GgaINT1028417 @ galGal4
Intron Retention
Gene
ENSGALG00000009864 | TRAF-5
Description
TNF receptor-associated factor 5 [Source:RefSeq peptide;Acc:NP_989550]
Coordinates
chr3:21605815-21609902:-
Coord C1 exon
chr3:21609734-21609902
Coord A exon
chr3:21609244-21609733
Coord C2 exon
chr3:21605815-21609243
Length
490 bp
Sequences
Splice sites
5' ss Seq
TAGGTACGT
5' ss Score
8.17
3' ss Seq
TTTATTTTACTTTTTCCCAGCTG
3' ss Score
7.8
Exon sequences
Seq C1 exon
ACTCTTGCCAGTCATCTGGATAAGTCTGCACGACTGGAATCGCAGGTGAAACAGCTAATACAGATGGCAAACCAGCAACAAAGTAAATTAGACTTGAGACCCCTGTTTGACACAATTGAAAATGTAAAACAGAAGATTGCCCTTATGGAGACATATGATCAGCGCTTAG
Seq A exon
GTACGTATGTTGGGACTTCCTTCTTTTCTGCATGGGTTTGGGATCTTCGCTGATGTTGTGGTGGCTAAGTAGAGGCTCTGGTACTGCAGTCAGTCAGTTGCAACTCTTAGCCAAAACGGGTTCTCTTCTCCGGGCTTTCTATGACCAACCTGTGGTAGTACATGCCTCAGACATCCTCCCACCTTCCCTTACTCCACAGTGTCACCAGAGGGCCCAACTCCTTAACTCCTGAGGCACAGCAGATGCTGGGTTTGGTGAGGCTGGGGCACTGCGGTGGTAGCAGTCATTATGTCTCTAGTCAGACACTAAATCTGGCTTGCAGGTAGCGTTTTTCCTTATTCAACTACCTGCTGCAATTAGAATTGGAAGAAAAAAAGGTTAACAGCTGTAGTTAACAGTCTGTACTCAATATTGTTCTTATGTACTGCCAGCTCAAATCTGGCTGCTCTTTGTGTCCAATGTCTGACAGTTTTATTTTACTTTTTCCCAG
Seq C2 exon
CTGTTTTGGAAAGTCAGTCCAGCAAACATGATCTCCAGATCAATATTCACAAAGCACAGCTCAATAAGAATGAAGAACGATTTAAGCTTTTGGAAGGCACATGCTACAATGGGAAATTAATTTGGAAAATCACAGACTATAAGATGAAGAAAAAAGAAGCAGTGGAAGGTCGTGTCCTCTCCATCTTCAGCCAGCCCTTCTACACCAGCCGCTGTGGGTACAGGCTGTGTGCCAGAGCCTATCTGAATGGGGACGGCTCAGGCAAGGGAACACATGTCTCACTCTACTTCGTAGTCATGAGAGGCGAGTTCGACTCACTGTTGCCATGGCCCTTCAAGCAGAAAGTTACACTTATGCTTTTGGACCAAACTGGGAAAAAAAATCACATTGTGGAAGTCTTTAGAGCTGACCCCAATAGCAGCAGTTTCAAAAGGCCTGATGGAGAAATGAATATTGCCTCTGGTTGTCCACGCTTCGTGCCACACACAGTTCTGGAGAACACAAAGAATACCTATGTCAGAGATGACACTCTGTTTTTGAAAGTAGTTGTGGATTTAACTGATCTGGAGGAATTGTGAAGAAAAAAGTATCCAGTCAGCGCGACTGCTTTAATTTTTATGAAATGCCTTCTTGGTGACTACTAGCCATGCAATAGTGAATTGCCACCGGTCAGCTACTGATGTGTTTCAAGGCTTTTGGACCATGTGACAGATAACGAATTGCCAAAATGTCAGCCTTTGTTTTTTAACCTCTTTTCAAGCCTGCAGCTTCAAGGCAGCTGTAAGACTAGTCTGATGTGAACACGCATTCGATCCAGTGCTTTGACTTGGCTCAGTATGGGCTGGGTGTGAATGCTTGGCTCACATCACAGGACTAGTGATTTAGGATGAAAATTCTCCTATAAGCCCTTGGGAGCCCAGGCAGGCCTGTGGGCTCCACTACTCACACCAATGCACATTCCACTTGTCTGAAATGGAAACATTTCAACATTAGTTCCTTTGAATCAACGTATCGTGAGCCCTCAATCTCCTGGATTTTTTGAAGCAGTGAGAAAGGGGTTCAGCCAGACACTTGTCAGGGATCTTGCATACCTTTTTTTTGTTCAAGTATTTTTTACCAGGAATTCCAGAGCAAGATACCAATGCCTCTTACTTTTCTAGCCTGATATTTCAGCTGTACAGAAGGTCACAAAATGGCTGTGGTAACATCTTTTTCATTCCTGCCTAGTGCCTTGGGACTGATTTCCACTGGTGTTCAACATCCACAGTCCCCACCTGAGGTCAAAAGTAGCCGCATGTCCTTCTCACCTCTCAGGATATGGCCATAAGGTACTCAGCTGCCAGCTCTGGGAAGAAAGGGGACAGAATTCTTCTGTTTGTCCTTCCAGGTGCACTCCTTTGGCCTACCAGCTCTACAGGTGGCAGGAAGAGCTCTGGATATCTGTTTGGGAAAAACCTCACATAACATGCACTGTTCTCCCTAGAAATTTGGAATTTGGGGAACGAAGGGGGAAATAGATGGGGAAATGAAGTTCCTGTTGGAACCCAGGACTCATGAGTAGTGCAGCTTGAGCATTTGTTAAAAGGAGTGAGAGCTGCTGAGAAATTACTGCTAACTATGAAATAGTTAGGAAGATCTTCATTTTTATCCTAAGTTCTCTCCATATTGCAAGGGAACAATTGCATTTTATGTCACTTATTGGAGACACACTAAGAATGCCAAGATCAGGCACCAAGCAACAAGAAGCAAAGAACACACAGTGCCTTTTTAAGTCTTTTGGGTGCTTGTAGGATGGAAGTAATTTTGCACACTCCATCATTTTGTTGTTAGAAGTGACAGAATTTTGTGTCTCATCTCTTACAGATCAGGTAGTGGAACAGCAAAATATTATCCACTGCTCCTGCAGCCCACTGGCAGAATAAAGCTGGAGCTTTTGAAAAGGATGGCATGAAATCAAGCTGGATTTAGAGTAAGAGTAAACCAGGCAGGATAAAAACCAAAATGGGGCACAGACCCCAAGCTATAAGGTAGAAAATTCAAGATGGCAAACATGGCAAGATGGAAAATGCCACTTCTGTGCAGAATGATATAATATGATTTGGTGACTGACACTAAGATGAAGGCAAAAGACAATATTTTATATCTGGAAGCTCACTGCTATAGGCATTTACTTTTCCAGGCAGTTTCTAGAATGTAAATCAGACAAATATTTTCAGATTTGGAGGTGGAGTGGGGGAGAAGCCTTAGCGATCTGTACATCACAGTAAGGTAGCACATCTGGAAGCTTTTCATCCAAAGTCCTTTTTGTTGCACCACGTTTGTGTATGGTGGGCACATAGGGGTTTTCATAGTGACCAGACAGATGATAAAGGTTCGATTTTGTTCTTTTGCATCACCACCATGACTGACTTTACAGTCTTTTTTCTCCATGTAGCGGAGAGAATTGGGCCTCATGTCCTTAACGCTTTTTGCTACAGAAAGAGGAAGCTTGTTTGAAAGATACTGTGGGATATGGACTCTGAGCCTCTGCTGTGGACTTTGTATTGACTGCTACTTTCAAAGGGATAACCGAGTGGTGTCAGCCACAGGTCCTTGGACTGTCCAGTGTGTGAAGTGTAAAATGAAAGCTTAAAGACCCTGGAGAACTGAAGCAGGACGGAAAGGACGTGCTCTGCATCTGGATGCATAACAGACCTCTCTGCCTCCACACCCCAAGTATAAAATGGGGATAATAATACTTGTGGAGGTGTTAGGACTATTTAAATGTTTGTGAAGAGTTTTGAGCGTGAAAAGAACTAATTATTATTAGAACTCCACTTCTAGTTGTTGAGTTGGTGCTGGCGTAGTGCTGTGGGTGTGTGTTAGTGTGCTGCCGGGCCAGTGCTGGAAGCGTGCTCCGCTTTAGGCAGGCAGTGCCTGCGTTGGCTTTACCTTTTTGCCATGAGTGTTCTTTTTAACATTCTGAAGCACAATTGATTCACCCTGGGCGACAGAAATGTCCCAGTTGGAGAACTGCCTGTTTTATAATGAATTCATCGAGAAAATCACTCCTTTTTCTGAGGCGATCTTATTTAAACTGGTTTCTTTTGTTACAACAGTTGAGTTTTGTGTGAAGATTTTCAGCGATTTTTACTACTTGTGAACTGCATTTTCAATTTCACCTCACTCCCAACGAAGAAAACCGTTGTCTAGCATGAGTACTGGGGGAGGATTTTGTTGTTGCATGATAAATACCAAAAAACCTTTCGATAACGTCCTACTGGGTAAACAACCTAAAGCGTGTTCTACATCGGCACACGGTGTATTTTTATGTAGTTATTGACCGTTTGTAACTGTTTGAGTATCTCTTACTACAATGCAGGCGTTTTTCTAGACAAACGTCATAACCGCATACGCAAAAACAGGGTCAGAATAAATAATGTTACCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009864:ENSGALT00000016038:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0091721=MATH=WD(100=74.1)
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:
CGACTGGAATCGCAGGTGAAA
R:
TGTAGAAGGGCTGGCTGAAGA
Band lengths:
343-833
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]