RnoINT0009965 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69952345-69956147:-
Coord C1 exon
chr5:69956054-69956147
Coord A exon
chr5:69952487-69956053
Coord C2 exon
chr5:69952345-69952486
Length
3567 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
TTTCTTCTCGATTTCAACAGGTC
3' ss Score
11.22
Exon sequences
Seq C1 exon
TGTCAGCTGTTACTGGAAGTGGCCTGGCCTCTCTTTATCTTCCTGATCCTGATTTCTGTCCGCCTGAGCTACCCACCCTATGAACAACATGAGT
Seq A exon
GTGAGTATCCATGGACCATGCCTGAGACTCAGTGATGACCAGCAAGATCCAGAGTGAATGTAATCTCAATTGAACCTTTTCAAAGATGCTGTCTACGGGAAAACACCACAAATAGCTTGGAACAGAAAATCTGGCTTTTATTTATTTGTTTTGTTTTGTTTTTGGTTAGGGCATGAACCCTGGAGTTAAATGATGAAGACAGTAATGATAATAATCTTACATATTTTAAAATCACGATAACAAGATAGCCTCAGGGTCAGAAAGTGATGGTTAAAAATCACCCTGCGGTAATGTTTCAAATGCCAGTATCCAGTTCCCTCTTGTGGTCCTTTTGTTTGCATTGTCTTTTAACCAGTGGTTGAAAATCATGGAATATATGTTTGAACACGTACTTTCTAAAGAGAGTATGCATATATGTCTGTGTGTGTGGGTATGTACACAGGAGTAGGTGCCCGAGAAGGTCAGAGGTGTCAGACGTCCTGGAGATGGAGTTGCAGGCAGTTGTAAGCCATCTGATGTGAATTCTGGGAACCCCACTCAGGTCCTCTGCAAGAGCACTTTGTGGGCTTAACCACTGAGCCACCTTCCCAGCTCTGAGAGGATTCGCGGCCTTTGTGTAGAACATCTCAGTTTGTCTAACATAACATTTCATTTCGTTCTCAACAGTCTTGTTATAGTAGACTTTATTATCATTTGCTTTAATTTCTTGGTAGTTAAACTGGGGCTCACCCACCTATAATGACTTGCCCAGATGTACATATCTAGTAGACGTGGAATACAGTTCAGGCCGCCTGGCTCTCACTCACAGAGTTTTGAAGGCAGCCTGGACACCCCCTGTGTCACCATGAACGAGTGATTTTTAGCTTCTCTGTAAAAGAGAATAGCAAAACCTAATTTGCACTGTTTTTGCCAGAATGACCATTTTACAGTCTGGCTGTGCTCGGTGGACAGATGGAACAACAGTTTAAAAGGTCCAAAGAATTAGCATTTGTGTAGGAGTTTTAGCTGGGAACAAAAGCTCTCTGTCCCACACCCTTGTCTTAGCACTCACCAGCTCCTAGAGCCCCGCAGGCTTAGAAGATTGTCTTCTTCCAAGACAGCACTGAGGCCACAGTTACCGTTTTGATTTCGTTCCTTGGTCACCTTCCCATCTCTTACATAGCATGTAACAGCATGCACTTACATACAAGTTTGCTGATAGACATCCTATATGTTCAGGTTACACCCAGATACCTCGGATACATTTCCTCGGACATAACTTTCTGATTTCTTCAGTTAAAACAGCGGAGCAGAAAGCTAAGGGGAAGCTTGCTGACATATATATGCCTCTACTCTGGGAACAGAGGGCTAGTGTGAAATTCTTCTCTGTATATCTTTGTAGTCCAGGTCAGAGTCCTCAAGGTCTTCATGAGCCCTCTGGCTTTTTGATGTCCATTACATTATTTGACTGGCGTCCTGGACACCAGTGTCTGTCTGTCATTCTGTTTCTATTTGCTCATAGGATGGGGTGAAGCATACAAGGAAGGGTTTTTGCTTGCCCAGTGGAAGGAAAGGTTGGGTTATATAAATCTCTTCTATCTCTGCCTTTGACCTACACTCGCCTATCCTTAGGGCGAGCATCTGCAGTTTGAACAAGGAGAGTCCCATGGTCCTTGGAGTACTTGGTTGGGTTATATAAATCTCCACTGAGTGAGGAGAGGCAGCTCATTAGGCAAGGGGCTGTGTTTGGTTTTCCTTGAACTGTTAACAGGGAGATAGAGAGATTAGCTGAGTAAACATTCAATAGGCCAGAGTCCCTACAGAGACTGCCCATGGGGGCCAGATCTTGTCACACCCTTCCTTGTTGCCTCTGGTTGGAATAGGGATAGAAGTTTTCAAAGATTGAAAGGTTTCCAGTACCGATGTATACAGTGAGGTGCAGCTCAGCCTTTGGTTGACTTTTGGGGAGTCTCTATTAGCATATTGACTGGAAAACAAAAGGGCGAAGAGTAACGGTTGTGAGATGGAAAGAGCTTTCTGTTCCCTATGCACAACAGCTAGGGGAGCACACTACACGATGGCGAGCTACACAATGGCACTACAAGATGCCTCAGAAGTTCTAATTTGATGATTCATGAGCCTTTACCTTGTGCTGGGCCCTCTGTAAAAGTGTTCCACCTTCTAAGCCAGCCTGGGCTGCAGAGTGAAACTTTGTCTCATAAAAATACAAATAGAATCACAAGCCGCCTGACTGATAAGAGCTCTTGTAACACCACTTGCACTGTGATCAGCGTTTTACAGGTGAGAACACGAGGCGTTGCAGATTGGCTTGGAGATTGGCTTGTCTGGGCCTCGCACATGGCAGGGACAGAGGTGTAAATCTCTATTGGTTTGGCTCCAAGATCTGTGACGATACAAGCTAGTCGTTACCTAGAGCCATGGTTCTGAATGCTTGCCAGATCTTCAGATCACACTGAGCATACGATGAGAGCCGGAGCCAAGACCTTTGTGCCTCAGCATGAGCAGGCCCCTGGAATAACAACCCCTGGCGGGAGTGCAACGTTTTCCTTGATTCCCATAAGCAATATTTGTAGATCCTCGCTACAGACCGACCTGTGCTTTTGAAGACTCAGACCTCACCCAGACATGCCAATCATTGTTTGTAAGAAACTACTAAATGTGTAAGGGAAAGGGTGAGGAGTGACCTGGTGGAGGTGGCCTCATTTTATCGATGAGTGAGAGAGGAACAGGAAAACTGAGATAGTTCGACAGCTGACTTCGGTCTCAAGGGAGCATGCTTTTGAGGTGCTGTTGGTGAACCTTTGGGCTGTTGGAGGAAGTGAGGTTGACAGACTTTTGCCAGATGAAGGCAGGAACAAGAGTAGTCTGAGGAGAGTGAGGTGATGGTGATGGCCACAGCTGGAAGGGAGAGGCATGGGCTGGGATCCTGAAGATGAACTTTCTATTCCCAGCCATGAGCATCTCTGAGTTCTTCACCAGCTGCAGTGTAAGGGAACTGATTAGGTCACTGCCCAGGTCCTTCTTTGTCGCTTAGAGGTGAGGCTGATGGTAGGGATTGAGCAAGTGGGGACCAAGCACATGCTGCTTGCCAAGTACTTGGTGTCCATGGTCTGATATATCCCATTTATTACATTCCCGAGGTTGGGATCATGAATCCCAACCTACAGGTGACGCCAGATAGAACCATTGTCATCCTTACTTGATGCCAGATTCCTGTCTCAGAGGAAGCAGGTCTTCTAGGACATGGTGAGGGGCTGGAGCAGTGTCTCAGGAGTTAAGAGCACTGGCTGCGTGCTCTTCCAGAGGACCTGAGTTCAGTTCCCAGCATCCACACAGTGGCTCACAACTGTCTGTAACTTCAGTTCCAGGGGGCTTACGGACCTCTTTTGGCCTCCATGGTTATCAGGCATACACATGTGCACATACCTGTATCAGTCAAAGCACTCCTATAAATAACATTAATAAATCTAGGGCATGGCGAATGAGACACACAGATGTGAGAGGATCGTGTTAAAATTACTTCAAAGGTCTGATGTTTTCTCTGTGTTTTCTTCTCGATTTCAACAG
Seq C2 exon
GTCACTTTCCAAATAAAGCCATGCCTTCTGCAGGAACCCTTCCCTGGGTCCAGGGGATTATCTGTAATGCCAATAACCCTTGCTTCCGTTATCCAACTCCAGGCGAGGCTCCCGGTGTTGTTGGAAACTTTAACAAGTCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:3
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:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]