DreINT0047543 @ danRer10
Intron Retention
Gene
ENSDARG00000075993 | clic5a
Description
chloride intracellular channel 5a [Source:ZFIN;Acc:ZDB-GENE-041114-84]
Coordinates
chr17:5414489-5416097:-
Coord C1 exon
chr17:5415972-5416097
Coord A exon
chr17:5414596-5415971
Coord C2 exon
chr17:5414489-5414595
Length
1376 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
GATTTGTTTCACTTCTAAAGGTA
3' ss Score
7.43
Exon sequences
Seq C1 exon
GAAACCAGCTGATCTTCATAATCTGGCTCCTGGAACGCCTCCACCATTTCTAACATTCAACGGAGAGGTGCGGACAGATGTCAACAAGATCGAGGAGTTTCTAGAGGAGATGCTCGCGCCTCCCAA
Seq A exon
GTAGGTTGAAGGAAGATGAATGAAGGATTGACTGTTTGTGTAAAAGTACAGATACCATTCAAACAACACTAAACTGACATTGAGATTGGTGTCAAAAAACATTTTAAAAATCAATTTAGGTGGCTTAGTGGTTGGTACTGTCAAATCACAGCAAGAAGGTCGCTGGTTTGAGCCCTAGCTGTGCCAGTTAGCATTTCTGTGTGGAGTTTGCATATACTCCCTGTGTTGGTGTGGGTTTCCTCTGGGTGCTCTGGTTTCCCCCACAGTCCAAACAAATGCGCTATAGGTGAATTGAATTAACTAAATTGGTTATAGTGTATGAATGCCAGTGGTGTGGTGGACGGGCCCACAGGGGGGCCCTGCTTGAAACCTGCTTGAAATGTATATATATATGTATATATGTATATATATATGTATATATATATATATATATATATATATATATATATATATATATGTATTACTTTTACACTGGATTTTTCCCCCTAGAATGCATGTAAACAACCTTGATGTCAAAAAGACATTAATTTGCGGTCTAAGACTGATGTTAAAAAAACATGTCAAAACTGCACATCAATTTAATGTCAGCTGACAACCTTGATGTCAAAACAACATGAAACTGACATCTAACGTTGCAGTCAAAAATCCATTACAGGGACCGTCCTGTACAATCATTTTGATCACACTTTATTTTGATGGTCTGTTTGATGAATTTAAGTTATATTGCAACTAATTCTCATTAGATTATCAGTAGACTCTTAGGTTGGGGTTAGGGTTAATGTAAGTTGACATGTACTTGCAAAGTTTCTAATAGTCAGTTAAATGTATCAACAGATATTAAGCAGAGAGTCTACTACTCAAATGGACCGTCAAAATAAAGTGTTCCCTGCTAAAAAATCCAGCTTAAACCAGCCTAGGCTGGTTTAAGCTGGATTTTTCAGCAGGGTTACCTTAATTTTTTGAAGACAATGTTAGATGTCAGTTTTATGTTGTTTTAACATCAAAGATGCCCGGCTGGGTAGTGTAACTAGTATATTTGACTTCAGTCTATTAAATTATTAGATATTATTAGCGCTATTAGATATTAGACATTTAATATTGCACCCCAGGCCACCCATCACCCCCTTAGGTGCATTATTTTTCTATTAATTCAAACGCTGAACTTCAAAATTTCTTACTGTCCACTACTGGTAATGCGAACTGCATTTTTTTATTTGGTCACACTTTATTTTGATGGTGTGTTTGTTGAATTAAGTTAGATTGCATCCACATCCTCTGTACCACCAGATATTAGGAAGACACTCTCAAATGAACCATTAAAACAAAGTGTTACCTGTTATTTGTTTTGTTTTGTTTGATTTGTTTCACTTCTAAAG
Seq C2 exon
GTATCCTAAACTGGCGGCAAAGAACAAGGAGTCAAACACAGCGGGAAATGACATCTTCGCAAAGTTCTCCGCTTACATCAAGAACACGAAGCCAGAAGCCAACGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075993:ENSDART00000035944:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.256 A=NA C2=0.189
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(14.2=46.5)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(25.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGCTGATCTTCATAATCTGGC
R:
TTGCGTTGGCTTCTGGCTTC
Band lengths:
230-1606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]