Special

DreINT0023491 @ danRer10

Intron Retention

Gene
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:ZFIN;Acc:ZDB-GENE-030131-9790]
Coordinates
chr9:40892685-40893270:-
Coord C1 exon
chr9:40893136-40893270
Coord A exon
chr9:40892789-40893135
Coord C2 exon
chr9:40892685-40892788
Length
347 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TCTCTTCTGTAACCTCCCAGGAT
3' ss Score
8.3
Exon sequences
Seq C1 exon
GTTGTGAACTATCTGTTGAAAAAATTGCAGCTGAATTACCACAGAAACAACACAAGCGAGAGCTACAGTTGCGGAACCCGCCGGAAACTCTCGACAGCCTTAGCCCTCATCGGAAACCCTCAGATCCTTCTCCTG
Seq A exon
GTGAGCCAAAAACACACATGATCACCATCATCTTCACGCTAAGCTGAAACTATCCACTCTTTAGTAAATCACACAGCAGCTCTATAAATCACCATACTGGAGTGTTTGCTCTGAGGGCTTTGAATGGGTAAATATTGCACACTCGTTGCAAACACCTCTGAAATGCGTTGGTGTGCTGTTTGGCCAACATCTTGTAGCACATCACTTATTCTGACTTGAAATGTGGGCATGATTGCGTTTACCTGGAGAGTGTGTGTGTGTGGGTTTTTTGCATTGGATATTTTTTTTTTGTAAGCTCTCTGGAACATCCCACATGTTTCTCACATGTCTCTTCTGTAACCTCCCAG
Seq C2 exon
GATGAGCCCAGCTCTGGAATGGACCCACGATCCAAACGGCATCTCTGGAAGATCATCTCTGAACAAGTGATGGGCAAATGCGCGGTGGTGCTGACATCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074749:ENSDART00000138634:31
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(29.5=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.7=11.4)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGCTGAATTACCACAGAA
R:
CTGTGTGATGTCAGCACCACC
Band lengths:
214-561
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]