BtaINT0067421 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015144 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
chr7:3618888-3619422:+
Coord C1 exon
chr7:3618888-3619042
Coord A exon
chr7:3619043-3619233
Coord C2 exon
chr7:3619234-3619422
Length
191 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGG
5' ss Score
9.4
3' ss Seq
CCCTCATTACCGTCCCTCAGTGC
3' ss Score
7.42
Exon sequences
Seq C1 exon
ACCTGGGAGATGGGCTGGAGAACGGGCCAGGGACCCCCTTCAAGAAGTGGATACTATCCAACGCGGCCCAGACCCACCGGTTGCGGCGGCTGCGGGGCCCAGCCAAGTGCCGAGAGTGTGAGGCTTTCATGGTCAGCGGGACAGAGTGCGAGGAG
Seq A exon
GTACGGCCTGGGCTGACGACCTAATGACTTCTGCTGACCCCCAGTGACCTCTCTGACCACAGGCATCTCCGTGACCTGAGATTCCTAAGACCTTCCCATGAGAGGCCTGCCCTGATCTGATGCTCCCCTATGAACCCCCTGAGTATCTCTATGACCTTCTCTCCCCACTGACCCTCATTACCGTCCCTCAG
Seq C2 exon
TGCTTTCTGGCCTGCCACAAGCGCTGCCTCGAGACCCTACTGATCCTCTGTGGACATAAGCGGCTACCAGCCCGGACGCCCCTGTTTGGGGTCAGCTTCCTGCAGCTGCCCAGGGACTTCCCGGAGGAGGTGCCTTTTGTGATCACCAGGTGCACGGCCGAGATAGAACAGCGCGCGCTCCACGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015144:ENSBTAT00000020147:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PU(56.2=51.9)
A:
NA
C2:
PF0013017=C1_1=PD(39.6=30.2),PF0062022=RhoGAP=PU(11.0=28.6)
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:
CTGGGAGATGGGCTGGAGAA
R:
CAGGAAGCTGACCCCAAACAG
Band lengths:
255-446
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]