RnoINT0010267 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225779388-225781670:+
Coord C1 exon
chr2:225779388-225779637
Coord A exon
chr2:225779638-225781583
Coord C2 exon
chr2:225781584-225781670
Length
1946 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
TACTTTCCTCTTGCCTGCAGGTA
3' ss Score
10.86
Exon sequences
Seq C1 exon
GTTTGGAGACGGCTACATTGTCACAATGAAAATCAAATCCCCAAAGGACGACTTGCTTCCTGATTTGAATCCTGTGGAGCAGTTCTTCCAGGGCAACTTTCCTGGCAGCGTGCAGAGGGAGAGACACCACAGCATGCTCCAGTTCCAGGTCCCCTCGTCCTCCCTGGCCAGGATCTTCCAGCTGCTCATTTCCCACAAGGACAGCCTGCTCATCGAGGAGTACTCAGTTACCCAGACCACACTGGACCAG
Seq A exon
GCAAGTCTACTCAGGGTACTAGGTGCCAGTGGTAACATGGAAGGCAGGCAGGATGTCCTCGGTTTTAACACACTGTTAGTCTCTGTCCCTTAGTCTGGTATTTCAGACATGGTTTCAGTCATCCACAAACTTCACTGACTATTTTTTTTTATTTCATCTTCTTCTTATTCTTCATGCTTGCTGTTTTATGGCAGTAGCTGATTTCTTTTTCTTTCCAAGCCAACTTTTTCACGTGCAATTTGAAAAGAACAAATAGATATTTAACTGTATGGCTCAGTGAGTTTGGATAAACATTTGCTTTTTATGTAGGTATTTATTTATTAGTGTGAATGTGATGTTGGTGTGTGTTCATGTGTGTCTGTGTGTGCATGTTTGCATGTATGCAGATACATGTGAGCATGTGTGTGTGTGTAAATATGCACGTAGAGGCCACAGGCTGACATCAGGAATCTTCTTCAATTGCTCTTCCTCCTATTCTTTGAGGCAGGGTCTCTCAAACTCAGAGCTTTCCAACAATGTGAATGCTCTCCTGAGCCATCTTGCTCCAAGGATCTCCTGTCTGCACCCTCCAAGGCTATAATTGTAGTTTGCCATACTTACCAGGCATTTATGTGGGTCCTGAAGATCTGATCTCTGGTCTCCATACTAGCCTGACAAGCATTTAAATATTAACATATTTAAATATATGTTAATGACTGAGATGTCTCCATAGCTTGTCTTTACTCTTCTCATCTTGAGTTACTGAAATGCTGTCTTCCCAACAGCTCATCCCCATTCTTCTTCCCCAGACAGTACCTGGAAATTACCATTTCACATTATTTTTGAAGGTTTTGTTATGTGTAACCCAGGACCATATGCAAGCCTGCTTCAGCTTCCCTAGTGCTTGGATTACACGTGCTAACATGTCTGGCTCTGTCTACTTTCTTTCTATAAAATTATTGATATCTATCTATCATCTATCTGTCCATCTATCATCTATCAACACTATCTATCTATGATCTATCTACCTATCTACATATCTATCTATCATCTATCTGTCATCTATCATCTTTCTATCTATAGTTATATAGAAATACACACACATATTCCTAAACATATAAATACAACCTCATCAGTCCTTGTAATGTTACTTACATGTAAATGTTTTTGTCCAACTGCTATGCTCTCCCTTGGCATTCCTTAGAGGTGCATAGTTTTTTGGGTAGGGTTGGGGCCACCAGAGCTCCCCCACAATCCACATTAGCATGTCTATTGGTGTCTTCCCTGTTCAGGTCCTTCTATTGTCTATGAACCTGACTACTCTAGGCTCCTCATGTAAGTGAATAGTAATTGTCATTTTGTGACTGACATAGTGACCCAAGGGTTCACGCTCACACTGTATCATACTCAGAACTGCCTTCCTTTTTAAGATGGAGGAATATTTGCTTACATTTTACTTATCCATTCATTGGTGAACATTTGAGTTCTCCGTTGTTGAGGGGTTGGCCCTTTTTAAATTTATTTTGTTGTTGTTGTTGTTTTGTTTTTAATAAACATCCTTAAAGACCATTTGGAAAAGCAAAGGTGAGTAGAGAAGCTTAGGCAGGTGGCAGTCACAATGGATTCCTTCTGCAGGAGTTCTCGCCACACTGCCTGTGAACACAGCAGAGAGCAGTTGCTGCTGCTCAGTTGTTTTTAGAGACCCTGGATGCTGCCAGCTGCCTTGGTGATCCCAGTTTTGCATGCCCAATGTCTTTTTGAACCCTCCAGCAAGCTCTTAGGCTCAGGAGTGTAAGAGGCAAACCTGGTCCAGGTCACAACTGCGGAGGCCTGTGACAAGCCACAGGAGGAAACAAGCTCCACCAGGCGGGCTGGCCATCAGCTGTGGGAAAACCAGAGCAAAGCACATAGGTGGTGTAGGGCCTCATCGTTCTGGAACCTTCTACTTACTTTCCTCTTGCCTGCAG
Seq C2 exon
GTATTTGTAAACTTCGCCAAACAGCAGACTGAGACCTATGACCTCCCTCTGCACCCTCGGGCTGCCGGAGCCAGCTGGCAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:48
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.379
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:
GGAGACGGCTACATTGTCACA
R:
CAGCCCGAGGGTGCAGAG
Band lengths:
310-2256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]