BtaINT0152200 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012020 | TRAF5
Description
Bos taurus TNF receptor-associated factor 5 (TRAF5), mRNA. [Source:RefSeq mRNA;Acc:NM_001105340]
Coordinates
chr16:73902738-73905469:-
Coord C1 exon
chr16:73905395-73905469
Coord A exon
chr16:73902831-73905394
Coord C2 exon
chr16:73902738-73902830
Length
2564 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CGTTTCTCTTTGTCTTAAAGGAT
3' ss Score
9.71
Exon sequences
Seq C1 exon
GTGGATGAACACCTGGCCGTGTGTCCTGAAGCTGAACAAGACTGTGCTTTTAAGAACTATGGCTGTGCTGTAAAG
Seq A exon
GTATGGAGTGACTGTGTCTGTCTGCCTTCTGCTGTATCATTCATTTTACTCTGATTCCATTCAGGATGCAGGACATTCAGTGTCTGTGAAACTGTAAGACTGGCAATAACTAGTGGTTACCAGTAGGGAGAGGGAAGATGGGAGTAGGGAATTAAGAAATACTATGTATAAAATTAATAAGCTACAAGTATATATATAATGCACACAAGGAATATAGCCCATGTTTTGTAATAACTATATATGGAATAGAAAAAAAAAAGACTGGCAATTGTATTAGGGTTCTCCAGAGAAACACAACAATTAGTTTATATATACATAAAGTTCATAATACCTACTTTTTGAGGTTTGCTTGTATCTGTGAAAATAAAAATGTGACCTGACACATTGACCTTGCAATTTTACTGCTAGGAATTTATTTCACAGATATCCTTTCATAAGTATGCAATGATCACACACCTAAACAAACACACATACACAGCAAATATATCTTGTCTATGAAGGATAGATTCCAAGAGCCTCGATGGATGTCTGAAACCATAGTACCAAACCTTATATATACTATGTTTTTTCCCCTATAACATACATATGATAAAGTTACGCATTTATAAATTAGGCACAGCAAGAGGATACCTGAATTGCCAGCATCATTTGGGGCCATTATTGAATAAATATGGATTACTTGACCACAGCACTTTGATATTGCAACAGTTAATCTGATAACCGAGATGACTAAGTGACTAATGGGTGGGTAGTATGTATAGTTTGGATACCTGGACAGTGGGATCACTCACCTCTGGGGCAGGATATAGCAAGAAGAAACAAGAGTGCATCATGCTACTCAGAACAGCTCACAATTTAAAGTATGAATTATTTTCTAAAATTGTCTATTTCTTATTTTTGGACCATGATTAACCATGGGTAACTGAAACCACAGATATCAAAACTGTGGCTAAGCTGGAACTACTGTATTTAGCAAAAAAATCAACAGAAGTGAAAAAAAAAATATATATATATATATATATATTCATATTTTGGAATACTATGCATCTGATAAAAAGCATGAGGTATATATTTTTTAAATTACTTACACTATGACCTCACTGTGTTGAAAATGTATGTATATCTTTGCTGACTCTGATGAGTGAGACTAGGGAATTGGATGTGGGGACAGAGAAAAGGGGACTTCTACTTTTCATTCTGCTGCTTGCTGTGTTGTTTGACACAGGCATGCTGCACCATGCTCAGTAGCTTCAGTCCTGTCCAACTCTTTGTGACCCTATGGACTGTAGCTGCCAGGCTCCTCTGTCCATGGGATTCCCCGGGCAAGAATACTGGAGTGGGTTGCCATGCCCTCCTTCCTCCAGGGTATCTTCCCAACCCAGGGAACAAACCCATGACTCCTGTGTCTCCTGCACTGCAGGTGGATTCTTTACCCCAGAGCCACTGGAGAAGCCCTTGACCCCAGCATATGTTTCTCTTATTTTTTTTAAGCTATTTGAAAAACACCTTTAAAAAATCAGTGAAGAGTCCATAAATGTGTCACATATCAAACCACAATTGTCTCAGCTGCAGAAAGCATAGGGTTTATCTTCCTCACACATGAAACACAGAATTGCTTTCCAGCTCTAAAAGGATTCTTCTCTACAGTTAGGGTCCATCTCCCATTTGGATTCTATTTGAGGACTTACCTTAGTGCCAGAGCTGGGGATGGCTGGGGGAGTTGTGCTCTGCAAGAGGGCCAACCCTCAACTGAAGGGAAATTGATGATAAATGTTTACTTAGACTCTATGGGTCACCTGTACCATTTGCTTTTATTAGTTATAGAGGCAACCTGCAATGAAATTTTAAGGATCAGGGAAAAAGTAACCATTTGTTCTTGCAAACATATACTTTTATTTTGAGGGCAACAAATTTGCATGGGCTGAAACTACAGTTCAGTTCACCTTCTGCCCACAATAGCAAGACAGTGGTAAAAAGTGGTAGAGGAGTTTGCTCGGTAGGCTGATCAGTAGGTAACCCACCACCAGGGAGACAGGTTTTATATGGAATAGTTGAGAGCTGATGATAACTACACTCAGCCCTCAGTCATGTGCTCCTAGAGCAAGGAAAGGCTTCCCAGGTGGCACTGGTGTAAGGAATCTGCCTGCCAGCGCAGAAGATACAAGGACTTGGGTTCAATTCCTGGGTTGGGAAGATCCCTGGAGGAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATTCCATGGACAGAGGAGCCAGGCGGGCTACAGTCCATCGGGTCACAAAGAGTCAGACACGACTGAATGTCTGAACACAGCACAGGGCAAGGAAGGAAAGCAGCACTGAGAATTTTGATAGTGGCCTGACTCTCTGTGTCTTCTGGGTACCAAAGAATCGTAAAGATGTAAAAGGGGCCTGGGAGGGATCCTTTTCCCTGAAACCCACCTTGAGACAAGTCAGCAAAGTTGTTAAAGTTCAGCTTTAGCAGAATGTCCTGCCACCACCCTCATGTTGGAAGCCTTTCAACAACCTGACTCACGTTTCTCTTTGTCTTAAAG
Seq C2 exon
GATAAACGGGGGAACCTGCAGGAACATGAGCGTTCGGCCTTACGGGACCACATGCTTCTGGTTTTAGAAAAGAACTTCCAATTAGAGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012020:ENSBTAT00000015940:7
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=0.032
Domain overlap (PFAM):
C1:
PF059116=DUF869=FE(9.7=100),PF0217613=zf-TRAF=FE(40.7=100)
A:
NA
C2:
PF059116=DUF869=FE(12.1=100),PF0217613=zf-TRAF=PD(13.6=25.8)
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]
SPECIAL DATASETS
- Pre-implantation embryo development