BtaINT0012216 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008424 | ABR
Description
Bos taurus active BCR-related gene (ABR), mRNA. [Source:RefSeq mRNA;Acc:NM_001046204]
Coordinates
chr19:22423565-22424974:+
Coord C1 exon
chr19:22423565-22423704
Coord A exon
chr19:22423705-22424839
Coord C2 exon
chr19:22424840-22424974
Length
1135 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CCCTCCCGCCGCCCCCACAGATA
3' ss Score
9.91
Exon sequences
Seq C1 exon
GCGGGAGCGCTCCAAGGTGCCCTACATCGTGCGGCAGTGTGTGGAGGAGGTGGAGAAGCGGGGCATCGAGGAAGTTGGCATCTACCGGATATCAGGGGTGGCCACAGACATCCAGGCGCTGAAGGCCGTCTTTGATGCCA
Seq A exon
GTGAGTCTGGGAGGCCCAGCCCGGTGGTTGTGGGGAGGGGGCGCTCCAGCAGGTTCCTAGAGCTGGTGGGAGAGCGTAACGAAAGCAGGAGGCTTCTCCATGGAAAGACCCTGACTAGCCGATGGCAGAGGAGCCTTGGACTGTACACTCTGGCCCGGCATGGCATGGGGTGGACCATTGCTGAGTCCTTGTGACATGGGCCTGCCCTGCATTTTCTCATGTAATCCGTTGCCCTCCAGTCTTGCCTCCGTTGCTACAGATAAGGAAGCAGAGCCTCAGAAAGGCCAAGTACCTTGCTCAGGATTACTCAGTTCATAAGCTTTGAGCCTGATTTAAACTCGGATCTTGCTGACTCCAGAGTCTGTGTTCCTGGCTTTGTTGCTGGCCTCCCAGGCTGCAGGGAAACTAAAGAGCTTTCAGCCGGGCTGGCTGGCTCTGGCACCCCCACCTTCTGCGGTTCCCCAGTGCCCTTTGGGAGAGGCGCTGCTACCTTTCACTTTGACTGAGCCCCTCGGTGGGAGGGCCTGACCTTTCTGGTTCTTTCCCCCATCTTGCCGTTCAGGCTGCAGCAACAGCATTGCTAGCAGTCAGGACCCCTGAACTGGCTGGGCAGTGCTGATCCTGTGGGAGCTGAGAGGGGGTCTGGTGGGTGTCTCCAGGCAGCTGCCAAGCAGACATGTTCAGGGAACCTGGGGGTGGGGGGTAAGCTGGGGACAGGCTGGCACATGGCTCCTCTATGCCACCCGGAAGCCAAAGCTTTGTCAGAACATGATTTTAGGCATAAAAATGCGCAGTGCCTTCCAGAGAGGGGCTTAGCGGCGGGGAGACTGCAGCTGGAAGGGGGGCATGTGACACGCGGTGTGAATGTGGCTCCAGGACTCTGGATGGTGAACTGTGCTCCCCTCCCCTTCTCCCCCACGGAGCTGAGTCACAGACCACCTGTGGGCACTACCTACATCTTGCCTTTGCTGGGGAGACCAGACCAGAGACAGAGTGGGTTGGGGGTGCATGCCCCAAGCAGGCTGTCTCAGGGTGGATGGGGGGACAGATTGGGGCTCCCTGTCCCGCTGAGGGCTGCATGGGGGTGGGAGGTGGCTCAGCCAGCACAGCCCCTGCCCTCCCGCCGCCCCCACAG
Seq C2 exon
ATAACAAGGACATCCTGCTGATGCTGAGCGACATGGACATCAATGCCATTGCCGGCACCCTCAAGCTCTACTTCCGGGAGCTGCCCGAGCCCCTCCTCACAGACCGACTGTATCCCGCCTTCATGGAGGGCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008424:ENSBTAT00000011083:19
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:
PF0062022=RhoGAP=PU(26.1=83.3)
A:
NA
C2:
PF0062022=RhoGAP=FE(29.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTCCAAGGTGCCCTACAT
R:
CCTCCATGAAGGCGGGATACA
Band lengths:
262-1397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development