HsaINT0139865 @ hg19
Intron Retention
Gene
ENSG00000143344 | RGL1
Description
ral guanine nucleotide dissociation stimulator-like 1 [Source:HGNC Symbol;Acc:30281]
Coordinates
chr1:183866942-183869370:+
Coord C1 exon
chr1:183866942-183867031
Coord A exon
chr1:183867032-183869283
Coord C2 exon
chr1:183869284-183869370
Length
2252 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
TTGCTTTGGATGCTCTTCAGGGT
3' ss Score
6.77
Exon sequences
Seq C1 exon
GAAGGAACCTCAAAATTTGCAAACCTGGACAGCAGTGTGAAAGAAAACCAGAAGCGTACCCAGAGGCGGCTGCAGCTCCAGAAGGACATG
Seq A exon
GTATGTCTGGCCCTCGTCTTCCCTGACAGCTCACAGAGGAGAAGGGCCGTGTGCGTCTGGGCTCCCACATGGCACTGGCACCTTCAGTCAACAGGGCACCCAGGCTTTCAGAAAGGGTCTCCCATTCTCTACCCCATTTGTTCTCAGCAGCCCTGGGAGGTCTATAGGAGAGAGATGATTACCCTCATTCAACTAGTAGGAAGTAAGCACTGGGTGGCAAATCCTGTTTTCTGGCAAAGTTGTTTTCTGAAGGTGAGGGGGAGTCTACAGCAGGTCGACTTCCTCCCTCTTGCAGTCTCTTCCGCCCCCTCCTGCACTTAGAAGCTGCTCCACCTTGGCCTGAGGGCCTCCTGAGCTTCCTACTGTAGTCAGCTTCTGATACATGGTGACCAAGGAGAAAGAGTGTCTTCTCCACAGGGCCCTGGTCCTTGTACTCAGAGATCTTTTCATTTGTTCTAATCTAGCCATTGCCCAGCTCTCCTTACTAATCCCAAGGCTAACCAAATCTTTATAGTTTTTCAATATTTAAAGGAGCATCATGCCTCCCTCCTGAAGACTGAAAGATAGGTATTATCAACTTTAGCTTCATTTTAAACTTCTGACTGTTAGCATAAAGTGTGGAAGACCAGAGGGAGGAGATTAGAGACTGACAAACTCTAAATATTCTGCTTTAAGAGGGTTTTCTCTTTCTTTGGAAAGCTCAACGTAAGTAAGAAATGTTTTTGAATGATAGGACTCTTCCGCAACATGAAGCCTATAAAACATTCACAGTGTTACAAACTTTTTTGGTTGTTCAAAGACAAGCTAAAAATAGCTGTTACCAAAAAAATAGATTATTTTAGTACAGGATGAGACCTTGTACACAGAATGGGAAGGACACACTGCAGCTGACAGTGAGTTCCTGAAGGACAAAACCCTCCTTGGTATGAACCTCACAAAGCAGTTCTGGCTGAGGAAGCAGCCAGCCTCATGTCAAGCAGCCTGGCTTTACCCTGTTTGAGGCTTTGTGTTCTGCCAAAATTTCCAGAATTGGCTTGATGAGATTTAGGATAAGGGATCCATGGGGACCGCTTTTTACTTTTCCTTTAGGATGTTTAGTGCCTTGGTGGCTTACTGAAGAAGAGAGATGATTTTAAAGGAGATTTAGTGAAATGAATATAGTGTATCCCTGCAGTTGTAGGTAGAAGTGCCTCCACCTTCATTTCCAACTTTTTATTCTGGAATAAGTTTAGATTTACAGAAAAGCTGCAAAGCTAGAAGTGCAGTTTCCCTCATTGTTAACATCTTCTAAAACCATAGCACATTTGTCAATACTAAGAAACTGACACTGGCATAATACTATTAACTAAAATCTAGACTTTGTTTGGATTTCACCAGTTTTCCACTAGTATCTTCTTATCTGTTCCAGGACCCAATCCGGCATACCAACTGCATTTTGTTGTCTGTCACCCCTGTCTCTTCAGGTCTACGACAGTGTTTTCTTGACTGTTTTTTATGACCTTGGTTGTCTTAAGGGGTCTATCCAGGTATTCTGTAGAATGTTCCACAGTTTGAGGTTGTCTGCTGTTTTCTAGTGATTAGACTGAGCTTCTGGATTTTTAGAAAGAATATCACAGAGTAAAGTGCCCTTCTCATCACATCACATCAAGGAGTGAATGAATGGTTTCAGCGTGACATCTGGTGTCATGTTGATGGTGACACGAATGATGTTGATCTTTATTACTTGGTTAAGGAAGAGTTTGCCAGGTTCTTCCTCAGAAGTTACTGTTTTTCTCTTTCCCTCCTCTATTATTTGAGAGTTAGTCACCAAGTCTAGCCCAAGGGGTTATATTAATAGTGATGCCCCATGCTTTTGTGGTACATACTTCTCTGTGTACAACAGCCAATGGTGAGGCAATGACTATCCAGTGCCATCCCCAACTACCAGGAATGTCCCCATGCTCTGAAAGAGAACAGACATCCTTCTCACTTGAGCCAAAGCAAAACATAAACCCCACAGTCAACACTTTTGAACAGATGTGTATGATCTCCTGGCTTTGAGGCTTGGTTTTCATGATTTCACAAGTTAGATATTAGATCATGGAGTTTCTATCCTATTTGTGTAGAAATTTAAAAAATGTTATTCATGGAGGTTAGCACCACTGGCCCGCAGTTAGGCCTTGAATACATCCATTTGCTCCAGCTTGAAGATTCCTAAAACCCCTCAACTTTTCAATGACAATAAAGACAGTTTTGCTTTGGATGCTCTTCAG
Seq C2 exon
GGTGTGATGCAGGGAACTGTGCCCTACCTGGGCACCTTCCTGACTGACCTGACCATGCTTGACACTGCCCTTCAGGACTACATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143344-RGL1:NM_015149:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(13.1=100)
A:
NA
C2:
PF0061714=RasGEF=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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)