BtaINT0154237 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013509 | TTC16
Description
Bos taurus tetratricopeptide repeat domain 16 (TTC16), mRNA. [Source:RefSeq mRNA;Acc:NM_001102138]
Coordinates
chr11:98410265-98410856:+
Coord C1 exon
chr11:98410265-98410437
Coord A exon
chr11:98410438-98410765
Coord C2 exon
chr11:98410766-98410856
Length
328 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
TGCCCCTCTGCCCCCCACAGCTA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GATGGTCTGGAGCATGACAAAGCTCCCTCACAACACATCCCAAAGCCATGGGTGATTCCTGTGCCAAAGGGGACCCTCCAGCGCATCTTTGGGACCAGCCAAATCTTCCAGAACTTTGATGATATAAAACCAAAGGCTACGGGGTTAACCGTGCCCCTCAAAGTCAGGGAATA
Seq A exon
GTGAGTGACTCCCTTGCCCAGAGGTCCCAGGTTCCTTCCCTGCAGAGCCACTGACATGCTGTGCAGCCTTGGGCCAGTTACTCTCCCTCTCTGAGCTTCAGCGAGCTCAACTGTATAATAGGGCTCTTCCACCTCAGCAGCAAAAAAAGGCTGGATGAGCTCCAAGAATGGCCATCCTCCTCTCCCTGGGTCTCTGTCTACCCCTCTTGTCTTCCTACCCAAGTCCCTCTTCCTTGCAACCCATTCCCAAAGCCCCAGATCTATGTCTTGGGCTGGTCCCAAGTCGGCCAGCCCCCGCCCCCCGCCTGTGCCCCTCTGCCCCCCACAG
Seq C2 exon
CTACCATCGAGCTCATCAGTGCTTGGAGCAAGAGGACTGGGAGATGGCCGTGCTCTTCTTCTCCCGCGCCCTCCACCTGGACCCCCAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013509:ENSBTAT00000043180:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(6.0=6.9)
A:
NA
C2:
PF134141=TPR_11=FE(44.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCTGGAGCATGACAAAGC
R:
TGGGGGTCCAGGTGGAGG
Band lengths:
258-586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development