BtaINT0092727 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003600 | MGC151839
Description
Bos taurus calpain 8 (CAPN8), mRNA. [Source:RefSeq mRNA;Acc:NM_001081619]
Coordinates
chr16:27682165-27682891:-
Coord C1 exon
chr16:27682813-27682891
Coord A exon
chr16:27682282-27682812
Coord C2 exon
chr16:27682165-27682281
Length
531 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGGCCCCCCTCTGCCCACAGGTT
3' ss Score
12.42
Exon sequences
Seq C1 exon
GACATCTTTCGGGAGACCGATCATAACCACTCGGGGACTATTGATGCCCACGAGATGAGGACAGCCCTCAAGAAGGCAG
Seq A exon
GTGAGGACACATCCTGAAGGCAAGATCCCGAGACTGGGATGTGCTCATTGTAAATGTGCTTAATATGATGGTGGTTGCTAATGACCATCAGTGGTAATTGCCTTATGTTGGATGTCAGTGTGATAACAAAGACGTGTTGAGTACCTTCCTTAACTGGGGAGCAGGGAATGTTGCTGGATTCTTTAGACTTTTTCCAAGGACTTTGCCTGTTCCTGGGAAGGTGACAGGAATCACAGGACTGGGCTGTGCAGGGGATGGGCAGGAGAGGCAGTCCCTTCACCTTCCCTGTTTTTTTTGCTGTCGTCCATGTGATGCAAAGCTAAGTTAGTGCTGGAGCTCCAGGCCTATTTTTGGACCAAGGAGGAGGTTCATCCTGTTGAGGATTTTCTAAAAGGAAACTGATTTGATTACCAGAATCCTCTGGAATCCTTTGAAGGGGGCAGTATCAGGCCAGAGTTAGCCCTGAGTTCTGTTGGAGATAGAACTGAGCCCCCCATTCCATCTGTGACCCTGGCCCCCCTCTGCCCACAG
Seq C2 exon
GTTTCACCCTCAGTGACCAGGTCCAGCAGACCATCGCCATGCGGTACGCATGCAGCAAACTCACCATGGACTTTGACAGCTTCATTGCCTGTATGATCCGCCTGGAGACCCTCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003600:ENSBTAT00000011676:19
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:
PF0229611=Alpha_adaptin_C=FE(27.7=100),PF134991=EF-hand_7=FE(28.0=100)
A:
NA
C2:
PF0229611=Alpha_adaptin_C=FE(41.5=100),PF134991=EF-hand_7=FE(41.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCGATCATAACCACTCGGG
R:
TGAAGAGGGTCTCCAGGCG
Band lengths:
182-713
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development