DreINT0023645 @ danRer10
Intron Retention
Gene
ENSDARG00000100524 | abca3b
Description
ATP-binding cassette, sub-family A (ABC1), member 3b [Source:ZFIN;Acc:ZDB-GENE-050517-2]
Coordinates
chr3:12537125-12538193:+
Coord C1 exon
chr3:12537125-12537319
Coord A exon
chr3:12537320-12538005
Coord C2 exon
chr3:12538006-12538193
Length
686 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGC
5' ss Score
5.61
3' ss Seq
ATTTTTAAAAATGACTTCAGGTG
3' ss Score
4.89
Exon sequences
Seq C1 exon
ATGTATTCAGGTGGGCAGTCGCTGTTAGCAGTGGACCGTCTCTCATTGGCCGTTGGGAAGGGCGAGTGCTTTGGTTTGCTGGGATTTAATGGAGCGGGGAAAACTACAACATTCAAAATGCTGACGGGAGATGAAAGCATCACTTCAGGGGACGCGTTCATTGATGGCTACAGCATCCTTACAGATGTCAAAAAG
Seq A exon
GTTAGCGCTTTATCTTCGCATTGCAATTTAACTCAAACTTTGATTCTTAAAACTTGAGTTTAACATTTAATAATTTGATTTTATAAAAAGTCCTGTCGCCTATTCAAGTTTTAGGAGCAACAAATAATGACTTCTAGCTGATCGTTTGGTATCAAAAGTGGCTGAATTGATTGATTAATGGTTAATCTTCAATGTCTTCTCCTTCAACTTAGCCCAGACATGCTCAATAATGTTCATGTCTGGTGACTGGGCTGGACAATCCTGGAGCACCTTGAGCTTCTTTGCTTTCAGGAACTTTAATATGGAGGCTGAAGTATGACAAGGAGCGCTATCCTGCTAAAGAATTTGCCCTCTCTTGTGGTTTGTAATGTAATGGGCAGCACAAATGTCTTGATACCTCAGGCTGTTGATGTTGCCATCCACTCTGCAGATCTCTCACGCCCCCTTACTGAATGTAACCCCAAACCATGATTTTTTTCGTCATCAAAATTGACTGATTTCAGTGAGGATCTTTTGGGTTCCAATAGGTCTTCTGCAGTATGTGGGATTCATCAGATGGTTCTTTTGCCAATTTTCCAAATGTTTAACTAGAAGTCAATTATTATTAGTTGCTCTTACAACTAGGGTTGACGACAAGACTTTTGTCATGTGGTGTATGGTTTATGCATTTTTAAAAATGACTTCAG
Seq C2 exon
GTGCAGCAGAGAATCGGCTACTGCCCCCAGTTCGATGCGGTGCTGGATCACATGACAGGACGGGAAACCCTGAGCATGTACGCCAGACTGAGGGGCATCCCAGAGAAATATGTCACCGCCTGTGTGGAAAACGTCCTGCGTTCGCTGCTGCTCGAACCTCACGCTGACAAACTCGTCCGCAGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100524:ENSDART00000165980:15
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=PU(37.2=83.1)
A:
NA
C2:
PF0000522=ABC_tran=FE(42.8=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:
GCAGTGGACCGTCTCTCATTG
R:
CGAGTTTGTCAGCGTGAGGTT
Band lengths:
343-1029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]