HsaINT1004471 @ hg38
Intron Retention
Gene
ENSG00000141748 | ARL5C
Description
ADP ribosylation factor like GTPase 5C [Source:HGNC Symbol;Acc:HGNC:31111]
Coordinates
chr17:39161268-39162858:-
Coord C1 exon
chr17:39162711-39162858
Coord A exon
chr17:39161352-39162710
Coord C2 exon
chr17:39161268-39161351
Length
1359 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GGCTCCCCTCTGCTGCCCAGTTT
3' ss Score
2.71
Exon sequences
Seq C1 exon
CTTGACCAATGAGGTGGTCCATATGTGTCCCACCATTGGCAGCAACGTGGAGGAGATCATTCTGCCGAAGACCCACTTCTTCATGTGGGACATAGTGAGACCTGAGGCTCTGAGCTTTATCTGGAACACATACTACTCCAACACTGAG
Seq A exon
GTGAGGAGGGCACCAGGGCTGAAGGGTCTCCAAGGCAGGCGTGTGATATCAGACTGTCATGTAACCTTTCTGAGCCTTGGTTCCCCAACTTGTGAAATAGAGATTATAATGGTCGGTTCCTGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGTCCAAGGCGGGTGGATCACCTGAGGTCAAGAGTTCGAAACCAGCCTGGCCAACATGGCAAAACCCCACCTCTACTGAAAATACAAAAATTAGCTGGGCATGGTGTCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGACAGGAGAACTGCTTGAACCTGGGAGGCAGAGGTTGCAGTGAGCCGAGATCACGCCATTGCAACTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAAAAAAAGTTTTATATATACATATATATAATGATCTCCCTAAGTTGTTGTGAAAATTAAATAACAAACCAATATGTAATGCATATATGTCAGATACTCAACACAGTGCAGTGCCTGCCTGTTAACGTGTTTGAATACTTCCTGGCAGCTGCTGGCAGCTTTCTGTTTGATGCACTGGATGGGTAGGCCCCTTCTCTCTAGGGGCCTTACTTTCTTACTCCAGCAGGAGTAGAATTCAGTGGTATAATTCCTGGACCGAGACAGAGCTGGGTTCCATTTCCAGCACTGCTACTCACCAGCTGTGTGGTCAAGAGCAAGATACATAGCCTCACTGAGCCTCAGTCTCTTCATTTGTAAAATGGGGATACTAACAGTACCAAGTCCACAGCGTTGTGGTAAGGCCTAAATGGAGTCATGAACACCCAATGCTTATGTAGCACAGCCTCTGCCACACAGTCAGAGGTGTGCTATTCCCATGTCTGGATAGAAAAGACAATTACAGGCCAGGTGTGGCAGCACACCTGGTGGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGCAGATGACCTGAGATCAGGAGTTTGAGACCATCCTGGCCAACATGGCGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGTGTGGTGGCACGCGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGTGGGAGAATCGCTTGAACTAAGGAGGCAGAAGTTGGAGTGAACCAAGATTGCGCCACTGCACTCCAGCCTGGATGACAGAGCGAGACTCCGCCTCAAAAAAAAAAAAAAAGACAATTATAATGGAAGCAGGGTGGTGAAATCTTGAGGCTGCATGCTTTCATTTCTCTGGGGCTGACATCTGGGCAGTGCAGAGACCAGTGGGGAAAGAAAGAGGGCAGGAAACACATTTACCAAAGAGAAAGCCTGTCTCTCACGGCTCCCCTCTGCTGCCCAG
Seq C2 exon
TTTATCATCCTTGTGATTGACAGCACGGACCGGGATCGGCTGCTGACCACTCGGGAGGAGCTATATAAAATGCTGGCCCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141748:ENST00000269586:3
Average complexity
IR
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:
PF128032=G-7-MTase=FE(29.2=100),PF0002516=Arf=FE(27.8=100)
A:
NA
C2:
PF128032=G-7-MTase=FE(16.1=100),PF0002516=Arf=FE(15.3=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:
CCAATGAGGTGGTCCATATGTGT
R:
TGGGCCAGCATTTTATATAGCTCC
Band lengths:
223-1582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains