HsaINT0137366 @ hg38
Intron Retention
Gene
ENSG00000079337 | RAPGEF3
Description
Rap guanine nucleotide exchange factor 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr12:47741505-47743676:-
Coord C1 exon
chr12:47743530-47743676
Coord A exon
chr12:47741603-47743529
Coord C2 exon
chr12:47741505-47741602
Length
1927 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CGCCTCTGCTGTCTTTGCAGATG
3' ss Score
11.32
Exon sequences
Seq C1 exon
TCCCCTATGACATCTGCCGGCCAGACCACTCAGTGTTGACCCTGCAGCTGCCTGTGACAGCCTCCGTGAGAGAGGTGATGGCAGCGTTGGCCCAGGAGGATGGCTGGACCAAGGGGCAGGTGCTGGTGAAGGTCAATTCTGCAGGTG
Seq A exon
GTGAGTTGTGCCCCTGGATAGACCCCAAGGGAGGGTGGCCCCTCGGATCTGCGCCCAGGTCCCCCAGTCAAGATCATTGTCATCATTGTCATCTTTCTGGTCTTCCTCAGTGTGAATGATGGCTAGCATTAATGGGAGGTGGAGTGCGTCTGTTCGAAGTGCATTTCATGCAGTGTGTAAGAGCATGAGCTCTGGAGCCTGCTGCTTGCATTCGGCACCAGCCCTTTAGCTCACCATCTGTGTGTCCTCTGGCAGGGTACTTCATCCCTCTGTGCTCAGTTTTATCATCCATAAAATGGGAATAGTAGGAGTACTTGCCTCCTGGAGGAATTGTGAGGATCAATTGAGTTCATCTATGAAAGCATTTAGAATGGTGCCCGGCACATAGTGATACATAAGTATTAGCTGCTATTATTATCATCATTTGTGTTTAGTCATTTAATATGAATTAATAACAATCTCATGAGATACAGGTACTTTTATCCTATTTTCAGACAAGAACACTGAAGCTCAAAGGGCATGAGCTATTCCTCAAGCTCACACAGTGAGAGTAGCTGGTCTTGGAACTTAAGTAGTCTTCATTTGTTTAGTCACTCAGCAAACATTTTTGAGGATCAGCTATGAGCCAGCAATATGTTAGGAGCTGGAGATACCACAGCAGGTAAAACAGGTCAGCTTGATGGTTAAGAGCATAGACGGTGGACTCCCAGACCCGTGAAGGCATCTTAGGCTCACCATTTACTAGCTGTGTGATGCTGGGCAAGTTGCTTAACCTCTCTGAGCCTGCATTTCCTCACCTGTCAGATGAGGACTGTAATTGTATCTACCCACAGGGTTGCAATGGCTAAGTGAGCTAATGTGTGTAAAGCACTTAGCACAGGGCCTGCCAGTCAGTGCTGAGAACATGGCGGGCTCAGGAGTATTAAGATGGGCCTCCAGAGAACCTGGAACATTCAAAACCACTGTTCTCTGCGGAGGGCACGGGCTTGACAGCTGGAACCCAGGGCAGACAAGAATTAGGGGCGTTCAAGAAGTGGGGATGAGAAAAGAAAAGCCTTCTCCCTTCAGGAAGTGGGGAGAGATGGTCACCTGTGTGCCCTGCCCTGGGAAGCACTGCCCTCTGCTGGCCACCTGGTGAGTTGCAGTTGCCCAAAGGTCATGTTTATTGAGACCCTACTATGTGCCAGGCACTGTTTAGAGCACTGATCTCCGAAGCACTTGGATCGACACCCATGTCAATAACCAACATTTAATTAAAACCCACACCCCACTGTGTGAATATTTGTTTGTAAGTAATACACATATATTACTACATTAATATCATAATAAAGATAGATAAAATAGAAATTGATGGAGTAGAAATGCAAAGCAGGTAGAAAAAGTAAACGTAAGTAGAAGAGCTCATATTTTCCCCAGGCACATGGATGATCTGATGTACCTTACTTTGGAGGCCACTGCTCTAGGGACTGGGGACTCAAGCACAGTCCCAGTCCATGAGGAGCTGATGAAAATCAACACCAAGGCTTATATAAGACACTTCCCAATTTTCAAAGGGCTTTTATACATAGCATGTACTTATAGCTACTATTTATATACATTATTTTATTTGACTTATGAAATAGTTGGGGCAAGTCTTATTGTCTCCATTTTACCAGGGAAGAAAGTGAGGCTGAGGGAGGCTCAGACCCTGCCCAGGTTCTTCCTGACTCACTGAGAATCTTTCCTCATCCTCTTGGATGTGCTTCCCTGGGCTGCGTGGCTGCGTGGGCACATGCACCTGTGTATTCTGAGCACCACCCAGGACTTCAACCCCGCTACTAGGAGAAACAACCTCTCAGCCTCCCAAACAGCACCTCCACCCTGGCATCCAGCTGGTCCCCGGCCTCCCTCCCTTCCCCCACCCAGTCCGCCTCTGCTGTCTTTGCAG
Seq C2 exon
ATGCCATTGGCCTGCAGCCAGATGCCCGTGGTGTGGCCACATCTCTGGGGCTCAATGAGCGTCTCTTTGTTGTCAACCCACAGGAAGTGCATGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000079337:ENST00000449771:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCTATGACATCTGCCGG
R:
ATGCACTTCCTGTGGGTTGAC
Band lengths:
239-2166
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