MmuINT0130787 @ mm9
Intron Retention
Gene
ENSMUSG00000035437 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:MGI Symbol;Acc:MGI:2385139]
Coordinates
chr2:37411226-37411826:+
Coord C1 exon
chr2:37411226-37411318
Coord A exon
chr2:37411319-37411715
Coord C2 exon
chr2:37411716-37411826
Length
397 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
CTTTTTTCCTCCTGCTGCAGCGG
3' ss Score
9.3
Exon sequences
Seq C1 exon
ATTAGCCAGAAGAAGCTGAAGAAGTTTGAAAAAGAGTACCATACCATGAGGGAGCAGCAGGCCCAACAGGAAGACCCCATCGAGCGATTTGAG
Seq A exon
GTTTGTTTTACAGCCTTTTAATATCATAGACTTATGCCCACAGCTAGCTTTATTGACTCATTTTAAAAACTTACTTCCACTGTTTCAAGACTGGTTTTCAGATTGAGTTTACAAAAACTAAGTAAGAGCTGTTTTGCTGCAAACCAGCTGCCCAGGTTGGATGTTCTTTCCTCAGTCAGTCAGAGACAACTGCTTGACAGGTCACCATAGTCAGTTATACACTTCTTTGAGGAGACAGAAAATTAGAAATTATTTGTTTAGAAACATGATTGTGTGAGCCATGTCTCTCTATTCTACAGGTCTTGGAGACCTACTTTGAAGCTTAACTCTTAAAGACTGTCATTTCCATTTGATTTGTTATTTATGTCCATAACTGACTTTTTTCCTCCTGCTGCAG
Seq C2 exon
CGGGAAAATAGGCGGCTGCAAGAAGCTAACATGAGGTTGGAACAGGAAAACGATGACTTAGCTCATGAACTAGTCACCAGCAAAATTGCATTGCGGAAGGACCTGGATAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035437-Rabgap1:NM_146121:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.324
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAGAAGAAGCTGAAGAAGT
R:
TATCCAGGTCCTTCCGCAATG
Band lengths:
199-596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: