RnoINT0010323 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98510471-98512579:-
Coord C1 exon
chr10:98512413-98512579
Coord A exon
chr10:98510605-98512412
Coord C2 exon
chr10:98510471-98510604
Length
1808 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAC
5' ss Score
5.56
3' ss Seq
ATTATCAAAAATCACACTAGAGT
3' ss Score
1.82
Exon sequences
Seq C1 exon
TCTACCGCTTCTTGGAATTTCATTGATCCCACTGATTACGGAATACATGGCTAATGCTTTGATAGAGGTAAAAACCAACTGGGAATTTAAAACAGACTTGTATTTCCTGTCTCCCGGACAACTCCCTCAGGGCCTGCGAACCAGTCTATTGGTCATCAATAACACAG
Seq A exon
GTGAACAGGGGATCGGCGTTTTAATACAGAGATAAAGCTTTAACTGTCAAGTGGTACAGGAGGGAGGGGGAGAATCTAACAGAAGAAAGATGTGAATTTATAGAAAATGACTTGTGAGGAGCGGTGGACAGGTTCCCTGATCTGGGGGAGGACAAGGCTGGTGGGAACATGGGACAAGGGTCTTGTCACTGTTCAGTTGGTCTCCATTGTTCACACCTGGCAGACATTGCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGACAGAGACAGAGAGACAGAGAGAGACAGAGAGACAGCTGTCTTTTCCTGAATTTCTCGCTGATTCCTACTTTCCATAGGTGTTTTTGATTCAAGGCTGTGCAGTGTTTTGATTTTCATTCTCTAGTCTCTTCCATTGCAGGTCTGGAAAGTAAAATGTCTTCTTTCTCTAAAGCCGAAAGTGTCGAGTTGTGCCTTATTTGCAAACATTTAGAATTGCCCATTGCCCATCCGACTGTGGCCATTCCACAGGGCCCTCCCCACTCAGTATGAGGATGATACACTTGTATTCTCTCAACCCCACACCCGACACTTTTGTCAAGTATTTTGGGGATTTATTCTGCCTTATTTCTCCTCCTCTAAGTTTGATATGATCATTAACAGCGTGTTCATCTTTTCATATGAAAATCCTTGTTTGGTTTATATGACTGTGGGACACCGTTATTTGTAGCCTACTGTGGAATGGAGTTGTGATGTGCGACTGCCCCAGAGTAGATGTAAATATGGTTTTCTACATGTGTCCCATTCCATCTCAGGGGGACCCGGATTTGTCTCAAGTTTGACACTATTTGTCCAATTCTTAGAACACTGTGTGTTTCTAGTACGATCTCTTGTTTCAAAGGCCAGAAAAATGGTCTCTTCCATTGTCCATTCTAATTTACCTTGATGGTCGTTGTTTGGGATTACTCCAAGTCTTGACCTGCTTCTCTTCTTAGACACCGTATTTTATAAACAAGGGGTGTCCCAGAGATGACTAGAGAAGTTGTCTTTGTGTGGAACACGGAGTGCCCCTGACCGCTCATCTCGCTCCAGCTCTAGCCGGTAATAGCACCCGTGATTGTGGCTCAGAGCAGGATAACTCAGTTATCCGCTTGAGTTTTGTTTGACGTTGTAGAAACTGATTTACTATTTTTCTCCCGTGTGCACCAGGCCATGAGTTTTTCTCAATTTTATTTCTCTCCCATGTAAATTTCACACATTTTCTTCTTTTAGAATGCTTAAGGATTTTTGATTTATGGTGGCATCCTTTTTTTATTTCCCAAAAAAATATACATTTTTCAAATGTGGAAAACATGAATTATATGTACACATTTTAATATTTTTATTTATTTGTTAAGAATATGAAGGAGAGGAAAATGTTATCAGGCTGAACAATCTGTAGTATTTCTCATATTAATTTTTCAGAAACTATCAATTTATACGCATCTAAAAATAAACGTTATAAAATAGAATTATCTTGTTTGAAGTATACATACTAACTTACCTTACGTGGAATCATGATGGTACTTCATCATAATGTTCGCCATAATGTAAGATTTGCTAAATAGGCGATGGGTGAGTGACTGATTTATAACTTTTAGGCCAGCCGTAGTATTATGTTATTTATGAAGTATGCTCAGGGTAGGGTACGGATGCTAGGATGTTAACTTTATAGGGCTCGTGAAAAGTTTTGTTTTTTACTTGCTTTCATATTGTCTTCCCCCACCCCCATTATCAAAAATCACACTAG
Seq C2 exon
AGTCAAATATTGAAGATTTCGTGCAGTCGCTGAAGCATCAAAACATAGTTTTGGAAGTAGATGACTTTGAGAACAGAAACGCCACTGAGAGCCTTTCCTACAACGGAGCCATTATAGTTTCCGGAAGACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:19
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:
PF126982=ABC2_membrane_3=FE(15.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACCGCTTCTTGGAATTTCA
R:
CTTCCGGAAACTATAATGGCTCCG
Band lengths:
294-2102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]