GgaINT1013956 @ galGal4
Intron Retention
Gene
ENSGALG00000026345 | GMIP
Description
GEM interacting protein [Source:HGNC Symbol;Acc:HGNC:24852]
Coordinates
JH376279.1:82327-83389:+
Coord C1 exon
JH376279.1:82327-82466
Coord A exon
JH376279.1:82467-83200
Coord C2 exon
JH376279.1:83201-83389
Length
734 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
AGCAATTTCTGCCATTTCAGTGC
3' ss Score
4.81
Exon sequences
Seq C1 exon
AAAATGGCACATCCCAGCAGCAGTTCAGGAACGCTCTCCTCTCCAGCGCTGCACAGACCCATCGACTCAGGAAACTGCGGGGACCAACCAAGTGCAGAGAGTGCGACACTTTCATGGTCAACGGCTTCGAGTGTGAGGAG
Seq A exon
GTGAGAGCTGTCATCACACGCACCTCGTGTGGCACCGTGGGGTGATGAGCAGCTCACTGTAGGAACATAAGGCTTCCCCTCACCCTGTAAAATCATATGCTTTTTTCCCCTCTCTTGACACAAGGTGCAGTTTTGGGTCCGTAAGTACAACAGCAGCTGCCCAAAGCAGTACCAAGAAGGAACCACGGGGCTTGGGTGGAAAGGGAATAGGAAAAGTCACGTTTGATATCTCCATCAGTGAGCAGGGTGAAGGCATGGAGCGTGCCCGTAGAAGGTTTGATGATGGCACAGAGCTGGGAGGAGTGGCTGCCACCCCCAGAAGGCCACACTGCTGCTCAGTGGACCTGGAGAGGCTGAGAGTTGGGCAGATATAAATCTGGTGGGGTTCAACAAAGGCAGGGGTAGGGTCCAGAATCTGGGGGGCAACAACCGCACGTATCAGTCTGGGCTGGGGCTGAGTGAGCTGTGGAAAGGAGCTCTGCAGAGGACACGGCGGTTCTGGTGACCAACGATTGACCACAAGCCAGTAGTGTGCCCTGGTGGCCAAGAATGCTAATGGGAGCCCAGAGTGCATTGCCCAGAGCATGGCCAACAGGGCAAGGGAGGTGCTTCTGCCCTCTGCTCTGCACTGAGGAGGCCCCATCTGGAGCACTGGGCCCAGTGCTGCGCTCAGCTGTTGCTGAAGGGCTGGACTGCAACCAGAGCAGAACTCAAAGCAATTTCTGCCATTTCAG
Seq C2 exon
TGCTACCTGACCTGCCACAAGAAGTGTCTGGAGAACCTGCTGATCACCTGCGGCCACAAGAAGCTGCCCAACAGGGTGCCTCTCTTTGGCATTGACTTCACCCAAGTTCCTCGAGACTTCCCGGAGGAGGTTCCCTTCATAGTGGTGAAGTGCACCTCTGAAATAGAAGCTCGTGCTCTGGGAGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026345:ENSGALT00000046009:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.298 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PU(56.2=57.4)
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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACATCCCAGCAGCAGTTCAG
R:
CTGCACTCCCAGAGCACGAG
Band lengths:
322-1056
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]