HsaINT0011487 @ hg19
Intron Retention
Gene
ENSG00000137962 | ARHGAP29
Description
Rho GTPase activating protein 29 [Source:HGNC Symbol;Acc:30207]
Coordinates
chr1:94650898-94652153:-
Coord C1 exon
chr1:94652055-94652153
Coord A exon
chr1:94651038-94652054
Coord C2 exon
chr1:94650898-94651037
Length
1017 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTG
5' ss Score
3.14
3' ss Seq
TAAATTATTTCTCTTGCAAGGAC
3' ss Score
5.09
Exon sequences
Seq C1 exon
GAGACTTTCATCGAAAACTTCCACGAACACCATCCAGTGGAACTATGTCCTCTGCAGATGATCTAGATGAAAGAGAGCCACCTTCCCCTTCAGAAACTG
Seq A exon
GTATTGTATTTACCTGAATTAAGTCCCACTAAACCAGCTCAATCAGTAGCACTGCATGATATTAGATAAATAGTATAATTTTAAAGAATCAATACTTTTTTGTGTATTAAACAAAAAAAATTCACCATGACTTAAATATATCCCAACAATTATATATAAGTATGGGTTGATAATGTATTAATCAAATGTTACAAATACAAATATAAGAATAGGCAGCAAAACTACTGGATGTAAAATGTATTGGCATGGTGCTAAAATAACAGGCTAGATATTGTGCATTTTCATAAACCTAATACTGTGACTTAGTGTTAAAAGGGTTGTGGTGCATAAGAAATTCTAAAAAGCTCCTTCAAAAGAAACAATGCAAGAAAACTAAGTAAGTGTACTTCTTGAGGACAAGGAAGTTGTGGATGTTGAAGGATAAAGTTAAATCAGTTACCTTAACGACTTGAATTAGATTCATATAAATTCATTTTGTGTTTAATGCCTACAGATACCTGGTTTGGCATCATTTCCTAAATTAATGGAATATGTGACCTCCAGTATAATATTAATATGTAATTAGCTAATATTAACTATAATTTTATAGTGAATTAAGGATAGCTTTATCTGTAATGCAGATAATGCTCACACTCTAACCTCATACAGCTATTTTTCTTTGTTTAGAGGGGCTTTTTCTAATGCCACCTATGAACACACTTCCCAGCTCTATGAAAGAGCATATTAATAACAGTGTAAATATGCTGATTCTGAAAACGTTATGTCATGTTATTATTCATAGCAGTGACTTGGTGACGATTTTTACTCATAGCTAAAATGTTTCATAAATGTGCCTTTTAAGAGATCTATAAATTAGACCTATAAATTGGATGCTAACTAGCTATTTTGATATTAGAGATTCAAAGCTTTTTATAATATATGAATGATTACAGGGTTTAAAGATTATTCAAAATATGATATCACATGGTATAATTTTTCTATCATTTTACAATTTTTGTAAATTATTTCTCTTGCAAG
Seq C2 exon
GACCCAATTCCCTTGGAACATTTAAGAAAACATTGATGTCAAAGGCAGCTCTCACACACAAGTTTCGCAAATTGAGATCCCCCACGAAATGTAGGGATTGTGAAGGCATTGTAGTGTTCCAAGGTGTTGAATGTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137962-ARHGAP29:NM_004815:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.149
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(56.2=57.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACTTTCATCGAAAACTTCCACGA
R:
CTCTTCACATTCAACACCTTGGA
Band lengths:
238-1255
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)