HsaINT1028862 @ hg38
Intron Retention
Gene
ENSG00000107263 | RAPGEF1
Description
Rap guanine nucleotide exchange factor 1 [Source:HGNC Symbol;Acc:HGNC:4568]
Coordinates
chr9:131582605-131584412:-
Coord C1 exon
chr9:131584311-131584412
Coord A exon
chr9:131582703-131584310
Coord C2 exon
chr9:131582605-131582702
Length
1608 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GTCCTGTCCTGTCCTGCCAGGGC
3' ss Score
9.84
Exon sequences
Seq C1 exon
CACTTGCGGAAGCTGAATAACTTCAACTCCTACTTGGCCATCCTCTCTGCCCTGGACTCGGCGCCCATCCGCAGGCTGGAGTGGCAGAAGCAGACTTCAGAG
Seq A exon
GTGAGTGGCCTTGGGGCGTGGGCGGGAGGGTGGCTGGTAAGGGGGGCCGCCCAGCCCTCAGGCGACTAGCTGTGGCAGAAAGTGCTCCCACTGGAGCAAATGCTGGGCCTAGGCCCCTGCTCTGCCACCGACATGCTGTGTGACCAGAACAGCTGCCCTCCCGCCTTCCTGTCTCTGATCCCCAATCTTCAGGCCCCCGGGAGCTTCGAGGTTGGTTCTGGGGTGGTCACATCCCGGTGTTCTGCTGCCACCCAGCAGGCCCATCCCTGGGTTCCCGCCTCCCCCGCCCGCCCTCAGCCCGTTCTTCTGAAGGGTCTGCTTCGGGCCGGGCACTGCGGTAGGTGCTGGGGACGCACTGTGAACAGCCCAACATGATGTTGGGTGAGTTTCTGCTAGATAAGCACTAAAAGAAGAAGGGTGGGCAGGTGGGCCAGCCCAGAGGAAGTGTCACTCATGCCACCATCTGCAGAGGAGGAGGAGTTTCCTGGGAAGGGAAGAGAATCAAAGGGGACAAAGGAGTGCACAGCCAGGAGCAGGTGGGGGTCAGCACCTCCAGGGACAGGAGGAGGCCAGGGGACCACATCCCGGGAGAAGGGGACCAGTTCTAGGTCATGAGAGCCTCAGGAGCCTGGTGAGGAGTTGGACCTTTATCCTGTGTAGGGAAATAATATTGCAAATGGGGGCAAAACCCATGGCTTTTGAGTGTCAGCCAGGCCACCCAGGGGTCATGTCAGGGACCCAAGTTCAGCCAGGCCACCCAGGGATTGTGTCAGGGACCTGAGTGTGACCAGACCACCCAGAGGTCATGTCAGGAACCCGAGCGTCAGCCAGGCCACCTGGGGGTCGTGTCAGGAACCCGAGTGTGACCCAGGCCACCCAGGGGTCATGTCAGAGACCCGGGTGTCAGCCAGGCCACCCAGGGTCTTCTTGTTCAAGCCCATGTTCAGGGATGGTTGTAAGCTAGTGTATGGGGAGAGGTGGGAAATTCACACGGCCTCTGCATGGGGGGTCCTCAGGAGGCAGCACTTCAGGGAGAGGCACGTAACAGGAGAAGAGGCAGGAGAGGGGCCTTCTGAGTGGGGCAGGGCTGGCTGAGTCTCCTAGGTGGGAGCCCCCCACCCCTGCAGGAGAGAAGCCACCCAGCCCTGGGGAGGGCGAGGTCACATGCTATCTTTAGTTGGTCCTCCCTGAGTACAGGGCAGAGCAAAGGCAGCTCCGAGTCAGGAGTGACGCCACTCAGTGTGTGCCTGGGAAGCTCCTCTGGCTGCACCGCCGAACAGGGCCAGGCAGGAGCCCATCTTCCGGGATGTCGTATACACACAAGCGCTGGCTGCCCAGGCACAATGAGTACTGTGGGGTGTTTCTCCACAAAACGGCCTGAAGTCCCCTGTGACCAGGGGTTGGGCTGACACTCGTTGAAAAGGACAGAATCCCTGCTGGCCAGGGCCAGGACCCACACCTGGCTGGGTGTTTGTGCGTAGTGGGACCTGTGGAGTTGGGCAGAGGGTGGTTGACCCTCCAGTTAGTGAGGAGGACCAGGGCTCTGCCCCAGCATTGCCCCAGCACTCGCTCACCCCTGTCCGGTCCTGTCCTGTCCTGTCCTGCCAG
Seq C2 exon
GGCCTGGCCGAGTACTGCACACTGATCGACAGCTCGTCCTCCTTCCGAGCCTACCGGGCCGCCCTCTCGGAGGTGGAACCGCCGTGCATCCCGTACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107263:ENST00000372189:21
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:
PF0061714=RasGEF=FE(18.5=100)
A:
NA
C2:
PF0061714=RasGEF=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGCTGAATAACTTCAACTCCT
R:
AGGTACGGGATGCACGGC
Band lengths:
194-1802
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains