HsaINT0136506 @ hg19
Intron Retention
Gene
ENSG00000161800 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:9804]
Coordinates
chr12:50382945-50384575:-
Coord C1 exon
chr12:50384467-50384575
Coord A exon
chr12:50384127-50384466
Coord C2 exon
chr12:50382945-50384126
Length
340 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGC
5' ss Score
7.53
3' ss Seq
TCATTCTCTTTTTATTGTAGATT
3' ss Score
10.16
Exon sequences
Seq C1 exon
TGAGTTTACTGGGACCTGTGACCACTCCTGAACATCAGCTTCTCAAGACTCCTTCATCTAGTTCCCTGTCACAGAGAGTCCGTTCCACCCTCACCAAGAACACTCCTAG
Seq A exon
GTATGCAGAATTGGCCTTCCTAGGAAATAAAAAACAACTACTTTCTTAGACTTCTTATTATATTGAAGCTTATTGAAAGAAAAATTGCATTCGATTTTAGCTAGCAACTAGACTTTAAAAGGGAACGTGGGGCTATAAGGATTCCTTCTTTAAAAAGGTTCTGAAAGTCTTTACTATTTCCCCTCTCTCGTTGTTGGTGACTAAGAATACTTAAGCAACTATTGCAAAATAGTTGTCTAGGGTTTCCTACTTATAATGGGTTATATCAAGTAATATTATAGTTGTTTATTCAACCATTTTTTATAGAATATTTTTCCAGTTCATTCTCTTTTTATTGTAG
Seq C2 exon
ATTTGGGAGCAAAAGCAAGTCTGCCACTAACCTAGGACGACAAGGCAACTTTTTTGCTTCTCCAATGCTCAAGTGAAGTCACATCTGCCTGTTACTTCCCAGCATTGACTGACTATAAGAAAGGACACATCTGTACTCTGCTCTGCAGCCTCCTGTACTCATTACTACTTTTAGCATTCTCCAGGCTTTTACTCAAGTTTAATTGTGCATGAGGGTTTTATTAAAACTATATATATCTCCCCTTCCTTCTCCTCAAGTCACATAATATCAGCACTTTGTGCTGGTCATTGTTGGGAGCTTTTAGATGAGACATCTTTCCAGGGGTAGAAGGGTTAGTATGGAATTGGTTGTGATTCTTTTTGGGGAAGGGGGTTATTGTTCCTTTGGCTTAAAGCCAAATGCTGCTCATAGAATGATCTTTCTCTAGTTTCATTTAGAACTGATTTCCGTGAGACAATGACAGAAACCCTACCTATCTGATAAGATTAGCTTGTCTCAGGGTGGGAAGTGGGAGGGCAGGGCAAAGAAAGGATTAGACCAGAGGATTTAGGATGCCTCCTTCTAAGAACCAGAAGTTCTCATTCCCCATTATGAACTGAGCTATAATATGGAGCTTTCATAAAAATGGGATGCATTGAGGACAGAACTAGTGATGGGAGTATGCGTAGCTTTGATTTGGATGATTAGGTCTTTAATAGTGTTGAGTGGCACAACCTTGTAAATGTGAAAGTACAACTCGTATTTATCTCTGATGTGCTGCTGGCTGAACTTTGGGTTCATTTGGGGTCAAAGCCAGTTTTTCTTTTAAAATTGAATTCATTCTGATGCTTGGCCCCCATACCCCCAACCTTGTCCAGTGGAGCCCAACTTCTAAAGGTCAATATATCATCCTTTGGCATCCCAACTAACAATAAAGAGTAGGCTATAAGGGAAGATTGTCAATATTTTGTGGTAAGAAAAGCTACAGTCATTTTTTCTTTGCACTTTGGATGCTGAAATTTTTCCCATGGAACATAGCCACATCTAGATAGATGTGAGCTTTTTCTTCTGTTAAAATTATTCTTAATGTCTGTAAAAACGATTTTCTTCTGTAGAATGTTTGACTTCGTATTGACCCTTATCTGTAAAACACCTATTTGGGATAATATTTGGAAAAAAAGTAAATAGCTTTTTCAAAATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000161800-RACGAP1:NM_001126103:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.865 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCTGTCACAGAGAGTCCG
R:
AAGCTCCCAACAATGACCAGC
Band lengths:
348-688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- 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)