HsaINT0136402 @ hg19
Intron Retention
Gene
ENSG00000152061 | RABGAP1L
Description
RAB GTPase activating protein 1-like [Source:HGNC Symbol;Acc:24663]
Coordinates
chr1:174926594-174927327:+
Coord C1 exon
chr1:174926594-174926686
Coord A exon
chr1:174926687-174927027
Coord C2 exon
chr1:174927028-174927327
Length
341 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TAATATTTCTTTTCTTTCAGTTT
3' ss Score
9.37
Exon sequences
Seq C1 exon
GTACCAACCAAGAAGCTGAAGAAATATGAGAAAGAATATCAGACAATGCGAGAGAGTCAGCTGCAACAGGAAGACCCAATGGATAGATACAAG
Seq A exon
GTATGAGAAATATGTTGCACCTATCAAAGTACCTTCTTTTTTGTTTTAAATGAGACTGAGTCTTGCCGTGTTGCCCAGGCTGGTCTTGAACACCTGGCCTCAAGCAATCCTCCCACTCCAGTCTCCCAAGTAGCTGGGATTACAGGCACGAGCCACCATTCCCAGCAAAGTACCTTTTTTTTTTTTTTTTTTTTTTTCTTAAAGCAGCAGTTGTGGCAAGTTCAATTCCCTCTGTTCTTCCTTGATTGATTTAGATGCTCTCTGATCATGCTAACTGTCCAGGTATGTTTTCATTTCAGGAGACTCCCAAATAGCCAACCATAATATTTCTTTTCTTTCAG
Seq C2 exon
TTTGTATATTTGTAGGTAACTCCAGCTGTTGCATTTATACTGGGAATCTTCATAAGAAGCTGAGAGAAAGAGAGGGGAAAAAGAAAGTGGCTTTCTACTTTCAAAAATGAAACAAAAAGGAAAAATGGCAAAGTACTGTTTTAGCTGTGCATGTCATATCCACAAAGACTTTTAGCAGGTGAACTGTTCCAAGACTGACACAAGGATGTTTCAAACTTGCCTCTGTCTGTAGAAAATGTTAAAAATACCAACTCACTTGGAAGGAAAAATAAAAATCACAAAGGTATATTGAGCACAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000152061-RABGAP1L:NM_001035230:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.248 A=NA C2=0.000
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:
CGAGAGAGTCAGCTGCAACAG
R:
ACTGTGCTCAATATACCTTTGTGA
Band lengths:
344-685
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:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)