BtaINT0154235 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013509 | TTC16
Description
Bos taurus tetratricopeptide repeat domain 16 (TTC16), mRNA. [Source:RefSeq mRNA;Acc:NM_001102138]
Coordinates
chr11:98421475-98422764:+
Coord C1 exon
chr11:98421475-98421634
Coord A exon
chr11:98421635-98422679
Coord C2 exon
chr11:98422680-98422764
Length
1045 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CAGCCTGTCTCTGACCCTAGGAG
3' ss Score
8.38
Exon sequences
Seq C1 exon
GCAGCTCAAGGATCGGGAACAGAGGGCCCGGGCCGTGATCCTATCTTGGAAGCTGGAGCCGCCTTTACTGGAGACCCCCAAGGAGATGGAGACCCCTCTCCAGTTCCCGCAGGCAAAGCCAGAAGGCCCAGAGGAAGAGGTGCAGGTTCCTGGGAAGAAG
Seq A exon
GTAAGTGCGCCCCATGCCAGGGCCGGGTTTCCTGGAGGCGCAGGGAGGACTGTACCCTAAGCCAGGGCTGAGGGCTACAGGCTGGCTAGAGGCTGGCTCTGCCACGACTCAGCTATGTGACCTGGGCTGGGGACATGTTGCTGTGAGGTGGAGAATGTACCAGTAAAGGGGTACACCTGAAGGAGTGCAGGTGAAAATTGGGGCCCCTCACAGAGGCAGGCTTCCTACACTTTGTCCACACTCACCTTCCCGCAATGCAGGAGATCGGGTTTGATCTTTGGGTCAGGAAGATCCCCTGGAGAAGGGAATGGCAACCCACTCCAGTACTCTTGCCTAGAAAATTCCATAGATGGAGGAGCCTAGTGGGCTACAGTCCATGGGGTCGTAAAGAGTCGGACACGACTGAGCGACTTCCTTTCACCTCTAGTTGCAGTTGGGGGGGGCTCCTCTTTGCTGCGGTGTGTGGGCGTCTCATTGCAGCGGCTTCCCTTGTCGTGGGGCACGGGCTCGAGGCCCACGGGCTCAGTGGTTGCAAGTCATGGCTCTAGAGCTCAGGATCCGGAGTTGTGGTGTACTGGCTTAGTTGCCCTGTGGCATGTGGGCTCTTCCCGGACCAGGGATTGAACCTGTGTCCCCTGCATGAGCAGGCGGATTCCTAACCACTGGACTACCAGGGAAGCCCCCAGAATTTTAACACTTGGATTCATTGCTAAAAACTTTTCATTGAGTGGAACATAAAGTACACAAATCCTCAGTGAACTGTTTGATGAATTTTCACAAACTGAATACCCACCATGATTCCATTCTCTAGCTCAAGAAAGAACACATTCCCAGTTTTCCAGAAGCCCCTATCACCTGGCTCTGGGCCCCTCCTCCGTCAGGGCTGTTCTGATTCCTAACACTGCCAACAAGTGCACAAGCAGTCAACTGCCCCATGTCCCCATCCAGCCCTAAACTGCAGCCCCCGAGGAGCTCTAAGTGGCTGGCCTTCTAGAGCTGTGGCCTCCCACGGCCTGCCAACTGCCCAGCCTGTCTCTGACCCTAG
Seq C2 exon
GAGAAGCTGAAGCCGGCCCCCAGCAAGGAGTCATCCTTGACCGACAGCTACATCAGCCAGACCTCCTTAGGCTCCATCTTGGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013509:ENSBTAT00000043180:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.611 A=NA C2=0.724
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
AGCTCAAGGATCGGGAACAGA
R:
GCCCAAGATGGAGCCTAAGGA
Band lengths:
242-1287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development