DreINT0167116 @ danRer10
Intron Retention
Gene
ENSDARG00000069482 | traf1
Description
TNF receptor-associated factor 1 [Source:ZFIN;Acc:ZDB-GENE-071120-4]
Coordinates
chr8:12375941-12380183:-
Coord C1 exon
chr8:12380006-12380183
Coord A exon
chr8:12376090-12380005
Coord C2 exon
chr8:12375941-12376089
Length
3916 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CAATGCATTGTGTTTTTCAGCTT
3' ss Score
7.58
Exon sequences
Seq C1 exon
GTAGCGGAGCTGCAGCAGAGGCTGGTCAGGAAAGACATTCTCATCAGTTCTTTGCAGCAGTCTATCAGCGCCCAGCAGGACGTCTCGTATGATGGCACCTTTTACTGGCGGGTGTGTGATGTCAGCCAGAAACAGAGAGAGGCTGCCAACAGCCAAAAGATCAGTCAGTACTCACCAG
Seq A exon
GTACCAAAGCACACATCTTTAGTTCTACACTTGAAGGCAGAGCTCATCCAAAAATAAACACTCTGTCATCATTTGCTCACCCTCATGCCATTCCAGACCAAGATGACTGTCTTTTATATCTGTGCTGGAGCACAATAGAACTTACTATTTTGATATTTTTTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTGTCTATCTATCTGTCTATCTGTCTATCTGTCTGTCTGTCTGTCTGGCTGTCTGTCTGGCTGTCTGTCTGGCTGTCTTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCGCCTTCAATTTTAAAGTTGTTGTCAAATTAATCAGTAAGTAATTTTTGCCTAAATCACACTGAACTGGCTTAGAATAGCACATATAACTTTGTTACAAGCACAATTAACTTTGCTTTATAAGTTATAACTAATGTTGCTGTATTTTTTCTCTTCTAAATCATAAAAATACCATAAAGTGTTAGAAAATTTTGATGTCTTGTCCCTGCTGGGTGTTTGAAGGCCATTTCGGTCATCACACACTCAACATCCTTCATCTTCTCATCAGTAACATGCATTTAAACAGTCTCTGGGTCAATGCGTGTAAAGATTTTGGACATCTTCTTGGACACTTTTAATGCTCCCAAACAGTTTGCTGCAATTATAAATCACCCATGTGATGAGGTAGATCAATATGATGCAAATTACCTTCTTTGCGGTTTGATTGGACAGGTCAGGAATCACTGAACTAAATCTTCTAATCCTCATAGACAGGAAAAATAAAATAGTGACTGCAGGGTAAATAAAAGTAGTGGAGTAAAAGTACCGATACAGTGCTAAAAATGTACTCAAGGGAAAGTACACATTTATAAAGTTACTTAGTGAATTACAATTTCTGAGAAAACATTACTCAATTACAGTAATTTGAGTATTTGTAATTACTTACTTTACACCACTGGTCATGTCTCAGCTCGGGCGGAAAAAAAAAATTAAAAACTGCAATACCTGGTTAATCCTATGTACTGCACCTTTAATGTTAAAGCATTTTTTTGTCATGACTTGTCATTGATCTTTTTTGTTACAGTAATATCTTACAGTATGTACTTATCATAGTCATTACACTGGTAAATAACAAGGTACTATCCATAAATCTACCCCTAAACATAATGACCCATGTGGTTACATTACATAACCTAGTTCTTTCTTAGGAAAGTACACCTTATATACACCTTATATATTATTAAGTGCACGTACTGTAAAATAAGAAGCAAGTCCAAACCAGTCTAGCTCTGGATTTTTATTTATTTTTTATTTGACCATTCTCTGTTAACTTTGTTCGTGTGTAAAAATCCCCATAGATCAGCATGTTGTCTACATGACTAAATATCTTTAGCTGCTGTCATGTGACTTTAATCAAATATTTGCATGAACAAGCAGTCAAATGTGTTTACTTAAGTGGCTTGTGAGTGTGTATATGTCAAAGTATTATTCTATCATTCCTTCTTTTGTTCCATTATTCTATCATCTAATCTATATCATGTTTGTAATCTATTTTTCTTTTGTTTTTCCTGTCTACCAAAGTAAGTGATTCATTCAAAAAGATCTAATTCATGAGTCGTTTTAATTATTTTATTATTCCTTCTATTGTTCCATAATTCTATCATTGAATCTATACTCACTGGCCACTTTATTAGGTACTACTACCGAAGTTGACCCCTTTTCCTGTCAGAACTGCCTTACTCCTTCGTAGCATAGTTTCAGCAAGGTACTGGAAAATTCCTCAGAGATTTTGGTCCATATTGACTTGATAGCATCACACAGTTGCTGCAGATTTCTCAGCTGCACATCCATGATGCGAATCTCCCATTCCACCACATCCCTAAGGCGCTCTATTGGATTGAGGTCTGGTGACTGTGGAGACCACTTGAATACAGCGAACTCCTTGTCATGTTCAAGAAAGCAGTCTGAGATGATTCACACTTTATGACATGGTGCATTTTACTGGCATCTGAAGATGGGTACACTGTGGTCATACGGACATGGTCAGCAACAATACTCAGGTAGGCTGTAGTGTTGACACAATGCCCAGTTGGAACTAATGGGCCCAAAGTGTGCCAAGAAAATATCCCCCACACCATCACAACACCACCAGCCAGCCAAATCTATGCTTTCATCCTGTTGATGCCAAAGTCTGACCCTATCATCTGAATGTTGCAGCAGAAATCAAGACTCGTCAGACCAGGCAACCTTTTTCCAATCTTCTATTGCCCAATTTTGGTGAGCCTGTGCTAATTGTAGCCTCAGTTTCCTGTTCTTAGTTAACAGTAGTGGCACTCGGTGTGGTCTTCTGCTGCTGTAGCTGTGGGCATTCAGAGTGGCTCTTCTGCTTACCTCAGTTGTAACGAGTGGTTATTTGAGTTACTGTTGCCTTTCTATCAGCTCCACCCAGTCTGGCCATTCTCCTCTGACCTCTGGCATCAACAAGGCATTTTCGCTCACAGAATTGCCGCTCAAAAAATATTTTCTCTTTTTCAGACCATTCTCTGTAAACCCTAGAGATCTCTAGGGTTTACAGAGAATGGTCTGAAAAAGAGAAAATATTTTTTGCGTGAAAATCCCAGTAGATCAACAGTTTCTGAAATACTCAGACTAGCCCGTCTGGCACCAACAACCATGCCACGTTCAAAGTCTCTTAAATCACCTTTCTTCCCCATTCTGGTGCTCTGTTTTAATTGTAGCAGATCGTCTTGACCTTGTTTACATGCCTAAATGCATTAAGTTGCGTCATTTGATTGACTGATTAGAAATTTGCATAAACGAGCAGTTGGACAGATGTACCTAATAAAGTGGCCAGTGAGTGTATATAATATGTTTAATTTATGCTTCTTTTGTTCTACCATTCTATCAATCTCTAGTTATATATTCATTAAAATAATTGATTTATAAGAGTCATTTCTATTATTCTATTGTTCCTTCTATTCCGTCATTTGATCTATTCTATCTTTTGTACCTTTCTATCAATCTTGAGTTAAAAATTTATTCAAAAAGAACTGATTCATATGAGTCATTTATTTATGAGTCAGACTGCACATGGTTCAATAAAAAAAACCATCAGTTGTGCTGCATGTCAAGCTGTTCTTTTACATTTACTGAAGATAAATGACCAGGGACTGTCCATATGACCTGTGCATGACTCTCCAAAACTAAATCTATTATTGCGATTCAGAAAAATCTTCCCCTGGGCCTTTTTTTTTACCTAAGCATGCTCCATTTGCAGTTTCAGTTGACATAATCAATGTGTTATTGACAATAAAAGTCTCCCTTCGCTTTCGTGCCAAAGCAAAAACAGTTTAGGCAGAACTGAATACTTTCATGAGGACTCATCGGGAGAGCTGTGTTGAATGAATGTTAGTTGTTATCGTATATTGAGGTAGAATCGATGCACATTCATAAGGCCGGTGCTAAAAATTGAGTTGGTACCAGTGAAAGGGAAAGCATAAGGGGGGGAAGCAAATGTGGAGAGGGTATATAGACTGAAATGGGGTTGCTTGCCCAGGAGTGAAACAACAGAGTGCAAAAACTAAAAGGAAAAGCTAAAGGTAATTTCATTGACGTGTTTTCTTTCCATCATTACAGAATAGGATATCAGAATAACTGTTCCTCTAAAGCAACAGTCAGCAAAACGAAGCCAAACGTTAGATTTTTTTTTAAGGGGGGATAAAAGAAGCTCTCTGGTTATCTGCTGCTATTTTTAGGAGTTTTAACTAAAGCCCATCACGCTTCACATAAAAATGACAATGCATTGTGTTTTTCAG
Seq C2 exon
CTTTCTACACCGCCAGGTATGGATTTAAAGTGTGTTTGCGGCTCTATTTGAACGGAGACGGAGCTGGAAAGGGATCACACATCTCTCTTTTCTTTGTTATAATGAAAGGAGAATATGACCCCATTCTCTCATGGCCATTCAAACACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069482:ENSDART00000101174:8
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:
PF078897=DUF1664=PD(8.6=10.0),PF0101715=STAT_alpha=PD(15.4=16.7),PF0091721=MATH=PU(14.9=35.0)
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:
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]