BtaINT0152196 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012020 | TRAF5
Description
Bos taurus TNF receptor-associated factor 5 (TRAF5), mRNA. [Source:RefSeq mRNA;Acc:NM_001105340]
Coordinates
chr16:73909245-73911161:-
Coord C1 exon
chr16:73911104-73911161
Coord A exon
chr16:73909347-73911103
Coord C2 exon
chr16:73909245-73909346
Length
1757 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CTATTATGTTTATCTTTTAGGTG
3' ss Score
11.96
Exon sequences
Seq C1 exon
AGAATTGGACACAGTCCCACTCTGCCCTGTAGATAAGGAGGTGATCAAATCTCAGGAG
Seq A exon
GTAAGACGATCCCTGGTTTGGGATGGAGCAGCCAGTGTCCTGGGTTGAACTGGACAGAGGAGTTGAAGCAAGAGAGCAGGAGGGGGACCCTTCCTTGGAGTCCAGATTCCTCTGCTGTGTGGTCAGGTTGGACCCCACTCCCACCCCTGTTCGAGAGAGGAGTTTTGGGTCCTTACTGAATCCCCAGGTCTTTTTACCCACATCCTCTTTACCCTCTTTCTATCCGAGCTCCAGTTACTGTGAGTTGCTTGCAGAAATGAAACATCCTATTTCCTGCAATTCACTTTCTCATCTGTTTAGTCTCTCAAACTTTCTTTTATTAAGTGTAATAATAGCTTTATTGAGATACAATGCATATGCTGTAAAATTTCCTTTAAAGTGTGCATGTTTCTGGGGTGTGTGCCTAGGAGCGGAATGACTGGGTCACGTGATAACTCTATGTTTAACATTCTGAGGAACCAGCTAGGTTGTTTTCCAAAGCAGTATTCTTTCCAGCAAGGTGTGAGAGTTCCTAATTTCTCTAAATCCCTGACAAAATTTGTTGTGATCCATCTTTTTTATTATAGCCTTCCTAGGGGTTATAAGGAGAAGGAAATGGCAGCCCACTCCAGTGTTCTTGCCCGGAGAATCCCAGGGACGGGGAAGCCTGGTGGGCTGCCGTATATGGGGTCGCACAGAGTCGGACACAACTGAAGCAACTTAGCAGCAGCAGCAGCAGTGGTTATGAAGAGATACCTCATGGTTTTGAGGCTCTAGTGTTTGATGACATGGAGCATTATTTCCTGTGCTTGGCTGATTGGATATCTTCTTTGTAGAGATTTCTATTCAAATCCTTTGCCCATTTTTTTAAGTGGGTTATTTGTCTTTTTAGTAAAGGTACGTGTGCCTTCTCTTTGCTCTTATAATGCATTTTCCATAAGCCTAGCTGTACTTGTGTCTGCCTCACCCACTAGCCAGGGGTTGGCATACTACAACGTGGGATTTGTTGGGACTGATCCAGCCTGCCACCTGTTTTTGTATGGCCTGTGAGCTAAGAATGGCTTTTATATTTTTAAATCATTGAAAAAAATCAAAAGAAGGATACACAGGAACTCTGTACTGTTTTTTGCAACTTCTTGTGAGTCTATTTCAAAGTAAAAATTTATAAATCAAAGGAACAATGTTCTGTAACATGTGAAAATCATATGAAATTCACATTTGTGCCCGTAAATAACATCTTATCGGAACACAGGCATGCCCATTCACTTAAGTATTGTGTATAGCAGGCTGAATAGTGTCAACAGAGGACATTGCAACGTGGCTGACAAAGCTGAAAATAATTTACTCTCTGACCCTTTATGGAGAAAGTTTGCCAGCCCCTGGCTTGTGCTGAAACATAAGTCAGCAGAGCTTCAGTGATACCACCTGATGACTAATACAACGTTTACCCTGGGACAGGAAGTGGAAAGCATCGCCCCCATCCACAGCCCCACCTCCTGACCTTTGAGCATGTGGGGTCAAGTTCATCACCAGATTTCCCCCAGCTTCAGCCTACTGCAGTAAGCATTGAATTACCTGGCTTGTATGTCTGGTGGCCTGTCAGATGTATCTGAGACGGTCTTTTCTTATATGGTGGCGAATCTGGTATTTCCATTCCAACCACTGACTGGAAGTTTCCACCCAACTTTTGAGATGAACTGAAGACCAAATTAATAATAGATTCCTTCATGTTGCTCTAAAGCTTTGGAGTGTGTGAATCTATTATGTTTATCTTTTAG
Seq C2 exon
GTGTTTAAAGATAATTGCTGCAAAAGGGAAGTCCTCAATTTGTATGTGTTTTGCAAAAATGCTCCCAGATGTAATGCCAAGATTATTCTGGGACGATACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012020:ENSBTAT00000015940:3
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:
PF0009720=zf-C3HC4=PD(25.6=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
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]
SPECIAL DATASETS
- Pre-implantation embryo development