HsaINT0012414 @ hg19
Intron Retention
Gene
ENSG00000165997 | ARL5B
Description
ADP-ribosylation factor-like 5B [Source:HGNC Symbol;Acc:23052]
Coordinates
chr10:18955504-18957606:+
Coord C1 exon
chr10:18955504-18955564
Coord A exon
chr10:18955565-18957458
Coord C2 exon
chr10:18957459-18957606
Length
1894 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
CGGTGTCTGTTTTTCAACAGCTT
3' ss Score
9.52
Exon sequences
Seq C1 exon
AACACAAAGTAATTATAGTGGGACTGGATAATGCAGGGAAAACCACCATTCTTTACCAATT
Seq A exon
GTAAGTATGGGTGTTTATTAAACAGTTTTCACTAGTTATTGAAACTAATGTGTTTACAATTAATAAGAGATGCATTATAATAATGACGGAAAAACTTAAATATATGTTTTTTGTTTTTTGTTTTTTTAATTTTACCGAACACAATCTATAGAAAAGTGAGTGAAATAAACATTTGCTAAACCCTTCACAAACACTTATTGTTTTCTGCCCTCGAAAGAAAGAAATTAATATTAAATAAATAAAGCGCATATTAGAAGTGCTGGGGTGAGGTGATAAAGTGGATTTCACTTAGTTCTTACCCCACTTGGGTTTATGTAAATAAATTGATAGCTCTAGGAAGCCATTGCTACCCTCCTGACTAATAGCTTTGGAATTTTTTAACATAGCCAGACTTGTCAAAAGAAATGTGATCACTCCTGAAAATATTGCTGTAGTAGCTTGCAAGAGGGAGAGTCTTGAGACTTTCAGAGAAATCTGTTAATACCTTAGGAAATTTTCACAGCTCATCATTCCACTTGTCAGAGTACCTTCCATTATCCTTTCAATGCCAATGAAATGATAGTATTAAGCAGTAGAAGTGGATCTACCAGGCACTTTAACAAAATAGTTCTACAGTTCTTTGCCCCATTGTGTGGCTCTTACCTCTTCCCACTCATGTTGCATTAGAAGACAGCCATCAGCTCACCAGAAGTACTTCATTAGCCAGTGATTAACGCATTTTTCAGCTACTTTGCTAAAAAGCTACTGACTTAAAGTTTGTTGTTTCAGAGTTGAACAACTACTTGTTTCTCTTGAAAACATTTTCATTCATTGGTGATTATGTGTTTAAATATGAATTAGCTTTTAAACATCACATATAAACATTTCAGAAACCTGTCATCTTTGTTGAAATAATTTTACACATGGCTTCAAAAATATACATAAAACCCAAGAGAATTGCAAGCCTCCTCCAACACAGTAGTGACATGTTACTGGCAAGGGCATATTTGTTGAATTAATTGATTAATGTAGCTTTACCAATGATTATGATAATACGAGGGGTATGAGCATCAGTATTCTAAATATATATATATATATATACACACACACACAAACACACACACACACATATTTGAGACAGAGTTTTGCTCTGTTTCTAAGGGTGGAGTGCAATGGCGTGATCTCCACCTCCCAGGTTCAGGCGGTTCTCCTGCCTCAGCTTCCAGAGTAGCTGGGATTACAAGCGCCCACCACCACGCCCTGCAAATTTTTGTATTTTTAGTAGAGACGAGGCTTCACCATGTTGGTCAGGATGGTCTCAAGTTCTTGACCTCAGGTGATCCACCCAAAGTGCTAGAATTATAGGTGTGAGCCACCACACCTGGCCTTCTAAATATATCTATAGTTAATTTAAATTTTTACTTGCCCATGGTCATCTTTTTAGGACTACTTTAGATTAATATGCCTGAATTAATTTTTGTGACTAAGTCTCAATTTAGACAGTCTTCAAAATTATAGATAGCCTGCTATCCAATATTTGCTATTTTGCAATCACCTAGAAACTTGCTTTTCAGGATGGCATGGGACATTGGGTCTTATCTAACTGATAACAGGGCATGGTGGTATTGGAATTTTTGGCCACAGAAATGCAAATTCACACCACACTGTTTCCTTTCTTTTCCATCAAGCTTGCAATTCCTTCCGTTAAAAAAAAAAACAAACAAGAAACAAGTCTTTCTTCTGGAGTTGTTATCTAGATATTGATTTGCGCAAGTGTTCTCCAGGTTTATAATTTTCATGCTAATGATCACCATCATTGGTGCAGAAGGTTGATTGATCTTAAAAATACAGAGATAAAAGTTGCTTCAGATTCTCAAGATTTACAAGAGCTTTTACGGTGTCTGTTTTTCAACAG
Seq C2 exon
CTTAATGAATGAAGTGGTTCATACTTCTCCAACCATAGGAAGCAATGTTGAAGAAATAGTTGTGAAGAACACTCATTTTCTTATGTGGGATATTGGTGGTCAGGAGTCTCTGCGATCATCCTGGAACACATATTACTCAAATACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165997-ARL5B:NM_178815:2
Average complexity
IR-S
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:
PF0002516=Arf=FE(11.4=100),PF128032=G-7-MTase=FE(32.8=100),PF0231712=Octopine_DH=PU(5.9=33.3)
A:
NA
C2:
PF0002516=Arf=FE(27.8=100),PF128032=G-7-MTase=PD(45.9=56.0),PF0231712=Octopine_DH=FE(41.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACAAAGTAATTATAGTGGGACTG
R:
TGTATTTGAGTAATATGTGTTCCAGG
Band lengths:
206-2100
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)