RnoINT0010407 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98292032-98293238:-
Coord C1 exon
chr10:98293034-98293238
Coord A exon
chr10:98292194-98293033
Coord C2 exon
chr10:98292032-98292193
Length
840 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CCCCACTCCCTCATCTGCAGGTA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GAATGGATGAGCTCATTGCTCCTTCTGCTTTTCTTGTGTTGGTATCCGCATGGTCATGAAGCTACTGACTTTTCCTCAGTGCCCACCAAGGATCTGGGACGAGTCGATTCTTTTACACAATCTGGGTTCATGATAGGGTATACACCTGTCACCAGCACGACCCGACAGATAATGGAGAAGGTAGCTGCTGTCCCTTTCATGGCAG
Seq A exon
GTATGTGTTCTAGTAACCTAAGAGTTAGGATTTGATTCCTATCCGTTTTATTCTTTTAAGTCTTAACAGGATATATAGCATTGAACATAGTATCTGCAGAAAAGACTAGAGATATCAACCATAGACACTGGGTGTATTTTGAATTTTTCCATTCTTTGTTTTTTGTATGTTCGTTTTAGTTTATCAAACATATCAGGCTAGGAAGATGGTTCAGCAGTTAAGAGCACTTCTTGCTCTTTTAGAGAACGTGTATTGGGTTCTTTGCACCATTATGATTGCTGACAACTGTCTGATACTCCAGTCCCAGGGCATCTGATAGCGTCTTCTGATCTCTGCAGGTATCATGCATTTACATGGTACACATACATTAAGGCAGGCAAAACACTCATACGTGTAAAATATATTATCAGGGTTCATAAAAGAATACAATACTGTATTGCTTTTACTTATATAAACCATTGTCTGATTTGTACCATGTTATGTTTATTAAAATGATGACTGTAGAAATAATTTCGCTGGTACCATATTATGCTTTATTTTGTTGAAGTTGGCACAGTAATCAAATAATAATATATAATATTATATTATAAAATATAATATTTATAATATATATACATATAAATATATTAATTTTTATTAATTAATCCTTTTTACTATACCTCAATATAGCTTCAGAAATGTCATCCCCAGATTTTTAGACTGAACAATGTATTCAGTGTCAGTACTTAATTCAATGTTGTTTCCATGAACATCTCTTGTGAAAGATAACAGACTTGATATCTCAACATTTTCTCTTTCAGTCATTTGCTAATGACAGTGTCCCCACTCCCTCATCTGCAG
Seq C2 exon
GTAGAAAAGTCCTGGGACTGTTGGATGAAGAAAACATCAGGGAATTAACAGAAAGTCATCAGGAAGTAATAAGAGTCATTTTCTCTGATACGTTCTCATATCATCTGAAATTTCAATTTGGACAGAGAATCCCAAAGTCAAGGGAACATGGAGATCATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:2
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(17.4=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.8=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:
GCTCATTGCTCCTTCTGCTTT
R:
TCCATGTTCCCTTGACTTTGGG
Band lengths:
347-1187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]