BtaINT0045201 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008500 | CTRB1
Description
Bos taurus chymotrypsinogen B1 (CTRB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105330]
Coordinates
chr18:2590736-2591554:-
Coord C1 exon
chr18:2591421-2591554
Coord A exon
chr18:2590951-2591420
Coord C2 exon
chr18:2590736-2590950
Length
470 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGG
5' ss Score
8.21
3' ss Seq
AGTCCTGTCTCCTTCTGCAGGGC
3' ss Score
10.47
Exon sequences
Seq C1 exon
CCCTCAAGACCCCTGACAAGCTGCAGCAGGCCACCCTGCCCATCGTGTCCAACACCGACTGCAGGAAGTACTGGGGCAGCAGGGTCACCGATGTGATGATCTGTGCGGGGGCCAGCGGCGTCTCCTCCTGCATG
Seq A exon
GTACGGCCTGCTACCCTGCCCGCCCTCACACCATACCTGCCCCTTCCCCACCACCACTGTGGTCAGGCCCTGAGGCCCACTCCTCTCTGCCATGCCTTATTTAACCTCAGGCCCTGCCCAGTGCCCCAGTGAAGGCGGGGACCAGCACCAGGAGACGGCCCTGATGCGGGCTGGCCCTGACCAGGTGTGGTGTGAGGCTTCCAGGGGTGTTTAACCTCACACTATGCTCACAAAGTGGACATTTCAGGCCGTTTTACAGGTGATGGGGAGGCTGAGAGGATCAGCCCTCGCCCCAGGCCCCCAGGAGTAGGGGGCAGAGCTGCCATCTGAGCAGGTCCGAGCATCTGTGCACAACCTCTGGGCCCCCACTTGCCCTTGGTCTGCACCCCTTGGACTCAGCCAGGTCCAGGCACACCTGGGCCCTGGCACCTTCTTTCCGGCTTGGACACAAGTCCTGTCTCCTTCTGCAG
Seq C2 exon
GGCGACTCTGGCGGCCCCCTGGTCTGCCAGAAGAACGGAGCCTGGACCCTGGCGGGCATCGTGTCCTGGGGCAGCAGCACGTGCTCCACGTCCACGCCCGCCGTGTACGCCCGCGTCACTGCACTTATGCCGTGGGTGCAGGAGACCCTGGCTGCCAACTGAGCCTGGGCCTTCTGGCATCCCACCCCAAGAGTCCCTAATAAAATCCTCTGTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008500:ENSBTAT00000011204:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.7=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=83.3)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAAGACCCCTGACAAGCTG
R:
GAGGATTTTATTAGGGACTCTTGGGG
Band lengths:
342-812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development