BtaINT0067417 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015144 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
chr7:3617700-3618243:+
Coord C1 exon
chr7:3617700-3617887
Coord A exon
chr7:3617888-3618136
Coord C2 exon
chr7:3618137-3618243
Length
249 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CCTCAAACCTCTCCTCTCAGTTC
3' ss Score
6.29
Exon sequences
Seq C1 exon
GTGACCCTGGGATTGTTCGGGCTTCGAGGGGCTCAGGCAGAGCATGGCCCCCGCGCCTTCGCTGCCCTGGCCGAGTGCTGCGCTCCCTTCGAGCCCGGCCAGCGATACCAAGAGTTCGTGAGGGCCATAAGGCCCCACTCCCCACCGCCCCCGCCACCCGCCTATTCTTTCCAGGAGTTCACGCACAG
Seq A exon
GTGGGTCCCCAGGAGCAGGGTCAAATAGGAAGCCAGGGAGACGCGGCGGCGCCAGGCATTTGGGTGGGGTTGTCCTAGTCCTGGGAGGGTTGGGAATTTGGGGTTACTGCACTGGGGGCGATGATGCCCATGGCCATAAGGGCTTGCAGACCTAAGTCCTTGAAGTTGGGTCCTAAAAGGGATGCCAGGGGTGATGTCAGTCCCAGGCCAGCTTCCTGATTATCAGAGCCCTCAAACCTCTCCTCTCAG
Seq C2 exon
TTCCCCCCTGGACACAAGAAAGAAGCTCTCTGGAGCACCCCCTCCACAGCTGGATGAGAGTGCAGCTGAGCCAGGCCCTTGGGAAGACACAGGCACAGGCTGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015144:ENSBTAT00000020147:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.492 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACCCTGGGATTGTTCGG
R:
CTGTGCCTGTGTCTTCCCAAG
Band lengths:
286-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]