCGATTAGACCAGGAGCAGATCGAGACGCTGAGTAACAAG
Seq A exon
GTGTGTGGTGCCTGGCGTGGGTTCCCCGTGCTCTGAGCAGAGCCTTCTGTCAGCTGCCTTTCCATGCTGCCAGCAAAGCTCCACCTGTATCCACTCCTTTCTCTCCCTGAATCTGAAGGTTGTACTGAGATACCATTTGTGACTGTGCCCAACCTTGCAAGCTTCCTGGAAAGGATAGGAATTGGATTGACCTAAAGCAAATGCTTTAGGGTCTCTGTTAGTAATTAAGGATGCACGCACTGTTCTTAGGTAAAGTCCTCCAACTGGAGAGGGAGGAGCGGGCGTTGCACTGAATCTCTTTGCATTCCCGGGCACTCCTCGTTGCAGTGTAATGGTGCGGCTCAGCCTGGAGGGAAGGAGCTCTCCCAGCTCTGTGTTCCAGCACAGTACCCTTACATCTTGGGGCCTGGGAACTGTGCAGTTCGTAGTTTCTGTGCTCTCTCAGTAACCCTGCTGCCTCACAGCAATAAACGTGGTTGGCTGTGTATAGGTCCTTCTGTTTCTCAATCTATTTTTGTCACGAAGGTGATGTTCTCTTTTCCCCCAACCTCACCCTTTGTTCTGAACACAACAGAAGTGCTCACGGAGAGAGGTTTTCCATTCATGGCAGAGAGGTTTCCGGCTCAGGCACTGAGCTGTGTTAGTGTGTGTTCTCCAGAATGATGGGGTTCCAGAGGAAGCTGTAGTGGATTGCCTTACATTCCTGCCTTTCTAGCCCTGGCCCTTTGCTCGCTGCAGTGTGTCTGACCAGGTCTGTCCCACCGAGCAG
Seq C2 exon
GTTCGGCAGCTGGAAAGGAGCATTGGGCTGAAAGACCTGGCCATGGCTGAGATGGAGGAGAAGATCCGCAACATGGAGGCTTCCACCTACGATGGTGTTTTCATCTGGAAGATAACAGAATTTGCCAGGAAGCGCCAGGAGGCGATCACGGGCCGCTCTCCGGCGATCTTCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009014:ENSGALT00000014665:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=PD(13.8=6.7)
A:
NA
C2:
PF0091721=MATH=PU(15.6=36.7)
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:
TGCTCAGCCTCAAGAGTGGAT
R:
TCTCCTCCATCTCAGCCATGG
Band lengths:
348-1117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]