HsaINT1028739 @ hg38
Intron Retention
Gene
ENSG00000161800 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:HGNC:9804]
Coordinates
chr12:49992550-49994329:-
Coord C1 exon
chr12:49994131-49994329
Coord A exon
chr12:49992656-49994130
Coord C2 exon
chr12:49992550-49992655
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:ENST00000312377:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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)
A:
NA
C2:
PF0062022=RhoGAP=FE(23.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
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]
SPECIAL DATASETS
- Autistic and control brains