DreINT0024348 @ danRer10
Intron Retention
Gene
ENSDARG00000016818 | abcg2d
Description
ATP-binding cassette, sub-family G (WHITE), member 2d [Source:ZFIN;Acc:ZDB-GENE-050517-38]
Coordinates
chr1:49940188-49941043:-
Coord C1 exon
chr1:49940886-49941043
Coord A exon
chr1:49940340-49940885
Coord C2 exon
chr1:49940188-49940339
Length
546 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
3' ss Seq
TGTGTGTGTGTGTTTTCCAGAAT
3' ss Score
11.19
Exon sequences
Seq C1 exon
GTGGGCACTCAAATAATCAGGGGGATCTCGGGTGGAGAGAGGAAGAGGACCAGCATCGGGATGGAGCTGATCATTGACCCCTCTGTGCTCTTTTTGGATGAACCCACCACCGGTTTGGACGCTAGTACAGCTCATTCTGTGCTGCTGCTGCTCAAGAG
Seq A exon
GTCTGCATATACAACACATGCGCTCACTGGAAATACATGCATTCATTCAGCTTAGTTCCTTAAATATCAGGGGGTGTGACAGCGGGATGAACCGCCAACTATTTCAGCATATGTTTTACGCAGCAGATGCCCATCCAGCTGCAACCCAGTAATGGGAAACACCCACTAATACACTATGGCCAATTTTGTGTACCTAATTCACCTGTAGCACATGTATTTTGACTGTGGGGAAAACCGGAGTGCCTGGAGTATAAAAAACGCCAACAAAGGGAGGGCATGCAAACTCCACACAGAAATGCCAACTGTCCCAGCCAGGACTCAAAACAGCGACCTTCTTGCTGTGAGGCGACAGTGCTAACCATTGAGCCACTATGCCGCCCCCCCGTGTTAAAACAAACAAGCGCTATTATTTCGGCATGGTAAATGTTAGCATCATGCTACTAATGTTAGCATCTGCTTTTACCATATGTACACATGATGCTAGCAAGTGACATGTTAGCGTCATGGCAGCATGGTTTTATTAGTGTGTGTGTGTGTGTTTTCCAG
Seq C2 exon
AATGGCGGGTCAGGGTCGCACCATCATCATGTCTATTCACCAGCCACGCTTCTCCATCTACCGGCTCTTCGACAGCCTCACCCTGCTGGCCAACGGCAAACAAGTCTATCACGGACCTGCTCAAGACGCCCTCGACTACTTCAGCAACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016818:ENSDART00000022733:5
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=PD(24.7=67.9),PF030589=Sar8_2=PD(40.3=50.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGGCACTCAAATAATCAGGGG
R:
CGATGTTGCTGAAGTAGTCGAGG
Band lengths:
310-856
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]