GgaINT0054793 @ galGal4
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr5:49764192-49767115:+
Coord C1 exon
chr5:49764192-49764272
Coord A exon
chr5:49764273-49767040
Coord C2 exon
chr5:49767041-49767115
Length
2768 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
ACATTTTTTTCCTATTGCAGTTG
3' ss Score
10
Exon sequences
Seq C1 exon
AAACATGAAGATACAGACTGCCCGTGTGTCATGGTTTCATGTCCTCATAAATGCAGTGTTAAAACACTCATGAGGAGTGAG
Seq A exon
GTAAGAAGTCTTGCCCAGTGTTGTGCAGAAAAACTGAATGCTTTTTTTTTTAGTAAGATCTCGCAAGAATTTTGCCAGAAGCCATTTCCTTTATTAAAATGTGAGATCTAAAGAAAAGCTTTTTCTACCACACAGTTAAGTGTGAAACACTCAAGTATCTTTAATGATCTATTGAAAAGCAATTAAAAAAAATTAATGTATTAATTTTGTGTCTGTATTATAAACTTTGCTTGCCCAAGATCAGCGCATGTCTTTCCTGCTTTCTTTTTTAACATCCCTACCCTGATCTAAAGCATTTGTTGATCACAGTAGAGCAGCATCTTGGAGCAGTGGTAGTGACTGTATTAAAATAGAATGAGTGAGTGAAATTTTAGTGCATGTTGACAAGAGTTAGTAAAGACTAGAAAAACATAAGTGAATTCCTAATATGAATTATTTCATGGGGAAAAAAAAAAATAAGGTTAAGATTATTAAATTTGGGGAAAAAATAACTGACACTTGGAGAATTAGCGTAACATAGAGGGTAATACAGCGCTCCTACAGCCAGATGCAAGAATGCATTAACATTTCTCTTAGTATGTAGAAACTTAATCCAATCTCTACATCACTGCAAAAAAAAAAAAAAAAAAGCACACATCTTTGAACAGACCCATGTTCTTGTTTATAAGTAGCTTCTGTCAGACTTGATATGTTGTTTTTTTTCCCTCAAAAAAGAACTTGCTTAGGATGGGAAGAGCTTATTTAAGTTTTCAGCACTCTGTAGACCTCATTTAAGGAAAGCTAAGTTTCTGATCTGAGGATGAACTTTTCCTCTTTCCAATTATACTTGCTTCCTCAGTTAGATTCTTCTCCTTTTTTTTTCTTTTTCCTTTTTTTTTTTTTCTGGTTATACTTGTAAATTGTTAATCATATCACAGTACCCAAGGAGCACAAGGCACTTCCCAAACACAGGGGCAGTCTTTTCCCCCAGGATAATGAAATGTAATGAAATGGATACTGTACCTATTAATTGAAACTAAGCTAAGCTGCCATGACAAGAGAAAGTATATATTCTGGGTCAATTTTGTCAGTGACTTTCTCAGTTGAAAGCTCCTGAGTTTAGACCCCAGTTCTGGAGGACTTAGGGATATTGTTAAATCTCTACTTGAGCAGTGACTGCAAAAAGGTGTATATGACTGCAAAAAAAAACCAGTTGTCCCATTAAAGCCTGGATCGATACACCATACAAATTACACTTCTGTGCACATATCGCCAGAAATAAGTTCTGAAACCACTGGTAGAATTAGAGCTTTAAACAGTTGGCATGCCCTGCATCGTCTGTTGTTACATGTTGCTTAATTCTTTTCTGATACTGTTTATATATACATATGTGTATTACTTAGCTGCATGGTTAGGGACAATGTCTCTAATGCCGAAAATGGGAAAATGCCTGCCTAACAGTTTGAGAAAATCCTGTAGTGCACAAAAAGCGAATATCTTAACTGTAGAATAAATGGCAATTTTTCATGTTCAATTTGTAACTCTTTGGCAGACTTCTAGTTTGGCGAAGTTAAAGATGTGGCATTCTAGTAAAGCCTTTTTACCACGTGTCTCATTCTTATTTGGTCTTATTTTTTTCTGAACCATGTGTTTCTTTTGAAACTCTACCATGGATTTCTACAGATAGTGTTTGGATCATATAGGTGTGCGTCAGAGATGAGTGACTGACTACAGCTTGGTATTAGATTGCAAAGTCTGTCCTGTCTGTTCCAGAGCTAAATGTTCAAAGCAGAATTGGTTCACCCCTTCTTTCCTTGAAGGTGGATGAGCTGGGGCATATGGGACTTACTGTGTGGGAATTTCACGTGAGATCTTGCAAGCTGAGAGAGTGATACCAGCTAAGGAGCTAGATTCTAGCTCCTCTCTGCTTTGTGGGAAATACAAACTGCAGATTCTCTTTTTGAAGAGAGAGGCTTTGTTGTTCTATTGTTTCCAAAATGGCTCTTTGCTCCAACTTTTGGGCAGTTTGCATCCAGCTGCTGCCCTCTGTGCTGCGATGGCTGCTGTCTGTATATACGTATATGCTTCTGTGAATTGGTTTATTTTAAAATGAGAAGTGGATGTGTTCATCATCATAATAATAAAAAATACTGGAATAAATCTCAATCTGAAAAATGCAGGCATTTTACTAATCGTTTTAAATCCTGTATACTGCATTTTTAGAAGTTGTTTAACTGTACCTATTCAAAAGCTCTTTGTCTGTTTCATGCAGTACTTGTTTAGTCTTTTTTTTCTGTGTAATTTAACTGTTAAATTTTGGCACTGAGAATTGCATGTTCTGTTTTGAAAATTTGGTTCCTCATGAAATTAGAATAGAAAAGATGTAATATGCTACAGTGAAACTGATCTTAAGACTTACCCAGAACACCAGTAAGAATCACTTGGCGAGAAAAGATTAATCATTCTTTCAAGTCAAATGAAATCCTGCAAATAATTGCGGAGTGCCCTGTTTGCTTTTTCTTAAATCGGGCTGCCTATTGAAATAGTCTTTAGTAGAAGTTTCACTGTATACTAAATGTATCACTGTATACTGTATTGGCATGTGCGTGTGGTTTACATATGTGTATATATAGTATTTGCACTGTAGGTCAGACTGGAGAAAATATACACACGTGTATTGTATGTTCTGCAGATGGCACCCTACAAACTTGATAACCTGTGCCCGTTATGTTTTGAGCATTATCATGCAAACGTCTTTTGCCAAAACTCACATTTTTTTCCTATTGCAG
Seq C2 exon
TTGAATGCACATTTGTCAGAATGTATTAATGCCCCAAGTACCTGTAGTTTTAAGCGTTATGGCTGCACTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:7
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:
PF0217613=zf-TRAF=PD(1.8=3.7),PF0314511=Sina=PU(12.9=40.7)
A:
NA
C2:
PF0314511=Sina=FE(28.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]