DreINT0000130 @ danRer10
Intron Retention
Gene
ENSDARG00000074221 | ABCA7
Description
ATP-binding cassette, sub-family A (ABC1), member 7 [Source:HGNC Symbol;Acc:HGNC:37]
Coordinates
chr11:5678256-5678695:+
Coord C1 exon
chr11:5678256-5678393
Coord A exon
chr11:5678394-5678474
Coord C2 exon
chr11:5678475-5678695
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTTT
5' ss Score
2.08
3' ss Seq
TAAAATTGTTTGCATTGTAGGCC
3' ss Score
7.63
Exon sequences
Seq C1 exon
GTGGCATGCAGAGGAAACTGTCGGTAGCAATTGCTTTCATAGGTGGGTCGAAGGTTGTGGTTTTGGATGAGCCTACAGCTGGTGTGGACCCTTACTCACGCCGTGGGATTTGGGACCTTTTGCTTAAATACCGTGAAG
Seq A exon
GTCTTTTAAATTTTTACCTTATGAAAAATGTCTTAAATCTACTGGTTTCTACTGTCAGACTTAAAATTGTTTGCATTGTAG
Seq C2 exon
GCCGCACCATCATTCTGTCCACACATTACATGGATGAGGCTGATCTCCTCGGTGATCGCATTGCAATCATTTCCCAGGGAAAACTGTGCTGCTGTGGAACGCCACTGTTCCTCAAAGCACGTCTTGGTACAGGATACTACCTAACGCTGGTGAAGAGAGAGATGCATAGGACACCCAGCAACACCAGCAGTGGCAAAATCCCTTCAGCTGCAAGTCCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074221:ENSDART00000165385:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.172
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(17.9=55.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTACTCACGCCGTGGGATTTG
R:
ACGTGCTTTGAGGAACAGTGG
Band lengths:
169-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]