GgaINT1028434 @ galGal4
Intron Retention
Gene
ENSGALG00000009014 | TRAF2
Description
TRAF2 protein [Source:UniProtKB/TrEMBL;Acc:E1BTY1]
Coordinates
chr17:533148-535025:-
Coord C1 exon
chr17:534848-535025
Coord A exon
chr17:533297-534847
Coord C2 exon
chr17:533148-533296
Length
1551 bp
Sequences
Splice sites
5' ss Seq
CAGGTTATT
5' ss Score
3.49
3' ss Seq
GTTTGTTTGTTTGTTAACAGCTT
3' ss Score
7.59
Exon sequences
Seq C1 exon
GTTCGGCAGCTGGAAAGGAGCATTGGGCTGAAAGACCTGGCCATGGCTGAGATGGAGGAGAAGATCCGCAACATGGAGGCTTCCACCTACGATGGTGTTTTCATCTGGAAGATAACAGAATTTGCCAGGAAGCGCCAGGAGGCGATCACGGGCCGCTCTCCGGCGATCTTCTCTCCAG
Seq A exon
GTTATTGCCCCAGAGTAGATAAAGCCTTTTTGTGCCCCATCTGGCTGTGGGGTTTGTAGTGATGACCGTAGCACGTGGGATGCGTGGCTGCTCCGCTGTGCTTCTGGTCTTCCCAGGGAAATCTGAACCATCTTCTGGTGGGTTCTGTGTTCATAAGGAGCATTGGGCTGAAGGAAAGTGCTGTGCTGCGGGAGGCGCTTTCTGCATTGTGGAAAACATTTTAATTTCTCAGTGTAAAATGCAGCTGTCTTAACTCAGGAATTGCCCTTCATGGCACTTTTTGAAGCTGGCTGGAGCTGCATCTGAGCTGGGGGCGTAGATGCTGCACTGCGTCCTGGTGTAACGAAAAACCAGCGTGTTGCTGGGCCAGGAGACGAAAGCAGGGGCACTTCTAAAACTATTTTTAACTGTTTCCTGGGTGAAGGCTGTCTGGAGTCCTTTTGCTTATGAAAACCTGAAGGCAAAAAGGATTCCCCCTTCTTGAGGGGAACTGAACTGCCACTGAAACTGTGCATGCGATTAGCATTTCCTTCTAAAAGTCAGTGACAGCTGTGGAAAACCCCTGGTCTTCTGTCCTTCTCTAGAAAGGCGGCACTTCCTTCCTTCTCAGAGCAACTAAATCGGGTTCGGATCTGTTTTGTTTGGCTCAGAGACAGGACCTTAACCCTTGTGCCCTATCTCCTGCTCAGCACTCAGGAGTTTCTTGACCTCAGCACCTCCTGAGGCTGCAGTTTTGGGTTGGAGCCTGGTACGAGGTGGCAGCTCCTGGGCTCTGCTGCTCCGTGTGCCTTAAAGGAGCTCATTCTACCATGCCCTCCCTGGGGGACCCAACTTGTATCTGCGGTCATGACCAAGTCAGCTCCTCGAGGAGCCTGAGCAGGCAGCTGGAGGGAAGGGAAGGTTGCCTCTGCCTGGCACACTGGGATGTCTATGGAAGGGGCAGGGTTATCTTTCCGTCTTGCAAGAGTAGGGTTGCACACCTTTCTTCCTGCAGTAGTTGATATTACTGCTTAGATGAGAAGTTTCCATTCCATGTGCTGCCTCAGCTGAGGATCTGGGCTGAGAGGCAAATGTTAGTTTGGGGTAGAAAAAAGTCATTACGGAGGTGGTTTTCCCCCTTACGAAGCGGAATGGGCAGATGGGTATTGTTCAGATTGGGAAGGAGACAGCTGGGAGCAGAGGGGTGGGTTGGGAAAGGAAAATGGGTACAATTGTTGGGTTTGTATTAAAACGCAGGAGCAAAGAGATAGCAGATAAAATCTGTTGTAGAGCAAATAGAAGGAAGTGCGGTTACCGCCCAGTTGCTTTGTCAGGAGGTGGCTGCTGGGCTGCTCTGCTGGGGCCCTGTGGGGCTGCACCCCTCCCTGCAGCTCTGGGGTGCTGGGAGATGAGGGGCATTCTGTGTTGGTGCGCCCCCTCCCTTCCCCCCCACAGCCCTGTAAAACCCCAGCCTGGTTTCTTCTGGGGTCCCAACTGTAGAGTCTTGGGAGGACGTTTGGTGCCAGGCTTCGCACTTTCTGACCCACGCTGTGTTTGTTTGTTTGTTAACAG
Seq C2 exon
CTTTCTACACGAGCAAGTATGGCTACAAGATGTGTCTGCGCGTTTACCTGAACGGGGATGGCACCGGGCGTGGGACCCATCTGTCCCTGTTCTTCGTGGTGATGAAAGGACCCAACGATGCGCTCCTGCGTTGGCCCTTCAACCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009014:ENSGALT00000014665:8
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=0.000
Domain overlap (PFAM):
C1:
PF0091721=MATH=PU(15.6=36.7)
A:
NA
C2:
PF0091721=MATH=FE(34.8=100)
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:
GTTCGGCAGCTGGAAAGGAG
R:
CTTCTGGTTGAAGGGCCAACG
Band lengths:
327-1878
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]