HsaINT0137473 @ hg19
Intron Retention
Gene
ENSG00000108352 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:17428]
Coordinates
chr17:38334242-38337946:+
Coord C1 exon
chr17:38334242-38334633
Coord A exon
chr17:38334634-38337867
Coord C2 exon
chr17:38337868-38337946
Length
3234 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTGCCCACTGATCTTTACAGATA
3' ss Score
7.08
Exon sequences
Seq C1 exon
GCGGCGGTCCAGCCGGGGGACAGCGGTCGTTGCAGCGGCGTCAGAGCGTGTCTCGCCTGCTGCTCCCCGCTTTCCTCCGGGAGCCCCCCGCCGAGCCGGGGCTGGAGCCGCCCCCTGAGAGGAAGGAGGAGAGCCGGCGGGGGTCGCGGAGGAGCCGGGCAGCGGGGGGCCCTGCTGGCTGCAGCTGGAGGAGGTGCCGGGGCCCGGGCCTCTCGGGGGAGGGGGGCCCCTGCGCTCCCCTTCCTCCTACTCATCTGACGAGCTGTCCCCAGGCGAGCCCTTGACTTCGCCGCCCTGGGCCCCTCTGGGCGCCCCCGAGCGGCCCGAGCATCTTCTGAACCGGGTTCTGGAGCGGCTTGCTGGAGGGGCTACCAGGGACAGCGCCGCCTCAG
Seq A exon
GTAAGGAGCCGGTGGGCTCGAACACCCAGAGCAGGGGCTGGCCCCGGCTCCTCTTCCTTGCCCTTGGAGCGTAGGGGTGGCGCCGTGCCGGGGCTTGGTTATAGGGTTGAGTGGTCCGCGGAAGCCGGCTAGGGGCCTAGCGGAGGTACAGACCCTCCCGCGGAAGAGGAGAGCAGTACTCACCTTCCTCCCTACAGCAGCCTCACCCTCGTCTGGAGAAGCAGCTGAGCCTCTTACTCTCCTTCAGCCACCCTTCCTTTCCCCTGGGCATTGGAGCCACTGACTCCCATGGGTCCCTGATGTTGAATACCTCCTCCTGTGGCCCCAAATTAGGGCCTGACACATTAAAATGGGAGCTGCCCAGCGCAGCCATGCCACCCGCCAGAGGTGCTTTAGCCCTGAAAACCCTGGGGTCCCTGACTGTTCAGAGGCCTACACAGCGCAGGCTGACCCACCCAGGGAGGCAGTGCCAGACAGGCACAGGCCCCAAGCTGCCTTTTAGGCATCAGCAAAGGGATGCGTTGTCCTTAGCAGTTTGGTGGGGGGGATAGTATTCTCCTTGGGCTGGACTCAGAAGGTGTCTGGGAGGGGAGAGGTGGCTGGGCCGGCATCATGGCCCTGCAGCATCCAGGGTGTCCAAGCGCCTCCAGCTTCCACCCTTCGGTGGCAGGCCTCAGCACCCGGCTTTTTTTTTTTTTTCTTTTGGAGATGTAGTCTCACTGTCACCCAGGCTGGAGTGCAGTGGCGCCATCTCAGCTCACTGCAACCTCCACCGCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCATGTGGCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGAACTCCTGACCTCGTGATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGGCCTGGCTAATTTTTGTAGTTTTAGTAGAGACGGGGTTTCGGGGTTTCACCAACTTGGTCAGGCTGGTCTTGAACTCCTGACCTCGTTATCTACCTCCCCCCACCCCCACCCCACGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGGACCTGGCACACGGCCTCTTTAAAATATAATCACCACACCCTGAGAAGCTTATTCCCTAAATGATGATACTATTTCACCACTCCCTTTCAGCACCCCTACTAAGGGGCCTTTGAGGAAACCAAGGCCCCAAATCTGGTTAGTTCTGAGGTAGAAGACCGAGGGTTCTTTAGGTCTAGCTCTAGGCATTACTCTAAGCCCAGGAGGGTCTGAGGTTTGGGAGCCCCGGCTGAGGCCCTAATGGTGAGGGCTTTCACACTTGCTCTCAGCCCTCGGCAGGGAACCCCAACCTAGATGTGTGGAGGGGGGCTCCACTCTCCTAGATCCTTCTCAAGACCTGGGTCCTCTCCTTTGGAGCAGGCTGTAGTTGCCCTGGGGAGCTGACACCTTTTGGATTTAATTAGAAAAATATCAGACACACACAGCTCTCCTAACCATAACTTCCCGCCTACACCACACACCCTGTGTCTCTATGACACATTCCCTAGGGAGGCTGTACATTGGCCCAGAGCCTGCTTTGGAAAAGACAGATGCCCAACTGTGGCCCCCATATCAGCATCTCCCCAACTCTGCCCCATCTTACTCTTCCTTTGCTCCAGCTTAGGAATCCTGTGAGATAAAGTCTATGAAGGATGTCAGGCCTCTCGTTTCCTCACCCTCATCCCTGAAGCTGGGGGTCAGAGCTGGAGGCTCTCTGACTCATTGTAAGAACACAGCAGGGTAGCTGGGCAGGGAGGAAAAGGGAGAAGCTGTCTTTCCCCTTTTACAGGGGCCTGGTGCCACACGCTCCGCTCATTCTCCCCTGGGGTAAGACTCCTGAAATGTCACCCATGTTATCTGGCAGCCTGGATCCCCAGAGTAACTAGTTTGGGAAATTCCAAACCAGTCCCAGGTGAATGAGAATCAGCTTAACCTGCCACTCTGATGTTCTCCAATAAAACCAATGTTCTCAAGTCATCCTGGTCTCCTCCCAGGGTGTGTGGGAGGAGAGAACTTACAGAAGTTACTCTGAACCTACCAAAGCCTCTCCAACGTCCAAGCAGCCCCCTCTGACCGCTAGGTTTTACCCTAACACTCTGCTTGCCTCAGGCATATTGAGAAAAGGACAAAGACTCAGGATTCTGGGTTCTTATTCCAGCTCCAGGCAAGTCCCTCCCAGCTCTGGGCCTCAGTTTCACATTTGCGAAATGAAATCCTTGAAGTCAATTACTTTGTGTTGGTTTTCCTCCTCCGCCTGCATGGCTAGAACTGACCACAGGAGATAGTGAACCAAGGGGAGTCAGAAGCCTTGGTTTTGTCCTGGGACAGTGCCTGGGGACCTGGCCCTAACCAGTCCTGGTGAGGACACCTGGCTCCCTCCCTGCACCTTGTCTGTCTGTGTGTGCCAGGTGGCCCTGCCCCACCCCAGGGCTGGCTGCAAGTCAGGGCGACCTTGTACCCGGCTGACTGGCTGAGCCAGGCCCAGACGGGGGTGTGGAGGGGAAAGGGGTGGTGAGAGGAGCCGCTCCCCTTCACCATTCCATCATTAACCCTTCTGTCTCTGGGCCCCTAAAGGACACAGGATTTCTATTTAAAGGTTCTGGGATCAAAGTGATGGCAGTCTCTCCATCTCCCTTTTAATCAGGCTGGTTCCCACCTGCCTAGTTAGAACTCAAAGCTGTTAGGTGGGAAATGGGGAGGGGAAGAGGGATACACACACATGCACACACACAGTCCCCACTGATGCTAACCTCTGTGTTTGGAAATACTCTTTGTCTGGAGACACTTCTGTGGGCTACTTCTTTTTTCAGGCAGAACTCAACCTTGGTGTGTTATCTGACCAACTTCCCACATACGCTGAAGAGAAGTGCACATGGCCATCAAAGGCACGCGCCCCCCCCTTCCCTTCAGCTGCCTTGGCAGCTGCCGAACCCACCCTCGCAGTGGCTGCCCAGAACCTTTACACATGTATGTGTGCGCGTGTGCAGAGCATGACAAGGCAGGTGGCTGGGGCTCCAGCCTGGCTAAAGAGAACTTGCCCTTAGGGGCAAGAGAGGGAGGCACTGCATTTCCAGTTTCGTTCTGGAAGTGCCCACCTGACATCTGTGGTGCCCACTGATCTTTACAG
Seq C2 exon
ATATCCTGCTGGATGACATTGTCCTTACCCATTCTCTCTTCCTCCCGACGGAGAAATTTCTGCAGGAGCTACACCAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108352-RAPGEFL1:NM_016339:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.877 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0061815=RasGEF_N=FE(42.6=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)