HsaINT0012418 @ hg19
Intron Retention
Gene
ENSG00000141748 | ARL5C
Description
ADP-ribosylation factor-like 5C [Source:HGNC Symbol;Acc:31111]
Coordinates
chr17:37321332-37322414:-
Coord C1 exon
chr17:37321968-37322414
Coord A exon
chr17:37321393-37321967
Coord C2 exon
chr17:37321332-37321392
Length
575 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CCTTCCTCCGACGCTTCCAGAGC
3' ss Score
7.94
Exon sequences
Seq C1 exon
AGTCTAGTGCCCTAGACATGGCACTCAGAGGAGGGAGAGCTGGGATCCGGTTCCGCGCGCAGTGCTGAGTCTCCCCTGATTTGCGGTAGTGGAGCAGTCCACCCGGAGAACTCAGGAGTTTTCGCAGGGCGAGGGGGAGGGCTGGAGCCTGGAACCCCCATATTCCTTGCACCTCTTGGGCCCGGGACAGGCAGCCCTTAGTCACTGGGGTGTCCATAGTGCCCACGAAGGGCCAGCGTCCCAGAGGGTTCCCAGGTCAGGTTGGTGACGTGTGGGGCTTCCCTAACTTCGTAGGCAAAATCTGCCAGACCCTCCCGGGGGAGCGGAGCTCCGAATACCAGGGCCGACTCCGCTCCTGAGGCCGCTGAGCCCTCCTGCACCTGTCCGGCCCGGGAAGTGCCATGGGACAGCTGATCGCCAAGTTAATGAGCATCTTCGGGAACCAGG
Seq A exon
GTAAGGGGCGCACAGGGCATCCAAGCGAGCGCTTTGATCTCGCCCTCTTCTGGGACTCCTCTGATCTGTGGTCGGACGCACGGGGGGACCTCGGGCTCCGAGGGTCGTATATGGGCGCTCCTCGACTGCCCCGCGGCCTCCCCTGCCCCCGTCCCTGCCTGCTCCTCTTGGGTCCCGGCGCTTCGGTGCGCCCCAGGACGCAAAGCTGGGCGACCCTCCTTTCTCCCCGCTAAACGGAGCCAGCGGCGGGGATGGGGGGCTGCTGCGAGTTTCCTGCGATTGTGACTTCGCGTTATGCTCTTTCTCTAAACACCGTCTCTTGGCAAGCCCCGAAGCGCCCCGGGCCTTTCAGACACTTTTCTGGAATGTGAAGGGAGGTGGGGGCTCAGCTGTCTTTTCCACCGTCCCGGAGTGGGGCAGGTGTCGGAGCTGGGTGGGAAGCAGACGCGGTACGGTGGGCAGAGGTCCCCAGCCTGCGGGGAGCGCTATCTCCTTCCTGGGAGGTCTGGTGGGGGCACACAGTCCCTTGGTCTTCGGGTTTGGCCCTGACGCTGCCCTTCCTCCGACGCTTCCAG
Seq C2 exon
AGCACACGGTCATCATCGTGGGACTGGACAATGAAGGAAAGACCACCATTCTCTACCGGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141748-ARL5C:NM_001143968:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF128032=G-7-MTase=PU(8.9=93.8),PF0002516=Arf=PU(8.5=93.8)
A:
NA
C2:
PF128032=G-7-MTase=FE(11.9=100),PF0002516=Arf=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCCCATATTCCTTGCACCT
R:
ACCGGTAGAGAATGGTGGTCT
Band lengths:
354-929
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)