BtaINT0067424 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015144 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
chr7:3619759-3620671:+
Coord C1 exon
chr7:3619759-3619955
Coord A exon
chr7:3619956-3620283
Coord C2 exon
chr7:3620284-3620671
Length
328 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TTCTGCTCCTTCTGCTCCAGGGT
3' ss Score
9.42
Exon sequences
Seq C1 exon
CTCACTGACCCCGTGGTCCCCTTCCACCTCTACGATGCCTTCATCTCTCTGGCTAAGACCCTGCATGCAGACCCTGTGCACGACCCTGGGACCCCCAGCCCCAGCCCTGAGGTTATCCGCTCGCTGAAGACCCTCTTGGTGCAGCTGCCCGACTCTAACTACAGCACCCTGCGGCACCTGGTGGCCCATCTGTTCAG
Seq A exon
GTGTGCACTGTCCTTGATCTTGACACGTGACTTCTGATCTGAGGCTCAGACTGTTGTGCCCTCCTTAGACATGGGACCACTGACCCCTGACACTGACTTCTGACCTTTGTATGTGTTTTCTGAGCTCTGAAACTTAATACATGACTTCTGACTTTGGATGCTGACCCTTGACCCCCATCTCCAGGCTTGTGGCTACTGGTCGCAAACAATGACCAGGACCTCTTACCCATGACTTGAGCAAGTCGCCACTAGCCTGGTTTGCAGGTCCTACCCAGTGACCAGTAATCAGACACTCAGGGCCCTGATCCTTCTGCTCCTTCTGCTCCAG
Seq C2 exon
GGTGGCTGCACAGTTTGAGGACAACAAGATGTCTGCCAACAACCTGGGCATTGTATTTGGGCCGACGCTGTTGCGGCTGCCCGACGGTCCAGGGCCAGCAGGTGCCGGGCCTGTCACCTGCCTGCTGGATTCCGCACACCAGGCTCAGCTCGTCGAGTTCCTCATTGTGCACTATGAGCAGATCTTTGGGCCTGACGAGCTCCTCCTGGCCACTGAGCCCCTGCCCCGAGACCCCAGCCCACCCCCTGCGACCCTCCCAGCTAGCCTCCAGCCACCACACTTACAACTTGTCCTGGACCCCCTGCCCTTATCCCTAGCCTCAGACCGGGACCCAGACGCCATGCTCCTTGGTGCCCTGGAGAAGCATCCCGAGGCCACGCTCCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015144:ENSBTAT00000020147:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.431
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(39.9=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(19.6=24.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTCTGGCTAAGACCCTGC
R:
GTCAGGCCCAAAGATCTGCTC
Band lengths:
350-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]