GgaINT0054788 @ galGal4
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr5:49741661-49742766:+
Coord C1 exon
chr5:49741661-49741803
Coord A exon
chr5:49741804-49742665
Coord C2 exon
chr5:49742666-49742766
Length
862 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGC
5' ss Score
6.12
3' ss Seq
GTAAATTCTTGTGCTTCAAGGTA
3' ss Score
5.37
Exon sequences
Seq C1 exon
GGTGAAGAAAGAAACCGGGCAGACTAGCAAAGTTCTTTTTGTCAAGAGTAAAGAGAACCCTTACAGAACATTGAGAAAGTGCTTTTTTTCTCCTCTCTTCTCAAGCTACAGATCAAATGAGATTCAAATAAAACGAAGGAAAT
Seq A exon
GTAAGCAATCAAAAAGCCTGTTCTGAACTTGAGGAAAGGGAGGGAGGGATGTCAGTCCATAAAGAAAAGGAGGATAGAAATTCTGTCAAAAATCTGTCACGAGAACTTTGGATATCAAGAGCATTCAAAACTAACAAATCACTTTTTAATGTGGTAATCTCTTCAGTTGTCTTTCAATGGGAACTTCTTGTGAGGAGTATATGAATTCCTGACTGATGCACAATTTACCTGTTTTTATAAACATGTTCTTACAGAGAAGAGAACATGTACTAAAGAGCAGATTCCAAGAAGATACATAGATTTAATGGTATCATCTGTTTGGAGACTCACTTCTAATGTGATGCTTGTGACTCAGTCAGGGGTGTTACTTGACACTGTCTTCACATCTGTGTCAAATTATTTCTGGATGCATTTGGTTTTTAATCTAACCTCTTTTGGCTACTAGGATAAACCCTACATTTGCCAGCTTAAGAATTTGATAACATTGGATGCATGATAGATGTTCTCCTAAGAACATTCTTCCTGAGCAGTCTTCTCACTGAGTTGACATAGGTGGTTTGACTTGATGGCTATTTTTCTGCTTATGTGTTGTCTCAAACTTCACTGGAAATCATCTCCTTTTTGCCTTGTTTTTTATTTCAACATATAGTCATACACAATTTTCTTCCTCTTGAGCACTGAAAATGCAATAGAACTTCTTGTGAAAGTGAGCATTTATTTTGGTGACTTCAGTTTGAATTTCCATGTGCAGCACTTACTTTCCATTACTTTGCTGCTGTTATGAAAGGTTGATGTCAGGAAAATATTTTGGTGTTTTTTTTTTTTTTTTTTTAATCTGTGTTGTAAATTCTTGTGCTTCAAG
Seq C2 exon
GTAGAACTTCGATGTGATGGTTGAGGGCTTGAATGAAACTACTGATCAAAATTCACCAGATAAAAGGAGGCTATATAAAGGATAGTGTATGAATCCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAAGAAAGAAACCGGGCA
R:
ACACTATCCTTTATATAGCCTCCTTT
Band lengths:
231-1093
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]