HsaINT0012445 @ hg19
Intron Retention
Gene
ENSG00000177917 | ARL6IP6
Description
ADP-ribosylation-like factor 6 interacting protein 6 [Source:HGNC Symbol;Acc:24048]
Coordinates
chr2:153574423-153577100:+
Coord C1 exon
chr2:153574423-153575538
Coord A exon
chr2:153575539-153577046
Coord C2 exon
chr2:153577047-153577100
Length
1508 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
GTCCCTCTTTGTATTTGCAGAGT
3' ss Score
9.64
Exon sequences
Seq C1 exon
GCGCGCGGTGCTCGAGGCGGAGGGGAGGAGGCGGGGAAGGCGAAAGGAGGGGTTCGGAGGAGAGGGTTCGATCTCCGTACGCACCAGGTGGAGAGCGCGCGCCTGGGGAAGGAGGCGTGTCGAGTAGCGGGAGGGAAGTTGTAGTACGGGTGGGGAGAACCACACTAAAGGGAGATGGGGGTGAGCAGTTAAGGAACCGCGAGAGCGCCAGGTAGAGAGGTGCCCTTAATGGGGGAACCTGGAGAAGAGTGTGAGCGTAGTGGGGAAGAAGGGAGAAGACAAATAGGTTCGGGAATGTGTCTCCGAGGGCGCGAGCGGGCGCTAGGACCCGGCGTCGAAAAGATGAGGCTTTGGGGCTGTCGGGGCGCGCGCTCCCGTTGGTGACGCGGGGGTGGCGGAGGTCTCCGGCCGGGACGAAGCCCCGCAGGGAGTGGATACTCGACAGCCTTCGGCCTCCGCTCGCTTCTCCCTGCGCGCTTTCCTGCTCCCCTTTCCGGCTACAGCCCTGGGGTCGAGCTCTGGTCGAAGCGCATTCCGCCTCTCCTTTGGCCCTGCGGCTTCCTTTGCAACCCGCCGCCCACCCTTGCTCTCCGTGGTTTACCCCTGGGCTCTGAGGCCTGGTGGTAGCGGCCACTGCCGCGGATTGGCTGTTGCGGACCCGGGGCGGGGCAGGTGGGAGAGGCTCGTTCTCCGCGGGTTTCGTTGTGTTTCGCGCCATGTCGTTTGCTGAGAGCGGGTGGCGGTCGGCTCTGCGGCGCCGCGGTCCCGGCACCCCGGGCCCTGTGGCTCGGCCATCGTATTCCTCCTTTACTCAGGGGGACAGCTGGGGTGAAGGCGAAGTCGACGAGGAGGAGGGATGCGACCAAGTGGCCCGCGACCTGCGGGCGGAGTTCTCGGCTGGGGCGTGGTCAGAGCCCAGAAAGCGCTCGGTGCTCCCGCCGGACGGGAACGGGTCGCCCGTTCTGCCCGATAAGCGCAATGGTATCTTTCCCGCGGCCGCGGGCAGCAGAGCCCAGCCTCGGCGGTGGCCGGTCCAGGTCCTCTCTATTCTCTGCTCGCTGCTCTTCGCCATTCTTCTCGCCTTCCTCCTCGCCATCGCCTACTTGATCGTTAAAG
Seq A exon
GTATTGAAGCCGACGCCTTGAAAGTCTGTCCAGAGTAAAGTTGAGCCAGGGTGTGGCTCTCGTCTCCACCCATCTCCCTTTCCCTCGCGCTAAGCCCTCAGGCTGGCAGCTGCTTTCACCCAGAGTCCTCATTTGCATCTTACTTTGCTCTCCCGCCCTTTGCCTTTTCTAAGTGGAGCGTCCTGATCCATGATCAGGAGACGTATTTTTAAAAAGGATCGTTTGATTAAATGGGTACTCTTGAAGAAATATCTTCAAGTCCTTGAACACTGGGGATGAAATATTGTGAAGATTAAACAAAATGCGAAACACCCACCATTAAAAGGAGACAGTGAAAAGTGCATATAATTAAAATAGGCCATGTTCAATGGCCTTCATCCACAAATAAAGATGTGCTGTCCACCAATTCCTCTACACAGAATCTTGAGGGACAAAGATTTTCATCGCATAGTCCAAATTTCTTCTTTTATAGGTAAAATAATTAGCCTCTCAGTTTTTAAGTTTGTATCCAGGTGTAGTGCACGGAGTTCTGTTGCAGAAAGTATAGTCCACTCGTCCTCTAATAATTTTGTTTTTCTGTCTGAAGTTGAAATATTGGCCGGTTGAAGTTTATTGCAAGGCATACGGTTGTATAATTTAGTTGGCTAGTGTATATTATAGTGGAAAGAAGCAGAGTTAAGTTTAAATTTCCATTCTCACTAGTTTGTGACCTTTGCCAAGTTACTGAAAAAAAAAAAAAAAAAAAAAAAACAAAAGAACTTTGTTGTATGAAAAGCACCCAAAACATTGTCACTGAAGTGTTATTTTTGTACTTCATTAAATATAATTAAATCTATTTAACTCCAGTTTTTATTTGTCCTCATTGCTTCCCAGCGTTTAGTGGGCTACAGATGGCATGGCATCTAAAACCTTACAATGCTTGATTTTCATACAGAAGACACTTTGGCCAGTTGATGTGGGTTTTACCTCTTCATAAAATGGTAAACTGAATGTGCATAAAATGCAAGCTGTCAGTCTTAAATGATTGGCTGCCAATGTTTCATTTATCATTCCCCTCCCCACTTTTTTGCCCTTTTTTGCAATTCTGATAGTTTTGTCTCCTAGGTGGTTTATTTCTGTTTTGCTCGGAGACATTGCCTTTGTATCATAAAGTCACAAAACCATGATAAGTGGAATTCCATTGCAGAAGACATTGAACTGTGCTTATTTGGAAGAATAGAGAAAGGAACTGAACTCCACCTAGTATGCCCTTTAGTGTTTACCACTACCTTAGGGAATAAACAGTACTCTCATCCTATGTACGGTATATAGCTGTTGGCTCCCTTAGTGGTCAACACATTAATTTGCTTGCTGAAGGTCACATAGCTGGTAAATTGAATCAGAATTTGAACCCAGTTCTTTGTGACTCCAGAGCACTTTCCACAGCTCCACAATGCCTTCACAGCCCTTGAGTTACTTTTCAAATTATAGTATTGCTTTCCTACCTAAGTCCCTCTTTGTATTTGCAG
Seq C2 exon
AGTTGCATGCTGAGAATTTGAAAAATGAAGATGATGTAGACACTGGACTATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177917-ARL6IP6:NM_152522:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.322 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106119=ABC2_membrane=PU(39.4=29.1),PF065706=DUF1129=PU(47.8=32.1)
A:
NA
C2:
PF0106119=ABC2_membrane=FE(18.2=100),PF065706=DUF1129=FE(20.0=100),PF150621=ARL6IP6=PU(21.2=73.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGCCATCGTATTCCTCCTT
R:
TTCAAATTCTCAGCATGCAACT
Band lengths:
351-1859
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)