BtaINT0154243 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013509 | TTC16
Description
Bos taurus tetratricopeptide repeat domain 16 (TTC16), mRNA. [Source:RefSeq mRNA;Acc:NM_001102138]
Coordinates
chr11:98415568-98416329:+
Coord C1 exon
chr11:98415568-98415812
Coord A exon
chr11:98415813-98416187
Coord C2 exon
chr11:98416188-98416329
Length
375 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
ACTCAGTCCTCGCGCTCCAGATT
3' ss Score
4.24
Exon sequences
Seq C1 exon
GGGCACCATGTACCGACGGCTCCAGGATTTTGACTTGGCAGTGGAGGACTTCCTGAAGGCGCTGGACATGATGAGCGACCACCAAGAGGAGCTGGTACAGCAGGCCCAGCGCCAACTGCTGCTGGCCTACAACGATTTCGCGGTGCACTGCTACATGCAGGGAGCCTACCAGGAGAGCGTGCTGCTGCTCAACAAGGCGCTCAAGGACGAGCAGCAGGAGAAAGGCCTCTACATCAACCGCGGCG
Seq A exon
GTGAGTGGGGTCCCGGGGAGCCCGGCGTGAGCCCCTTGCCTCTCTAAGGCCTGGACTGGGCGCTCGAGGGCCCCGAGGGAGGGAGGGAGGGAGAAGAGGCCGAAGAGGAGTCTCAGTGTCCCACTGAGACACACTACTGCGGGGCGGGGCGGGGGACGTTGTTTGAGAGACCACCTGGCTACATAGTCCTTCAAAATGCTCAGATCAGGTATCTGGAAAGAGGTGCCCAGCTGCACAGAAAAGCAGCTGCAGGTGCTGGCGACCGCCCACGGGTATTACCAGTTGCAGGCCCCGCCTCCTAGGGGGTGGAGCCAACTGGGCCGCGGCTCCTGCGCCCTGGGTTTTTGCGATCCCCACTCAGTCCTCGCGCTCCAG
Seq C2 exon
ATTGCTTCTTCCAGCTGGGCAACCTGACCTTTGCTGAGGCGGACTACCAGCAGGCGCTGGCACTGAGTCCGAAGGACGAGGGCGCCCACCTGCGCATGGGCCTGTTGCAGGAGAAGTTGGGCTTCTGCGAGCACCGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013509:ENSBTAT00000043180:8
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:
PF134141=TPR_11=PD(36.8=30.1),PF134141=TPR_11=PU(64.7=53.0)
A:
NA
C2:
PF134141=TPR_11=PD(33.8=47.9),PF134141=TPR_11=PU(22.4=31.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACGGCTCCAGGATTTTGAC
R:
AAGCCCAACTTCTCCTGCAAC
Band lengths:
356-731
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development