DreINT0042117 @ danRer10
Intron Retention
Gene
ENSDARG00000023645 | ccbl1
Description
cysteine conjugate-beta lyase, cytoplasmic [Source:ZFIN;Acc:ZDB-GENE-040426-2676]
Coordinates
chr5:32674385-32674830:-
Coord C1 exon
chr5:32674709-32674830
Coord A exon
chr5:32674490-32674708
Coord C2 exon
chr5:32674385-32674489
Length
219 bp
Sequences
Splice sites
5' ss Seq
TCGGTAGGT
5' ss Score
9.09
3' ss Seq
TTTAGTTACTGCTTTAGCAGAAA
3' ss Score
1.43
Exon sequences
Seq C1 exon
GGAGCTCTCGCACATTCATTGGCTCAGACTGGGGGAAACACTAGAGAAGTAAATATGAAGGCTTTAACAGCTGAGGAAAATAAATGAACGAGGTTTCCCTGCTAAACAGAAAGTTTCCTTCG
Seq A exon
GTAGGTTATAGATTACAGGAGGAAATTGGCATGTACCACAGTATCGTTAGCTTGTTTTGTCTGTTGAATGTCTGAAACCCAAGGACAGCACTTCTGTCATGTCACTGAATTATTGACTGCACGACATTTAACGTTAAAGGTTGACAGTTTAAGCGCTGGATATGCGATTGTAATGTCTTACTAACTAATGCGTTACTGATTTAGTTACTGCTTTAGCAG
Seq C2 exon
AAAACCTGCTGTAAAGTGTCTTGAAACACTGTAATGTGGAGGAGAGTGGCGGTGTATGGACCTTCGCTCTCAGTCAGATTAGCAATCGCAGGTTTTCATGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023645:ENSDART00000004797:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTCGCACATTCATTGGCT
R:
TCATGAAAACCTGCGATTGCT
Band lengths:
220-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]