DreINT0023651 @ danRer10
Intron Retention
Gene
ENSDARG00000100524 | abca3b
Description
ATP-binding cassette, sub-family A (ABC1), member 3b [Source:ZFIN;Acc:ZDB-GENE-050517-2]
Coordinates
chr3:12504678-12506728:+
Coord C1 exon
chr3:12504678-12504832
Coord A exon
chr3:12504833-12506572
Coord C2 exon
chr3:12506573-12506728
Length
1740 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
AGCTTCTTTCTTGTCTTCAGCTG
3' ss Score
8.01
Exon sequences
Seq C1 exon
GTCTTTTCCCGCCCTCCAGCGGTCGTGCCTACATCAATGGATATGATATTTGTCAGGATATGGCTCTGATCCGCCGCAGTCTCGGTTTGTGTCCGCAGCATGACGTGCTCTTCGATAACCTCACCGTCAGAGAACACCTGCTCTTCTACACACAG
Seq A exon
GTGAAGGCAAATCACTCTGAACTCTGTGACACAAATAACAGTTATAAACACAAATGTTTCTGTCTTTTACCAAGGTTATTTAAGTAAGCGGAAATGTAAACTAGAACTAAAACTATTGGTCAAAAGAAATTTTTTTTTTGATTAAATCAAATAAATAATTCACAATAAGTGAAGTTTTTTTCTCCCCCAATTCCTTATTATTATATTTTAACATGTACATACATATTTCCATGTGTCAGATTTAACATAAACCAACCAACAAACAAATGAACAAACAAAACAAAGGGCTTCTCAGTATTTTCTCTTTCTCAGTATTTTTATCTTCTCAGGTCTGTTCTTTGTACGTGGATTATTCAGTTTGCTGGATTTAGTTATTGACAATTTCACATGACAATTTCACATGATCCAGGATCTTTGTTGTCATAGCTACAGTTTTGGTAGCTCAAACCTGTTTGGGAGCAGGCTCATTTCACATAAACAGGATTAGATCAGCTCATTTTAAGCAATGGGAATGCTGAAAATATGTACCAAATGCTGATATTTTCTTACAGTAGTAACCTATTCACCTTATTCTTCGCAGACAAACAGGCGCAGCCATTTGAATCTTTTTGGCTCGAGACTTCCGGTCTCATTCACTTCCATTCATTTTTAGACAATAAAAACTGCTCGTTTCGCTGTTTGATGTTGCAAACTGATATTTCCTTATTATATTATTCTACTTGGTCTGTATAGTTATGCAAACATTTGTAGAGCAAGTAGCTTGACCATTTTTTGCCATTTATTATTCCTAGTCATTTCTCCTTTAGGCGACTGAATCGGAAGTTCTAAAACAATCGCGAAAACAGGCGCACTTCCCCATTTTAGAATAAGGTCAATAGTAACCTATATATATATATATATATATATATACAGAGACAGAGACAGAGAGAGAGAGAGACAGAGACATTCACCCAGAATGCATCTTTGCACCTGAAACGCCAATCCAATGACTGTAAAAACAGTAGCAAAGCACCTGAAATATCATGAACGACTGGTCATGAAAGTTTGATGCTACACCCAAACAAAATCTGACTGTAAGCTCATTTCTTGAGATATTAACTTAAGGTAGAAAGAGACCAAACTTCAGTAAACTTAAAGTAAAAACATACTTCACAAATAACTAAACTTTTTTTTTTTTTTTTTTTTTTTTGGGTGAATTATCCCAATAAATATATGCTCTAAAGTGCTCAACAATTTAAGTTGAAATGTCATATTGTGTTTTAAAATAGCACAATGGATTTAAATGTGAAAAAGAACATACATATACAATACATACATATATAAACATAATTAACCGTGGTTATTAGGAGCATACAAATGCACCTTGAAAGTGCTTGAAAAGTGCTGGAATTTATAGTTGAAAAAGGTGTAAGAACCCTGAAACTCAAAATGTTCACACTTCTTGGTATGTGCCAACAGCATGATTTATTAGCGCAAACCACATCTGGTGTGAACACCCCATGTTTCAGAAACTATAAGTAGCACACCAAATCAATGAAATAACAGCATTTTATTAAATTGATTTAATAAAAGAAACATAACCCTACAAAGCACATAGCAAATAACACAAATTGCAGTATACGTTTTTGTATACATTTTAATGTTGAGAAGTCATCGGGACGTTCTGTCATATCATGATGCTTCATGGCAATGTTTGGGAGCTAAAGAGTTTTCTTGTAACAGCTTCTTTCTTGTCTTCAG
Seq C2 exon
CTGAAGGGTTACCCTCGCGAGAAGATCCCTGGAGAGGTGGACCGGATCATCCGCATCCTCAACCTTGAAGACAAGCGTAACGCCAAATGCAAGACTCTTTCTGGTGGCATGAAGAGAAAGCTTTCCATCGGCATTGCTTTAATTGGAGACTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100524:ENSDART00000165980:3
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(35.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(35.2=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:
GTCTTTTCCCGCCCTCCAG
R:
TTTGAGTCTCCAATTAAAGCAATGCC
Band lengths:
310-2050
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]