GgaINT0054794 @ galGal3
Intron Retention
Gene
ENSGALG00000011389 | TRAF3
Description
NA
Coordinates
chr5:52371657-52373642:+
Coord C1 exon
chr5:52371657-52371731
Coord A exon
chr5:52371732-52373549
Coord C2 exon
chr5:52373550-52373642
Length
1818 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TAAATTCTTTGTTGTCACAGGGA
3' ss Score
6.74
Exon sequences
Seq C1 exon
TTGAATGCACATTTGTCAGAATGTATTAATGCCCCAAGTACCTGTAGTTTTAAGCGTTATGGCTGCACTTTTCAG
Seq A exon
GTCAGTATATAACAATTATACTTCCCAATTGATGAAAATCTGCAAGTAGAACTTAACTCTTTGACATGAAAGTTCTGGACTTCTCTAATCTTGGTTAAGAAAAAGTCATCCAGTTGCACTGAGTGGTTAAGTACTAGATGTTTGGTGGGTTTTTTTGGGTTTTTTTTTTTTTCATTTTAAAAATAACCTATATTAAAAAACCCCAAAACATCACTTTCATGCAGTGGTTTGGGAGTTGATTTGTTAGGCACAGCTTGTTGAAGTAGAGAGATGATACATTTCAAGAACTTCATAACAGAATAATAGTGAAGTAATTTATGTTCTTCAGCAAACAAGCGAGTAACTTCAGTTGTTTATATGAAAGTCTTTATTTTCTTGAGCTAAGTACATTTATATTTTCTTTCATTTGTGTGTCTTAATATTTTTATTAAAATTAAACATAGATTAGTCCACATAAAACATCAATTTTAATGTGCATTCCTATGTCTGTGTGCACATACAAGTATAATTAAAGCATAGCATGAAAACCAGTTTAAAAAAAGAAAGTTTTATGTAATCCTGGAACTCCCTGCAATATTTAAAAAAAAAAAAACAAAACAAAAGGAAGTCCAACACTGGAGTTGAGTTTCAGTATTAGCATTCCAGTCTCTTAAAATATTCTGCTCACTATACCATATATCTTGTATTATGAAAGGATTATGAAGGAAACTTCAGAAACTGCTGACAGGAAAAAATTGAGTTTATCAGGTAGTGTCATTCATTTGTTAGTTCATGATAATCTAAAAAGACAAGAACTGTAAGTAGCAACACTTCTCAGTAAACTGCTTCCTGCAGGTATTTCCAGTTTTTTTAAATAATGGGCATTCATCGTTTTAAGTGTTAACAGTAATGCTCTTAATGGTAGAACTGATCAGTGCTATGACCCTACCCACTGTTATGTCGTATGTATTGCCATTCATTTTATGTATGTATATGTGTGCATATATGTACATATATCCACATATATATTTTTAGTATTTTATATAGAGTGCATACTTTGAGGATCATTGAAACCTTTTCGGTTTCTTTGCAACTTAACTACTATGAAACCTAATATACTCTGTGTTGTGAAGTACTTAATGAAGTAGGTGTAATGCAACACAATACAAATAAAATAATATGGTCTGCATCTTATGTACTCTGTATATGATCTATGTGTGTTCTGTAAACTTTTTATATAGTGATTATTTGTAACAGCACTTATAGGTTGTGCAGAGGCAGCACATCTGACTATCGTAGAGCAATCGTTTTAGGATGACGAAGTAGTCATGGTACTATCTCTCAAAGTGGTTTATGAAGCTGGCAGTTTCCAGTGATAATAAATTTATCTTAAATATTTGTCTTTAATACTCAACTGAGGGGAAATTTTGTGCTTATGAAGCTGTTTATGAAATACAACAGAAGTTTAAATTATGGTTTGGGGAATTGGACATTTTAGATTGTGTGTGACTCGAGAGTTTTATTGTGGTTTATTTAGTGTAAAACTATGCAGAAGACTGAAATACGATTTATTTTGTAAATCTTGTTCATCTTTATTGTCTCTGACATATCAAGTTCATTGGATGGAGATATATGGCAGTTGTATAAAACACTTGCTCTACTAAATGTATTCCTGACTTTTGTAAATTCTCAAGTAGATTTCCCTTCTCCCTACTGTTCTGCAACATGCATCCGTGAACCAAAATACGTAGTGTTGGTTCGATGTCTTGATGTACTCTTTCTTTGTAGGTTTAAAAGAAGTGGAATTGGCTAAAATGTATAAATTCTTTGTTGTCACAG
Seq C2 exon
GGAACAAACCAACAAATTAAAGCACATGAAGCCAGCTCAGCAGTGCAGCATGTTAACTTATTGAAAGAGTGGAGCAATGCTCTAGAAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011389:ENSGALT00000018576:8
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:
PF0314511=Sina=FE(38.1=100),PF041569=IncA=FE(14.1=100),PF101744=Cast=PU(0.7=4.0)
A:
NA
C2:
PF0314511=Sina=PD(39.7=80.6),PF041569=IncA=FE(17.6=100),PF0205011=FliJ=PU(5.0=16.1),PF101744=Cast=FE(21.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]