GgaINT1028421 @ galGal4
Intron Retention
Gene
ENSGALG00000009864 | TRAF-5
Description
TNF receptor-associated factor 5 [Source:RefSeq peptide;Acc:NP_989550]
Coordinates
chr3:21612397-21613383:-
Coord C1 exon
chr3:21613282-21613383
Coord A exon
chr3:21612562-21613281
Coord C2 exon
chr3:21612397-21612561
Length
720 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TTTGCTTTTATGTGTTGCAGGAA
3' ss Score
9.99
Exon sequences
Seq C1 exon
GTATTCAAAGACAACTGTTGTAAAAGAGAAGTTCTCAACTTGTACGTGTTCTGCAAAAACCTGCCTGACTGCAATTCAAAAATAATTCTGGGGCGGTATCAG
Seq A exon
GTTAGTTGGCTCAATCACATTTTAAGCCTTTGATTTTTATGTGAACTTTGTGTGTCACAAGCTAAATTTCAGTGGTTGTCTTCAGACTTTTGTCACTGAAGCAATGTGGCTTGAGTACATAGTCTGTGACTTAGTTATACACTGAGTAACAAATATTATGTCATGGCTGTAAGCTTATACAAGCTGTGCCTTATTTGTTTGATAAGAACCATTTGCACTATCTTGCTGTGAATTTATCTGTCATTTTGCAAGTTCAGGAGGACTGTAGTGAAGGTTTTTTATATAATAGTGAAAAAATAATGATATGGAATTTAAGTATTATAAAAATAGCAAGGATATGTCACATCTGAAATGTGTACAGGGTGATGTGGAACTGGGGAGAGAGACCCAAGACAGGTGAGCAGGTTGGTGCTCAGCCTAACCACACTACCTTGCTGCTCAGCAGAGCCTGAGGCCAGCGAAAGCCCACAGCCATGACAGCATGGAGATGGCCTTACTATACCCACAGCATCTGTACTTAATTTCTGTACATGTGGGCGTGATGATGAGATGCTTGATTCAGGAAACCTTGCTAAGACATGCTGGCCATTTTGGCCTATTTGGGTGAAAAGCTGAAATCCTATAGAGGACTCTTCAAATTGTCAGAATTTTGAGTGTCACCAGACTGCCAGATGTTTCTGTGTGTCATACTGGGGTTTAATTTGCTTTTATGTGTTGCAG
Seq C2 exon
GAACATCTTCAGCAGTGTTTGTTTGAAAGCGTGCAATGCACTAATGATGGATGTTGTGATCAAATCCTTCGGAAAGATTTGAAAGACCATTTGAGTCAGCACTGTAAATTTCGAGAGGAAATGTGTCAGTACTGTAATAAATATGTGGTGTTAATTAACATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009864:ENSGALT00000016038:5
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAAAGACAACTGTTGTAAAAGAGA
R:
TATTACAGTACTGACACATTTCCTCT
Band lengths:
238-958
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]