HsaINT0136502 @ hg19
Intron Retention
Gene
ENSG00000161800 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:9804]
Coordinates
chr12:50386333-50388112:-
Coord C1 exon
chr12:50387914-50388112
Coord A exon
chr12:50386439-50387913
Coord C2 exon
chr12:50386333-50386438
Length
1475 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGCTTTCTTTTCAATTACAGAAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
ACAGGCCTGTATAGGATCTCTGGCTGTGACCGCACAGTAAAAGAGCTGAAAGAGAAATTCCTCAGAGTGAAAACTGTACCCCTCCTCAGCAAAGTGGATGATATCCATGCTATCTGTAGCCTTCTAAAAGACTTTCTTCGAAACCTCAAAGAACCTCTTCTGACCTTTCGCCTTAACAGAGCCTTTATGGAAGCAGCAG
Seq A exon
GTAAGGGCAGATGTAATACTTGAATATGAATTCCTCCACGGCAGTAGTTTTTCTTACTCTCTTTATTTTTTTATTTATTTTTTATTTTTTAGACAGAGTCTCACTCTCGCCCAGGCTGAAGTCAGTGGCGCAATCTCAGCTCACTGCAACCTCCGTCTCCCAGGTTGAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTAGGATTACAGGCGTGTGCCACCATGCCTGGTTAATGTTTTCTATCTTTAGTAGAGATGGGGTTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGCCCTGTGATTTGCCTGCCTCGGCCTCCCAAAGTGCTGCGATTACAGGCGTGAGCCACCGTGCCCAGCCTCTTTTTTTTTTTTTTTTAAGACGGAGTCTTTCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCTATCGGCTCACTGCAAACTCCGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGAGATTACAGGCGTTAACGGTGTTATACCATGTTAGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCTACCCACCTTGTCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCACACCTGGCCACCTTCCTCTTTTTATTAGCTCCTGCCTAGTACAATGCCTGAAACATAGTAGGTGCTCAAGTAGTTTGATGGATGAGTAACTGTATGCGTGTCACCCTTGCCTATCCTCTTGCTTTCTCATTACGTTATTGTGTACAGTGTTCTTCCTTTCTTTCCTTCCTCTCCAGTTAGGTTGGAGCTTTTTCAATTCTTAGAATATACCAAGTTTACTCCCTACCTTAAGGCCTTCACATTTGTTGTCTCAACCTGAATGCTCTTACATTAGATACAGTATGGTTTGCTCCTTTATTTCTTTCATATTTCTCTTCATATACCTTGTCCCCAGAAACACCTTTCCTGACAACCTTGTCTAGATTAACAGCTCTCATTTCTTTCTAGCTTCTTGCCTGCCTTGTTTTCTTCATTTATGTATCACTCTACCTGATAGGTATTTGCTTTTTGACTGACTCCACCAATAGAATGTAGGTTCCATAAGATAAGGGCTTTGTTTACTTCTGCTTTATCCTCAGCACTTGTACCTGGCACATCGTAGGCCCTTAAATATGTCTCATGAATGAATACCTTCTTGGTAATTGTAGTCACTGCAATTGTATGCCTGTCTGCCTAGCACATCAGTTGCCAACTGCTTTCCCTAACTGCAAAGGCCGATTTTTTAAAAGTTTTGACTTCTAATATTGAGCTGTTGGCCAGTATCCTGCTTGTTAATGAAACTAGAGTCTGATGTAGTCATGAACTAATCAGGAGTTTCAGAAGCTTACTGTATAGATGAGACTTTGTGGTCGATAACTTGGAAGCCCGCTGTCAAGGGAAAGAAGTCTAGGCCTCTTGGTGCTTTCTTTTCAATTACAG
Seq C2 exon
AAATCACAGATGAAGACAACAGCATAGCTGCCATGTACCAAGCTGTTGGTGAACTGCCCCAGGCCAACAGGGACACATTAGCTTTCCTCATGATTCACTTGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000161800-RACGAP1:NM_001126103:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(43.7=100),PF047849=DUF547=FE(66.7=100)
A:
NA
C2:
PF0062022=RhoGAP=FE(23.2=100),PF047849=DUF547=PD(9.1=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGGATCTCTGGCTGTGACCG
R:
CTCTGCAAGTGAATCATGAGGA
Band lengths:
294-1769
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)