RnoINT0010264 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225775555-225776523:+
Coord C1 exon
chr2:225775555-225775689
Coord A exon
chr2:225775690-225776419
Coord C2 exon
chr2:225776420-225776523
Length
730 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CTTTCTCTCCTACTCCACAGGAT
3' ss Score
11.35
Exon sequences
Seq C1 exon
GTTGCCAACTGGGGCATCCAAAGCCTGGGCTTGTCTCTCTACGCTGACCGCCTAGCGGGCACCTACAGTGGAGGCAATAAGAGGAAACTCTCCACGGCCATAGCACTCACCGGCTGCCCGCCCCTGCTGCTGCTG
Seq A exon
GTGAGGCAGCGTGTCCTGCAGAGTGGAAATGTCGCTGCGTGTCCCGAGTTGGGAAAATTAATTCAGGGATTGCAGCTCTAGAAAGACAACAGTTTGCTTTTGTCTGGATCCCTCACACATCGTCCCTTTAAGGCAAATTAGCCAAGTGTTTGGTCGCAGTACACTCTGCCTTCGGTGGACTGGAGCAGTGGCTTCAGTCACAGGCTCCGGGGACCCTCACGTGAAATGGACCACAGTAGAGTCCCTGAGTCCATTCAGTCTGGGTTTTAAATGGCACAGGACATAGAGGGGACTGTAAAGTTACCTGGGCTATCTCACTCCCCTGACCCTTCCTAAGGATAATTCTGCTATTGCCTTTTTTTTTTTTTTTTTTATTAACTTGAGTATTTCTTATATACATTTCGAGTGTTATTCCCTTTCCCGGTTTCCGGGCAAACATCCCCCTCCCTCTGCTATTGCCTTTATTAATCATTGTCATTGTTATATCATCACTATCCTATTTCTTTATTTCTATAGTCCTAACCCTAGTTCAAAGCTGACACAGATCTATAGGTGTATACCGTGTTTCTGAACTCTCTGATTCCCCTTCTGCCTTTGCGTCCTACAAGACATGGCTCTGCTTTGCTTGCTGGGAAGTGGTTGTGCACTTGTCTGTTTAGCCCAGGAAGGATGTCGTGATGGACACATGTCCACATGTCCACATATCCCTGCTTTCTCTCCTACTCCACAG
Seq C2 exon
GATGAGCCCACAACAGGGATGGATCCACAGGCCCGCCGCATGCTGTGGAATACCATTGTGAACATCATCAGACAAGGGAGAGCCGTGGTGCTCACCTCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:45
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:
PF0000522=ABC_tran=FE(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.4)
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:
CAACTGGGGCATCCAAAGCC
R:
GTGAGCACCACGGCTCTC
Band lengths:
225-955
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]