HsaINT0137481 @ hg19
Intron Retention
Gene
ENSG00000108352 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:17428]
Coordinates
chr17:38340833-38345230:+
Coord C1 exon
chr17:38340833-38340930
Coord A exon
chr17:38340931-38345117
Coord C2 exon
chr17:38345118-38345230
Length
4187 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGG
5' ss Score
4.44
3' ss Seq
CCCAGCTGTGTCCATGCCAGGAT
3' ss Score
6.52
Exon sequences
Seq C1 exon
GATCTATACCTGCTAATTATGAAGGACGAGTCCCTTTACCAGGGCCTCCGAGAGGACACTCTGAGGCTGCACCAGCTGGTGGAGACGGTGGAACTAAA
Seq A exon
GTGAGGGGGAGTGGGGCAGGGGCGGGAACAGGAAAGTGGTCCCCTGCGTTCCTCTACTACAGGGGCTGCCTCTGGCCTATTGGCTGCAATATGGATTTGCTTGTTTGTTTGTTTGTTTTGAGACAGAGTCTCACTTTGTCGCCTAGGCTGGAGAGCAGTGGTGCGATCTCGGCTCACAGCAACCTCCACCTCTTGGGTTGAAGTGATTCTCATGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGGGTGCACCATGCCCAGCTAATTTTTGTACTTTTAGTAGAGATGGGTTTCACCATGTTGGCCAGGCTGTTCTTGAACTCCTGGCCTCAAGTGATCTGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGTGTCTGGCTTCCAATATGGTTTTATTTCAGCTCCTTTCTCTCACTGAAGGGTGGCACAAAGCACTGTCTCCAGTCACTTTTTTGTCCATTCTCCCATTCATTTGTCTGATAATCCAGTGGTGTACTGGTAAATATTTAACAACCAGTGCTGCAGGAGAAAGAGCCCTGATTTGTAGCTTTTGCTGATTCCTACAGTGTAAACTCTGTCACCATGGCTGATTTCAAGCTACCAATGTGACAACACTGAAAGAGGAGTTGGGAAGAGACATGCAGCACAGGCTGTTATGTAGTATCTCCACCATACAGTAGATGTAGTAAAAGGTAGTAAAATGGCTGGGCAAGGTGGCTTATGCCTGTAATCCCAGCACTTTGGGAGGTCAAGATGGGTGGAGCACTTAAGGTCAGGAGTTCAAGACCAGCCTGGCTAACATTGTGAAACCCTGTCTCCACTACAAAAAAAAAAAAAAAAAAAAAGGCTGTGTGCCAAGGCAGGCAGATCATGAGGTCAGGAGTTTGAGAGCAGCCCGGCCAATATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGTAGGGCGCTCCTGTAGTCCCAGCTACTTGGGAGGGTGAGGCAGAAGAATTGCTTGAATCCAGGAGGTGGAGGTTGCAGTGAGCTGAGATCATGCCACTGCACTCCAGCCTGGGCGACAGAGTGAGATTCTGTCTCAAAAAAAAAAAAAAAAAAAAGAAAAGAAAAATTAGCTGGGGGTGGTGGTACGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGATGGAGGTTGCAGTGAGCTGAAATCACCTTACTGCACTACAGCCTGGGTGACAGAGCGAGACTCCGTCTCTAAAGAAAAAAAAAAAGGCCGGGTGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGCAGATCATGAGAGGCAGATCATGAGATCAGGAGTTCGAGACCAGCCTGACCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGGCATGGTGGCACATGCCTGTAATCCCAGCTACTCAAGAGGCTGAGGCAGGAGAATGTCTTGAATCCAGGAGGCAGAGGTTGTAGTGAGCCAAGATTGCATCACTGCATTCCAGCCTGGGTGACAGAGTGGACTCCGTCTCAAAAAAAAAAAAAAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACAAGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGCGGTGGCGGGCGCCTGCAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAAGCGGAGTTTGCAGTGAGCCGAGATTGCGCCACTGCAGTCCGCAGTCCGGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAGGTGGGCTGGGTGTGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGAATGAGGTCAAGAGATCGAGACCATCCTGGCCAACACGGTGAAACCCTGTCTGTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGTACACACCTGTAATCCCAGCTACACGGGAGGCTGAGGCAGGAGAATTGCTTGAATCCAGGAGGTGGAGGTTACAGTGAGCCGAGATTGCAGCACTGCACGCCAGCCTGACAACAGAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAGTAGTGAAAACAGGAAGGAAACTGTTTTTTTGGTAACAACTTATTTGATTATAAATTTTATGTATTATTTATTAATTTGTATTATTATTTTTTAATAGAGACGGTTTCATTATGTTGTCCAGGCTGGGCTCCAGCAATCCTCCCACCTTGGCCTCCCAGAGTGTTGGGATTCTAGGTGTAAGCCACCACACCTGGCCTGACTATAAGTTTATAAAACATATATATTTATATATGGAGATATATTTGTTTATTTATATTTTAATGGCTCTTTAAAAAACAGTTGGTAAAATTCCCCAGAACTTAACAGTATGCTCTTGTGAGCCAGTGTGAACCAGCTTCAGGACACCACTGTATCCATCCATCCATGAATCCATTCTGCCCTTTTAGTTTCTCTCTTCTCTTGTCCCCACCACCACAACCCTTAGGGAGGCCTCAGCTTGTGGTCTAGCATCCTTCTCTGCCTTCTCTGTGCTGACACTAGAGAGATCTTTCATGCTCCTGTTCCAAAGGCATCCCTGCTCCCCATGCTTCCAAGAGAAAGTGAAACATCCCAGCATTCAATACCCTTCCCTTTCTGCCTTCTGCTGATCCTTCCCATCTCATCTCCTACATCCCCTCCATCCATGACACCTCAACTCCTGCGCTCTCGAACTTCCCATGGTCGGTTATATTGTCCACCCCAGAATGCCCTCCTCCCACCATGTTTTCTTTTTTTTTTGAGACAGAGCCTGGCTCTGTCGCCCAGGCTGGAGTGCAGTGGTGTGATCTCGGCTCACTGCAAGCTCTACCTCCCAGGTTCACACCATTCTCCTGCCTCAGCCTTCTGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCGGCTAATTTTTTATATTTTTTTTAGTAGAGACGGGGTTTCATCGTGTTAGCCAGGATGGTCTAGATCTCCTGACCTCGTGATCCGCCCGCCTTGGCCTCCCAAAGTGCTGAGATTACAGGCGTGAGCCACCGCGCCTGGCCTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTTGCTCTGTTGCCAGGCTGGAGTGCATGGCGTGATCTCAACTCACTGCAACCTCCCCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGTGCACGCCACTACGCCTGGCTAATTTTTGTGTTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGGCCTCAAGTGATCTGCCCACCTCAGCTTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCACCTGGCCTCCACCTCCTTCTCTTCCTGCTTTCCTCCAAGGCCCAGGTCAAATGCCATCTTCTCAATGAAAACTTCCCAGATCTTCCTTTTAGGAATAGCTTTCTTCTTCCCCCACACCAGCATAACTCTCCTGGTACCTTTGTTATATTATCAACACCTCCTGCCTGGTATTAGAAGTAGCTGTATGCCTGTCTATCTCCTTCCTAGACTGTGAAGTTCTTTTCAGCAAAATTCAGCAAACAGCTGCTGACCTACTACCTACCATGTGTCAAGCAGTGTGTTAGGCCCTGGTGGATGAAAAGATACTCAGTAAGAACCAAATCCCAGTCCTCAAGAGCTCTCAATCTCATAGAAGAGATAAGAGGTGAACATAAACATTATCCCAATGTTCTATAGTAGTTGAGAGAAGAAAGTGACCTTCCTGGTGGGTGGGGTGGATCAGAGAAGAATTCATGGAAGAGGTGGCATTTGATTAGGGTTACTTGGATAATTATCCCATACTGCTCATTGTCCTCTCTTCTGACCCCCTTAACCACCTGAAATTGCTGCTGGTGCATCCTTGACCCAATTCTGATATTCTTGCTTGATGTTGCCTGCTTGGTGTTGGTTGTCCATATGCCTGGCAGGGCGTGCTGATGCCCAGCTGTGTCCATGCCAG
Seq C2 exon
GATTCCAGAGGAGAACCAGCCACCCAGCAAGCAGGTGAAGCCACTCTTCCGCCACTTCCGCCGGATAGACTCCTGTCTGCAGACCCGGGTGGCCTTCCGGGGCTCTGATGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108352-RAPGEFL1:NM_016339:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.083
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078818=RA=PU(2.6=5.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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
- 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)