BtaINT0021406 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001435 | ARL6IP6
Description
Bos taurus ADP-ribosylation-like factor 6 interacting protein 6 (ARL6IP6), mRNA. [Source:RefSeq mRNA;Acc:NM_001034281]
Coordinates
chr2:43582328-43584232:-
Coord C1 exon
chr2:43583822-43584232
Coord A exon
chr2:43582382-43583821
Coord C2 exon
chr2:43582328-43582381
Length
1440 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
ATCTCTTTTTGTATTTACAGAGT
3' ss Score
8.67
Exon sequences
Seq C1 exon
TCTTTCCCGCCATGTCGTTTGTGGAGAGCGGGAGACGTTCGGCCCCTCTGCGCCGCCGGCCCGGCACCCCTGTCCCGTTCGCTCGACCTGCGTATTCCGTTTTCAGTCAGGGAGATAGCTGGGGTGAGGGCGAAGTCGAAGAGGAGGAGGGATGCGACCAAGTGGCCCGTGATTTGCGGGCGGAGTTCTCGGCCGGGTCGTCATCGAAACTCAGAAAGGACCCGGTACTCCAGCCAGATGGGGACGGATCTCCGGTTCTGCCCGATAAACGCAATGGCATTTTCTCGGCGGATGCGGGTGGTAAAGCCCTGGCTCGGCGCTGGCCGGTCCAAGTCCTCTCAATTCTCTGTTCTCTGCTGTTCGCCATCCTTCTTGCCTGCCTGCTCGCCATCACCTACCTGATCGTAAAAG
Seq A exon
GTACAGAAGGAAGCCCGGGCCTTGAAAGTCTATCCAGAGTTTACTTCAGTTGAGCCTGGATATGGTCCTTGCCTTCATCGCCCTCTCCCCCATAGAAGCTGCAAGCTTGGTAGCTGGTTTCATCCATACGCCTCATCCGCACCTTTCTTTGGTCTTCCCCTTTGTCTTGTCTTAAAAGTAGAAGACTTTGGTCGGTGATCAGGAGGCCCATTTTTAGAAAGGGTCTTGATAGGTTGGTAGTCTTGAAGAAATAATGGAATCAGTGAACACTTGGGGATAAAATATTGGTAAAATCAAGCAGAATGCAAAACAACTATCCTTAAAGGAAGGCGGTGAAAAGGGTAATTTTAAAAAGCTATACAAGTTCAAAGACTTAAATCTGCAAATGGTTAGAGGTGTACAATCCACCTGTTCTGTACACATTGAATTCCTGAAGAACAAGGATTTCCATTGCACAGCCCAAAATGTGTATTTAGGTAAAATAGTCCCTCTTGGATTTTTTACTAGGTTTGCAACCCAGTGTATTGGTGAAATTCTGTTGCAAAGCAAGATAGTCTGTTCTTTGTCTGATTAATGGTTTTACATTTCGTGTCTGAAGTTGAAATACTGGCCAGGTTGAAATAGAAATAATGCCTTGATCGGTTTTCCAGAACGCATACAAATGTATTATGTGTTTGGATATTTTACCGTGTGAAGAATCAGACCTGAGTTGAAACCTCAGTTGTAACTGTGATTTTGGCTAAGTTATTGGGAAAAAAAACTACCTAAGTTTGTTATATGAAAAGCACCCAACACGTAACTCGAGTATTAGTTTTACTTCACTAAGTAGAATTAAATCTATTTAATTATAGTTTTTATTTTCCTTCTTTGCTTCAGGCCCCTCATGAGCTGTTCATGGCATCTAACACCTTTCCATGCTTGATTTTCATACAGAAGACAGATTGGCATGTTAATGTGAGAGTTTGACCTCTTCATACAATGGTACAGGGTGTAAATTGTCAATGTTAAATATTTGGGTGCCAATGTTTCATTCCTCTACCACTCCCCTCCCCCATTTTTTCAAAGCAGTTCAGTTTTGTCTTGTAGATAGTTATTTCTGTTTTACTCAGATTGCCTTTGTTCATAAAGTCATAAAACTTGGTAAGTAGAAGTGCATTGCAGAAGACCTTAAACTGTGCTTATTTTGGAGAATACAGAATTGAACTCAATAACTAGTAATTTGCCTTGTATAAAATGTCTTGGGAATAAAAATCCCCATTTTACATACATAGCAGTTGATCAAAAAGACATCTTATTTGCTTCCTGAAGGTCACTCAGCTAGTAAATGGAATCCAGGTTTGAACCCAGTTGTTTCCGGCTCCAGAGCAGTTTCCAGAACTCCAGGTCTTTCTAGCCTTTGCGCTTCTGTTCAAGTTATAAAATCTCTTTTTGTATTTACAG
Seq C2 exon
AGTTACATGCTGAAAATTTGAAGAATGAAGATGATGTAAACACTGGACTGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001435:ENSBTAT00000001883:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150621=ARL6IP6=PU(18.2=73.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
CAGGGAGATAGCTGGGGTGAG
R:
ACAGTCCAGTGTTTACATCATCT
Band lengths:
355-1795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]