RnoINT0010255 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225759879-225761091:+
Coord C1 exon
chr2:225759879-225759994
Coord A exon
chr2:225759995-225760943
Coord C2 exon
chr2:225760944-225761091
Length
949 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
AGCTGTGTCATCTCTCACAGATG
3' ss Score
9.42
Exon sequences
Seq C1 exon
ATGAATTATGCTGTGAGTGCGGGACTAGTGGTGGGTATCTTCATTGGATTTCAAAAGAAAGCCTACACATCCACAGACAACCTTCCTGCGCTTGTCACTCTGCTCATGCTGTATGG
Seq A exon
GTAAGTCATCTGGGCCAGGGGAGGAGATATTATTTTCTGACAGCAAATGTGGGGTATCTGGTAGTGGTAGCACATGCAGGTTTAGCCTCCAGACCAAGAAGCTTCTATGGTAGCTAATCAGAAATCTGCCTGGCTGACTTCAGCCATGTAAGTCTGAGTCCTAGTCCAACTAGGGATGAAGAGATCAATGCCACCTCGTCTGAATATTCTTCACTTCCAACTGTGGCTTTGAACGAAGTCTGGGACTCAGTCCCCACTTCCTCCCCAGCTCTGATTTCTATTCCCTCTGTCGGCAAGCTGCCCAGTGTAGAATTATCTGTGTGCAGTGGAAGATTCCAAGCCTTAGCACTGCCCCTAGGTCAGGCCAGAAGATGACACAGAGACTGAACCCAATCAGTTTATGGAGCACAGCATGCAGCTTTGTATCCCAGGCTACCACTTGCTATAGGTTTAACTGTGGCAAAGAATGCAGACTCCTCACCTGTAAAAAAGGAAGGAGTGATGCCTAGCCCTTCGTCATGTAGAGAGGGGAGTCATCAAAGCAATGGTCTCTGTCCTAGAATGATGATCTCCCTTATCTCTCTTGAGAGTGGACTCCGAAGCCAGCTTAACTGTGAACTATGAAATGAACGATGAAGATGAGCTTGGGACCTTCCGTTCTGTTTTACCTAGAGTAGAGCATTACTGTGGGTAGCCTCTGGGCTTTAGAGCTCAGTGAAGTTCACACAAAGCTCTTCCTGCCCCATTCGCCCTTCATAAAACTCATGGTATGGTTAGGGCAGGTACCACCAACTTGTTTTGAAGATATAGCACAGAAACCAAAGAATGGAATATTTTCTCTCTTTTCCTGGGACCCTGGCCAGTCCAAACATGTCCCCTCATATTTGGAGGTATGGCTGATGGGATGGAACCGGAACTCTCTCCCTCTGAGCTGTGTCATCTCTCACAG
Seq C2 exon
ATGGGCAGTCATCCCAATGATGTATCCAGCGTCCTTCCTGTTTGACGTCCCCAGCACAGCCTATGTGGCTTTGTCTTGTGCTAACCTGTTCATCGGCATCAACAGCAGCGCAATCACATTTGTCCTGGAACTATTTGAGAATAACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:37
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(12.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(16.3=100)
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:
GAATTATGCTGTGAGTGCGGGA
R:
CCGGTTATTCTCAAATAGTTCCAGGA
Band lengths:
262-1211
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]