RnoINT0010396 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98293034-98294522:-
Coord C1 exon
chr10:98294427-98294522
Coord A exon
chr10:98293239-98294426
Coord C2 exon
chr10:98293034-98293238
Length
1188 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGG
5' ss Score
6.63
3' ss Seq
TCTGTTCTTGGGCTGCGTAGGAA
3' ss Score
6.06
Exon sequences
Seq C1 exon
ATGATCAAGAGAGAGATAAGTGTGCGCCAACAAACTTGTGCTTTATTACAGAAGAACCTTCTTAAGAAATGGAGACTGAGAAGGGAGACCTTGATG
Seq A exon
GTATGGTTCAATGTCATTGCCACTGACTGATGATGATATAAATGTATCTTGCCCGAGAATTGTGTGTGCTTTTTCTCATATATCACCCTACATGCCAAAATGTGAATGGATGAGCAAATCTCCCTGATACAGCTGGAACTGTTTTACAGTCATATGTATGTTTGAAGATACTTGATTCAGTCAGTTTAAAAGTATTAACCCTGACCAGAAATTCAGAATTCATCAAATGTCTTTCAAAGCCACTGGTCACACTTCTCACTAGTGTACCACTCATAGATACAAGAGTTAGGATGGTTGTAGCCTAAAGCTGTGGGAAATAAAACAACCCAGAGAAAGGGGTGTTTGGCATTTTCTCATTTGAATCTCTCTCTCTTTTTATAATTTATTTATTTTTATTTTGTGTACATTGGTGTTTTGACTGCATGTATGTTTGTGTGAGGGTGTTGGATCCCCTGGAACAGGAGCTCCAAACAGTTGTGAGCTGCCATGTAGGTGCTGGGAATTGAACCCAGGTCCTCTAGAAGAGCAGCCAGCGCTCTTAACCACTGAGCCATCTCTCCAGCCCTTGAATTTCTTTCTTGTTTAAAAATTTTACTTCAAAAATATCAGAAGGGGTTGGACACATACTCATTACTAAAAAAAAATTATGAAAAAATGTCTAAGCTTAGGCACTGAGGAAACAAAATAATTTATTGGGAATCTGTGAATAGCTAAGGTTTCTAATTACCAAACAATGTGGTACTCCTCAGATGATCACCATTCTGCTGAGCAGCATCTGAAACATCTTGGTGTGTAATCATTATGCTGTAACTACATTATGCTGCCACTTCGATACCAGATTTTCGGCAAAGATGTCTCAAACTGGTTGCCAAGGTAGCACTAGGTGAGAATAATGTAAACAACAGTTGGTTGCATTTTGAGGATCTGCCTCGGCACAAGCACTAAGAGGCCCAACACATTCTCATTCCTGTCAATAACTGACTGGAGTCACTGATGATTTTGTTCCACACCTATTTCATGTGGTTTGTCTTTAAGACACAATTGGACTTTTTACAAACAGAGAGGCCAATTTGGTGACAAAATATTTGCGGATGAGTAACTTGGAATTATGTTTAGTTTTTTTTTTCTGTTGGTTATGGATGAATAATTTGGAATTGTGATTTTTCTCTCTGTTCTTGGGCTGCGTAG
Seq C2 exon
GAATGGATGAGCTCATTGCTCCTTCTGCTTTTCTTGTGTTGGTATCCGCATGGTCATGAAGCTACTGACTTTTCCTCAGTGCCCACCAAGGATCTGGGACGAGTCGATTCTTTTACACAATCTGGGTTCATGATAGGGTATACACCTGTCACCAGCACGACCCGACAGATAATGGAGAAGGTAGCTGCTGTCCCTTTCATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(1.0=12.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.4=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:
AGAGAGAGATAAGTGTGCGCCA
R:
CTGCCATGAAAGGGACAGCAG
Band lengths:
294-1482
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]