DreINT0047549 @ danRer10
Intron Retention
Gene
ENSDARG00000070584 | clic5b
Description
chloride intracellular channel 5b [Source:ZFIN;Acc:ZDB-GENE-040426-2542]
Coordinates
chr20:44062845-44064053:+
Coord C1 exon
chr20:44062845-44062970
Coord A exon
chr20:44062971-44063946
Coord C2 exon
chr20:44063947-44064053
Length
976 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TACCTTTCCTTGTGTCCAAGGTA
3' ss Score
6.49
Exon sequences
Seq C1 exon
GAAACCAGCTGATTTGCACAATTTGGCTCCAGGCACTCATCCTCCTTTCCTGACCTTCAACGGTGAGGTGAAGACAGACGTTAACAAGATTGAGGAGTTCCTGGAGGAGGTTTTGGCACCACCAAA
Seq A exon
GTAAGCTCATTTTTACAAATACACTCAAGACGAATCGTGACTGCATAGAAACTCGAAACCTGCGGTTCTCGACTGGTTCTTGCTGCAGGATCCAGATTTGAACAGCACGGTCAAACACAGGACCAAAATTTAGACCTAAATGTAGAGATGTATGTATTGTAAATGCATGTAAACAATTTCCGATCGATTTCCATTTGGATTACGCAAAAAAATAACGTGAGAAAATAACAAATATACGTAATGTGATGCATGCTTTAGTCATAAACCGCAGAAAGAGGTAGGACTAATACTCTTAATAAAACCATGGGCATTTGCATCACGTGATTTTATTTATAGAGTAAAACAGAAACATTTATTCTAATTTATTTATTGAAGATATGTTCAATATGATATGATATAAATATGATATTAATGTTCAAACTGTATAAACCAAATGAGTGGAAATGTTATATTCATTTCAAATAATTAAATTAAATTAATTTGTGAGCATTTTAATATTAACAAGAAAAGTCCATTTTAATTTATAAAAATCTTTAATTATCATATGCAGTTAGCTTTTTTCTTTAGGAACAGGCCTGTGACTGATTTGTGTGTCACAACCCACCATATAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATTTAGACTGTATATTGAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATCTAGACTGCATATTGAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATCTAGACTGTATATTGAAGAACTGCAGATCTAGACTGTATATTGTATTAAACCTCACATTAAACCACTGTGAGGTTGAACTGTAAAGAATCCTGACACATGTTTTTCTGTGTACCTTTCCTTGTGTCCAAG
Seq C2 exon
GTACCCCAAACTTGCAGCCAGGCACAGGGAGTCAAACGCAGCAGGGAATGACATATTTGCAAAGTTCTCGGCTTTCATAAAAAACACGAAGCCAGATGCGAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070584:ENSDART00000037379:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.180 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(8.3=25.6)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(27.3=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:
ACCAGCTGATTTGCACAATTTGG
R:
CTTCATTCGCATCTGGCTTCG
Band lengths:
230-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]