RnoINT0010401 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98277035-98278163:-
Coord C1 exon
chr10:98278025-98278163
Coord A exon
chr10:98277126-98278024
Coord C2 exon
chr10:98277035-98277125
Length
899 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGTT
5' ss Score
2.03
3' ss Seq
CTCTGCTTCTTCCTTTTCAGACA
3' ss Score
11.36
Exon sequences
Seq C1 exon
ATTTTCCTACTGGATGAGCCCACTGCTGGGCTGGATCCCTTTTCAAGGCACCGGGTGTGGAATCTCCTGAAGGAGCGCAAAGCAGACCGTGTGGTCCTCTTCAGCACGCAGTTCATGGATGAAGCTGACATTCTGGCTG
Seq A exon
GTAGTTGCTGCTTCCTTAAGCATCACGATGAGGACAGTCAGGGACCTAAGCACCATGGACCAGTGTTGTGAACAGCTAAATTTTCACCTACTCATCTAAACGTGTGGTGAAGTGTGCATTTAGCACAAACATATTAACATCAATTATTTTACTAGGTCATGTATGTGCATGCATGTATGGGTATGTGTGTGTTTGTATGCATATAGATATACGTGTGTATGTGCATGTGCTGCCCAGAAGAAACCCTGGGCATTGTTCCTCAAGAGCTCTACCTTCTTTTGCGAAACAGGATCTCTCTGTAGGTTAGACTGGCTGGTAGGGAGCTCCAGGGAACTGTCTGGCTCTCCCTCCAAGTGCAAACTGCCTAACTCAGCTTTCTCACAGGTTCTGAGGTCCACAGGTCCTGAACTTGCACAGCAAGCACTTTCGTGACTAGCCGAGCTCTCCAGCTCCATTTCGGCATATCTTGTACAGGTCATTGAAAGTTGGGTAGTGGCTCAAACTGCCAAGAAACTCACAGTGAAGTAAATGAAGTCTACACTCTTAAAGCTTAATTCTTTTTTTCAGACTTGAGTCCTTTTGTTCAGACTTGAAATGTTCAAATGCTTTTAACGTTTGATCTATCGAGATGTGTAATGTAAATCCACACGGTCTAGTTTGATCTATCAGGATGTGTAATATGAACACACACGGTTTAGTCTCCTCGATGAGTTAGATGATGAGAAACAAGCCTGAGGAGAGATTAAAGGATTTGCGTCACGGAGTCCTCATTAAGTCCCATCTGGAACAGGAAACGTTTCTGGATTGAGTTTTGGAGCGTAAAAACAATTGTCTGTCTTTTCTCAAAAACAGTTGGCCCACTTCTGCGCAGACTTTCTCCTCTGCTTCTTCCTTTTCAG
Seq C2 exon
ACAGGAAAGTGTTCATCTCCAGGGGGAAGCTGAAGTGTGCAGGCTCATCTCTCTTCCTGAAGAAGAAATGGGGCGTTGGGTATCACTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:14
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:
PF0000522=ABC_tran=PD(5.4=17.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTTCCTACTGGATGAGCCCAC
R:
CTTAAGTGATACCCAACGCCCC
Band lengths:
230-1129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]