RnoINT0010452 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98339552-98341636:-
Coord C1 exon
chr10:98341523-98341636
Coord A exon
chr10:98339672-98341522
Coord C2 exon
chr10:98339552-98339671
Length
1851 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TATATTTCATTTTCTTCTAGGTC
3' ss Score
10.98
Exon sequences
Seq C1 exon
ATCCTCTATGCTGGTGGCTATGCTATGTCAGTTATTTTCATGATGTATGTGATTTCATTCATTTGTCGCAAGGGGAGAAAAAATAGTGGCATTTGGTCACTTTGCTTCTATATT
Seq A exon
GTAAGTATGTTTACCGTTTTTATTTTCGTGATGAAGTTATGCAAAACATATATGTTAAAATTTATCTATTTTGACCTCACTTTCTTTAAAGATAGTAGAACTAGTTATAGGATTATAAACCTAGGTATTGCTTTGAAATCCCTTTTAGGAAAAAGAATTAACTGAGTAACAAAGATTATGGAATTTTCAGAAGGCTATAAATATTGTTAATAAAAAACCTAAAGCTAAAATCTGATTGCTGAGGAAGTCCTTGTTAAGAACCATTTATTAAAATCTTCACTTTCTAAACTTAGAAAGGTAATATATGTAACTTCCATGTATTTATTCTAGTATTTATGTTTTGAACGTCTTAGTTACATTACTGTCTTACAAATACTTAATTCCTTTGTGTACCACATTTTGAGATGGTTGAGGAAGAAAACATGCAGATTACATAGTGTCTTCTTCCCATTAAGTGAAGGTGAAACTTCTCCCCTAATATTTAATATTTGAGCTTCTGGAGGGATTATCAAGTACTTCAGTATCTAAGGATGCTGTCCTGCAATTTGACCCGCTACTCATAATTTCACTTTATACAAATTAATTGCACCAGCTCACTGTCACCGATTTCCACAAGTTAAGAAAGAAACAGACATAGGACATATTATTGGAAAAATGAATAATGAAAATGTTATAGAGGTTATATATATAGGTTATAGAGTTATATAGGTCTAAGTGTGGGTATGGATATGGATAGACATATAGAATTATCCAATGACTGAATAATAACAACCATAAAATACATACACAAAGAAGGCGTTAATCCCTGAAACTTAGGAAAGAGTAAGGATTTCCTATTGAGGATATTTTTCTAAAGAGATGCTTCTTTAGAAAACAAGGCAAGTAGGGTAAAAACCCCAAAGGGGAGAGAGCCAGACCTATCCAATACAACAGCAGACACCGATGGAATGAATGTCTGTGCAGTAGGCAGCTGAGCACAGGCAGTGACCTACTTAAGATGGAAATTAAGGCTACATTCATGTCTCACCTTACAGGACATGCTCCCTGATTAATCCTAAAGGACTCTGTGTTTTGTTTTGGGGAAACTTACAAGCTTTTAGGGTGGAAGTTCAGCCAGAGACAGTACTCTGATATCAGACCAAATTGGAGAGAGGCACAGAATCTTCTCATGTAAAGTTTGCACCTGTGACTTCTGTTCTATCAGTTCCAATGATACTCAGGGATGTGTTACCTAATTGATAACCTTATAAATATCTCTGAGAAAATACTTGTATGAAATGCAATTCTGTTCAATTCAAAACGATTTCTCTTCAATTATTGCCTATACCGTATTTATTAAATCCCTAGACAATATAAAACCTACTTTATTTTTGTTCCTCTGTGATTAAAACTGGACATAGAATCTTTAGTCTATGCAGTGGATCCTATATTTCCCCAGCTTTGCCAAATTTCCAATGTCAAGCCAAACGCTTTTAGCCAAATCTAGGAAGAAATGTTTGTGATGATAGTAATTTTATGACATTGGAAATCGAATTAAAAAAAAGTGAAAATACATCTAATTTCTGGTTTTAAGATTTATTTGGTGTGTGTATGTTTAAGGGTGTGTGTGTGTGTGCGTGTGTGTGTGTATGTGTGTGTGCGTGTGCGTTCACAAGCAAAGGTTCCAGAAAACAGTGTTGTGCTTCATGAAGCTGGAGTTACAGGAAGGTGTTAATTACTTGACTTGAGTACAAGGAACTAAACTCAGGTCCTCTGTAAGAGCAGAACATGGTCTTAACTGGCGAGTTATCCCTTAGCCCCTTCCATTGCATTTTCAAAAGCAACTAAAATGTATATTTCATTTTCTTCTAG
Seq C2 exon
GTCTCTTTCATCTCTCTATGTCTTATGTTATTTAAATTCTTTGAAGATACCTTTTTGTTTTCTTCTATTGCCCTGATTCCAGTTGTTACACTGGTAGGGTGTACATTATTACATTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:25
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(10.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(10.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTCTATGCTGGTGGCTATG
R:
AAATGTAATAATGTACACCCTACCAG
Band lengths:
230-2081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]