RnoINT0009969 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69881897-69882979:-
Coord C1 exon
chr5:69882947-69882979
Coord A exon
chr5:69882003-69882946
Coord C2 exon
chr5:69881897-69882002
Length
944 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
ACAGCAGGCCTTTCTTGTAGGTA
3' ss Score
5.11
Exon sequences
Seq C1 exon
CTTAAAGAATAAGGTCTGGGTGAATGAGTTTCG
Seq A exon
GTAAGTTAATCCCTTCTCCCCATTCCCCCTGAATCACTTCAAGTCTCAGGAGAGTGATTTTGATGTAGGAATCTTGGTTCAAAACAGAGTTATGGGTTTGGGGACTGTTTGCCACTCTTGGTACACTCTTGGGTGTCACCTCACCATGAGGGGGCTGAGGTGCTGCAGACCTGTGGAACACACGAGGGCACAATCAGGGTTATACTAGATTCACTATGGGATTTGTGTAGCACACTCTTTACTCCAGAGGCCCCAGAAATATTTGATATAGTGATTTCCTTGAGGAGTTTCAGAAATCCCTTGTAGGCCTCTAGAGACTTAAGAAAGTAAAATGTCATGAAGGAAAACCTGTCCTAGCTGTATTTTTCCCCAGACAGATTCCCAAGGGTACCTAGGGACTCAAGGACTCAAGACCTTTCATATTATGTGAGGTCTTGGAGGAAAGAAAGGCATCAAAAGCATTTATTTCCACTGATTTCCCCCTTCTGGATTTTGAAGGCACAGGTGAGAGTAGGGAAGGAAACATTTTTGAAGTCATGAGTTGCAATGTAGCTGTTCAAAAGACTTCAAATTTCAGTTTTCTACCCTGCCTTTTCTCCAGGGGCCAGGGTCCCTGGAGCTCTGAACAGAGCAGTCATAGGCTCACTTAATGCCAAGGAAGACAAGACCTGTCTGTAATCCCTACCTGGCTTTCAAGGCTGCCCATCCTCCTGTCTTCCCGTCTGTGACACGGGTGCTTTATTTCATGTCATTAGCTCTAGGCCTTCCCTGCTCTGCAGCCATCTTGAGAATTAAGATGGCTACATTTCACCAGAGGAGGCAAACGTTGGTTCTACTTTGAATAAGAGGCGTCTCTCAGAGAACCTTGTGCACTGCAGTATCTGCTGCCGTGACTCATGGCTTGGGCACACTGTCTGGCTTTTAACAGCAGGCCTTTCTTGTAG
Seq C2 exon
GTATGGCGGGTTTTCCCTGGGTGTCAGTGATTCTCAAGCACTTCCTCCGAGCCAAGAAGTTAATAATGCTATCAAGCAAATGAAGAAACTCCTGAAGCTGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:33
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=0.111
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(2.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(6.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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]