BtaINT0002951 @ bosTau6
Intron Retention
Description
Bos taurus thyroid hormone receptor interactor 10 (TRIP10), mRNA. [Source:RefSeq mRNA;Acc:NM_001081530]
Coordinates
chr7:18960639-18961178:+
Coord C1 exon
chr7:18960639-18960806
Coord A exon
chr7:18960807-18961068
Coord C2 exon
chr7:18961069-18961178
Length
262 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
AATCCTCTTCCACCTCGCAGACA
3' ss Score
9.05
Exon sequences
Seq C1 exon
CCGTGTCCCCCACCTCTCTCCCCCCTGGGGGGCCCCCTGCCCTCGGCATTACCTAATGGACCCCCGTCCCCCCGCTCCGGCCTCGACCCCTTGGCCATACTGAGCGAGATCAGTAAGTCGGTCAAACCGCGGCTAGCATCCTTCCGCAGCCTTCGAGGCAGCCGTGGG
Seq A exon
GTAAGTGAGGCCTCTGGGGGAGGAGGAGGGGGCGGCCCCAGCCCGCCCAGCGGCCGGGTGGCGGGACCCTGGGCTCGCTTCCTGCCGCAGGCTGGGCCCCCTCCTTCCAAGGCCCCACCTGGACCTGCTTCGCTCTGTGCATGGCCTTGCCCCCCAAGAACCTTGGGCAGGGAGGAAGGTGGACTCGGTGTGTCTTAGGCCTATCTTAGACCTGGGAGCTCAAACTCTGTGTTCCGGAGCTCAATCCTCTTCCACCTCGCAG
Seq C2 exon
ACAGTGGTGACTGAGGATTTCAGCCACTTGCCCCCGGAGCAGCAGAGAAAGCGACTGCAGCAGCAGCTGGAAGAACGGAACCGTGAACTACAGAAGGAGATGGACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013834:ENSBTAT00000018391:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.696 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF136541=AAA_32=PU(10.5=28.6)
A:
NA
C2:
PF136541=AAA_32=FE(23.7=100),PF045028=DUF572=PU(21.7=97.3),PF143891=Lzipper-MIP1=PU(34.1=78.4),PF0218511=HR1=PU(30.7=62.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCCCCCACCTCTCTCC
R:
CTCTGGTCCATCTCCTTCTGT
Band lengths:
276-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]