RnoINT0010468 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98376988-98377953:-
Coord C1 exon
chr10:98377850-98377953
Coord A exon
chr10:98377215-98377849
Coord C2 exon
chr10:98376988-98377214
Length
635 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CACGGACAATCTTTGTTTAGGTC
3' ss Score
7.19
Exon sequences
Seq C1 exon
CTCATTGTTTTCGATATGAACCTGCCATTTCTTGTGACCTGTCAGCCTTCTGGAGACATGGGTTTGTGGCTCTTCAAGCTGCCATTAACTCCGCCATCATAGAA
Seq A exon
GTGAGTGCAAATGTCTGATGACAATTATTCAGTTTTGTGAACCTATTGAGACAGCTACATTCTCTCACTCCCATTTACGCTTTCCCGATGATTTGCTACTCACCCGCCCAGATTTCTCCAATAAAGTTCACCAAAGTTGCTGCATTACCAGGGATAGCGTAGCAGCAGCAACACAGACGAAGCAAGACTTCTTTCTTTAGGGAATCAGTCCCCTTTGGAAGCTGGACATGCAGTCACATAATTATTGGAACAGGAAACACATGTCACCACAGCATGGTGAATGTGTCTGTAAAGGAACACAGAATATCGGCTTAGATGGAAGGATTCCTGTGAAAGAGACCCTTATCACTGAACGATGGGGTGGGAAACATATTTACTTTATATAGTAGGAAAAGGCGTTCCAAGAGACGAGAACAGACAATGAAAAACATGAAGTTGATAAAACATGGAGTAATGTGGGCAGAGCAGATTGAGAGATTGGACTCTAGAACCCAAGTAACCGAGTTACAGAACACCTGAGAAGAAACTCAGGCCAAAGTCCAATCCAGATAAGTCACATATGTTCAGTGGAAAGAGCATGTTTCGCCTAGACATCATTGCTGTTCATGTTTTCCTCACGGACAATCTTTGTTTAG
Seq C2 exon
GTCACAACAAATCACTCAGTGATGGAAGAGATGATGTCACTTACCGGAAAATACATCAAGATAGACTCTTTCATTGCGCAAGAAGGAACGACGACCGACTACTTCCTTTTTTTATGTATTATTGCTTTCTCCCCACTTACCTACTATATCTCAGCTGGTGTTACAAGAGAAAGGAAGAAGATGAAGGCCTTTATGACAGTGATGGGCCTTCGGGACTCAGCATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:5
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(8.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTCGATATGAACCTGCCA
R:
CAGAATGCTGAGTCCCGAAG
Band lengths:
326-961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]