RnoINT0009976 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69951194-69952486:-
Coord C1 exon
chr5:69952345-69952486
Coord A exon
chr5:69951313-69952344
Coord C2 exon
chr5:69951194-69951312
Length
1032 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TCTTCTTGTTCCCTTTACAGTGT
3' ss Score
10.97
Exon sequences
Seq C1 exon
GTCACTTTCCAAATAAAGCCATGCCTTCTGCAGGAACCCTTCCCTGGGTCCAGGGGATTATCTGTAATGCCAATAACCCTTGCTTCCGTTATCCAACTCCAGGCGAGGCTCCCGGTGTTGTTGGAAACTTTAACAAGTCCAT
Seq A exon
GTAAGTACCAGATCAGATTTTCTTTCCAAAACTTGCCAGTTAATACTTATCCTTCCCTTCTTGGAGAGGTTTGCATGAGAAGCCTGCAGAATGAATGGAGGGGGAATTGCCACCAGGATTTAAGAGTCACTGTGATTGTGTGATTGAATGCTGTCTACTCAAAGTCAGTGCCTCCGTGAGACTCGGCAAGCTCCATCTGATCTACTCATTCAGACTCTCTACTATTCCTCTCCTATGGCTCTTCTTCTAGGAGCCAAGGTCATGGCACAGGAAGGGTCTGGGTTCTCCAGCACCTCAGAGCCCAGGGCAGGAGTGTGCTGTTCTCTGCTCTCAGGTCATTGCTCTGACCGCTGGAATGACTGCAGTGTTATTGCTGTTGACAGGTTTTTCCGTCCCTGAGTGGGAGCTGCCCGAGTGCTTTCTTAGTGTCTGTGTTCCTGGCTCCTGGCTCTAACGCTGGGATGATGAGTATAGTGTGCATCTTCCAGATGAGATGCTGAAGATGCCCCCGATGTGCAGAGTCACAGAGTTAGAGTGGACTGGGGACTGTAGGATGTGCTGCCGCCTGGAGATGGTGCCACGGCTGAGACAGTCAGGGCCACGTTCTAATGTTCGTGCATAGGTTTTGGACTTTGCATTGGCACTTTCACGCATAACAAAAATATTAAAACATATCAGACTGTTAGTATACAGATGCATGTAGTGAGCAAACTCATTACTGTATGTGCATTCTTGTTATATATGTTTCTAATTCACACTTTTAATAAATGAAAATGTTTTATGAATCATTAGGCATGTCTTGGGATAGAGGCATGGGCTTATTATGGACATTAGCCTTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACACATGATGTGCACACACGCGCATGCTCATTTGCATCCACGTGTGAGCTCATGCCAGCAGATGGGGTGATGGCTAGGGAGTAGGGAGGCCAGGCTGGGAAGAGATAGCTGGCCTAACCCAGGCCTATTCTATTTCTTCTTGTTCCCTTTACAG
Seq C2 exon
TGTGTCCCGCCTATTCTCAGATGCTCAACGGATTCTTTTGTACAGCCAAAAGGACACCAGCATTAGGGACATGCACAAGGTCCTGAGAACATTACAGCAGATCAAGCATCCCAACTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:4
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:
CACTTTCCAAATAAAGCCATGCCT
R:
TTGGGATGCTTGATCTGCTGT
Band lengths:
254-1286
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]