GgaINT0054791 @ galGal4
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr5:49759261-49760335:+
Coord C1 exon
chr5:49759261-49759365
Coord A exon
chr5:49759366-49760167
Coord C2 exon
chr5:49760168-49760335
Length
802 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AATTTTTATTCATCTTTCAGATG
3' ss Score
9.7
Exon sequences
Seq C1 exon
GTATTTAAGGATAATTGTTGCAGGAGAGAACTGCTTGCCCTTCAGATATACTGCAGAAATGAAAACAAGGGCTGCAAAGAACAACTTTCCTTGGGTCAATTACTG
Seq A exon
GTAAGTAATCTAAGCGTCATAAGACTTCATTTTTGTTAAAGAATGAGAAGAAATCTTACAAATGGAAACCCTGGCCAGTGTCTTGATGCGCTCACATGAGTGGTTGATCTGAATGATTGATGAAGTTGGAACAGAATTGAATTGTTCTGAATCCTAATGTGTACTTCAAAAATGTGAGATATTTTTGGGATGTTTTTATTTCAATTTTTCATTAATAATGATAATTCTCTGATGTAAATGGTGATTTTTTTGCATGGAATTATCAAACCTTTGGCTTCACCTGACTTGCCCAGAAGTTGTAGCTTTGTTTCATTAAGGTTCATTACGTAGCAGTAATCCAGTAACTTAAGAGTCAGAAGGGATAATTACACGGTAGCCTGCAGTGAAATATATGAGTTCTTAAACTTGCTTTGAGTGAACCAGTTCAGGTATTTTAAAAAAAAAAAACAACCCTTAAAGTAGCCTATATGTTTATATGAGATAATATATGTTGAAAAAGAATGCTTACATTTTTCCTAAATAGCCTGTTGTGGAATTTTGAATATTTACAGTATGAAAGTTGGTCATATACATCTTTAGAGAAAATTTCACTGTACTCTATGTAAATGGAATGTAAAATCAGTAATGTGCTTGTGAGAAGACTTCTTACTGTTTGCTTTTGCACAATATACTGCATAGGGTAACTGTTTACTTTGGTTCTAACCTTAAATTTATTTTGAGTTATTTTCTGTGGGACATCTTCAAAGGTTAGAAGAGGTGCACAAAACTTTGTTGGCTTGACTAATTTTTATTCATCTTTCAG
Seq C2 exon
ATGCATTTGAAAACTGATTGTCAGTTTGAAGAGCTTCCGTGTCCTCGTGCTGATTGTAAAGAAAAAATACTGAGAAAAGATTTGCCAGACCACGTAGAGAAGACCTGTAAATACCGAGAGACAACTTGTAAATACTGTAAAAGCCAAGTCCCAATGATTATGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:5
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:
NO
A:
NA
C2:
PF0217613=zf-TRAF=PU(94.7=96.4)
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:
TTTAAGGATAATTGTTGCAGGAGAGA
R:
CTGCAACATAATCATTGGGACTTGG
Band lengths:
270-1072
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]