RnoINT0010412 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98257191-98259174:-
Coord C1 exon
chr10:98259067-98259174
Coord A exon
chr10:98257365-98259066
Coord C2 exon
chr10:98257191-98257364
Length
1702 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
CTCTGTTCTCTCCTGCACAGAAC
3' ss Score
9.82
Exon sequences
Seq C1 exon
GATGAAATTACTAATCCTTTACAACAGCTGGGGAAGACCACGTTCTGGCTGACTCTGACCTCGGCTTGCCCTCCTTATATAGCCATGAGCAGCGTCACAGACTATAAG
Seq A exon
GTAATAATGAATTATGAGTAGCTGGAACTTGAGTTACTTTCTAAATTAGAAGCTGAAAGTATAGTGATACACACACACACACTCACACACACACGCAATCACACACACTCACACACTCACATACACACTCGCACACACTCACACACTCACACATACACACTCTCACACACACACACTCACTCACACACACACTCACATACACACTCACACACACACACTCACACATACACACACTCTCACACACACACTCACATACACTCACACATACACACTCATACACACAGACTCACACACTCTCACACACTCATGCACACTCACACACACTCACACATACACTCACACACACATACACTCACACACACTCACACAAACACACACTCACACACTCACACACACACAGAAACTCACACACACACTCACACACACACTAATGATGCAGTTTTTAATTAATAAACTTAAATAATTCCGTGTGTTAAGTACAATTGTGCAAAATGAAATGCAAAATTGAAAAACAAGTCCACTCATATATCACCAATAGATTTTCAATCTAAAAGGTACTGAAACTATAGAGAGTCCTTAAATCAATTTTCAAAGGAACAAATGCTTGAGCAAATGTTTTACTGAAGGAGATACACCCGTGGGAAATATCCTAAGAACAATGGCTGACCCCATGAGTGATCAGAGATGAGAAACCTTTACCCAAAATGGATCTTGGTTCAAATGACTGGCGTGAACCAGTCTCTGCTGCTGGAAAACAGAAGCTCTCATGCAAGCTGGCCCCCAAGATGCCCATCCAGATACGAATCAATAAACAATTCTGGTATAACCATGGATGCAGTAGAATATTTCTCAGAATAAGTATTTTAAAACTTCCGACGTTCAAGTGACAATTTGTAAATTCCAATTTATAACTGATTTTTTTCTGATTCAAATGAATCCTTGCTGTCTATAATTTATAGAATATAAAATATGGCAATTGTATATCATACAATTATGTGTTTGTTGTATGTAATAGCTCAAAAATACCGTGTGAAAATGTAAATATAATCACATATATGGTGTGTAGTATATGTAATTTTATTTATCATATAATTATCTCCACTAAATATGGTATTTTAAATTACTTAAAGGGCTGAGAGATAGCTTAATTGGTAGAGTGGTTGCTTACCATGTGTGAAGTCCTGTGTTCAGTCCTCAGGGCTACATAAAATCAAATACGGTAGTACTGCAGAAGGACCTTGCCCTGTGAGTTTAAGACTAACCCGGATTTATTAGACCCTGTCTCAAAACATAGTTAAATCAAGTCACTTCCATAGTATTGCATACACATTTTATACGTGAAGTTACACAGTTATATAGACAGAGAGAAATGGGTTGCTCTATAGATAAGCCTTCCTTTCACACACCCAGCCCGGTAAGTCCCTGCCCACTCATGGTGTTATTTGATTACAGAAAATCTCCCTCAGGTACCTCCCAGGTACGTGATAAACCTCAGTGTGACCTTCGCCAACGCAGCCCATTGGTGGCTACATCTGTCAGTCACCCACCCCTCTCAGCCTGGGTTGTACTTATACTGGGTTGTACTTACAGTCCAGAGTTATTATAAACAACATTGACATTAAATATTCATTAAATCAATCTACGTTTCCTTAAAATTCAAGCTGAAGTCACACTTTGCGTGTCTCTGTTCTCTCCTGCACAG
Seq C2 exon
AACAAAGTGTGGTTCCAGCTGCGGGTCTCCGGCCTCTTCCCTTCCGCTTACTGGTTCGGGCAGGCACTGGTGGATATTCCGCTCTACTGCTTCGTCTTCCTCTTCATGTCTTTAATGGACTACCTCTTAGGCTTCCCAGATGCCACGCTTATTGTTATAACTCACGTTCTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:24
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=PU(16.6=94.4)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(27.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTACTAATCCTTTACAACAGCTGG
R:
ACGTGAGTTATAACAATAAGCGTGG
Band lengths:
270-1972
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]