DreINT0023575 @ danRer10
Intron Retention
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6186222-6187159:+
Coord C1 exon
chr14:6186222-6186302
Coord A exon
chr14:6186303-6186989
Coord C2 exon
chr14:6186990-6187159
Length
687 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TGTTTTGTTTGTACTTTCAGATT
3' ss Score
10.47
Exon sequences
Seq C1 exon
GACTCAGGATCAGCAGCCGACCGTTTCTTAAAAAGCCTGTCTGCATTTATCAATGGGTTGGACACTAAGAATAATGTCAAG
Seq A exon
GTCAGTGATCTGGCGGGGATGGCAGTGACATTAGCAATCTCAGAAGTGAAGACGCGGAGTTGGTTGGGAGGATTGCAGGTGGAAGGGGGGGGGGCGTTAGCAATGACCTAGATAAAAAAAAGGGGGGTTACCCTGTAACTGGGCCCCTAAATAGCCAGGCTCCTATGCACTCTGTCACCCTTTTCCCTTCACTTACTACGCCCCTGCTCATTTATAACCATAATAAGAGCTATGTGATATGACATGATGCATAAACAGGATTTAAACATGTTATTACATGTGTTTGTTGTCAAGGTTCCACAGTATAAATGTTAAAATAACAAAAGATCAGACCTTATATCTCGCTGAATATATTTATAACTCTCTGCCTGTATCATTTGTTTTCAAAATAAGAGTCCTGCATATGTCGAATGTTTAATACAACCTTATATATACTTAAAATTAAAGAAAACACATATAATTGTTGTAATCTCACTAGCAAATGTGGCCATTCAATGAAGTGTGCATAATTTAATCATGTTAGTGACATAACATTGTGTGTTTTATTCCAATTGGACTTTCTTTCTTGGTCATTTCCATCTTTTATTAGTCATCTGTATCCATATTTTTATTCTATGGCACCTTTAAACTACCTTTAAACCATAGAACTATTCCTGATTTATATTGGTGTTTTGTTTGTACTTTCAG
Seq C2 exon
ATTTGGTTTAATAACAAGGGCTGGCACAGTATTGGGGCCTTCCTCAATGTAATGAACAACGGTATCTTGCGTGCAAACTTACCACCCGGTAAAGACCCCAGTGAGTTTGGCATCACTGCGTACAACCATCCACTCAATCTGACCAAGGAACAGCTTTCTCAAGTGGCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009:ENSDART00000051556:32
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(8.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCAGGATCAGCAGCCGA
R:
CGCCACTTGAGAAAGCTGTTC
Band lengths:
249-936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]