DreINT0047545 @ danRer10
Intron Retention
Gene
ENSDARG00000075993 | clic5a
Description
chloride intracellular channel 5a [Source:ZFIN;Acc:ZDB-GENE-041114-84]
Coordinates
chr17:5409042-5412189:-
Coord C1 exon
chr17:5412008-5412189
Coord A exon
chr17:5410252-5412007
Coord C2 exon
chr17:5409042-5410251
Length
1756 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACG
5' ss Score
7
3' ss Seq
ATTTTTCTTCCCACATTCAGGTG
3' ss Score
10.54
Exon sequences
Seq C1 exon
GTCTGGAGAAGGGGCTGCTGAAGGTTTTGAAGAAACTGGACAGCTTCCTAAACTCCCCTCTGCCGGACGAGATTGATGCTGAAAGCACCGGGGAGGAGAAAAGCTCAAACCGCAAGTACTTGGACGGCAATGAATTAACGCTTGCTGACTGCAACCTCCTCCCGAAACTGCACGTCGTGAAG
Seq A exon
GTGACGTAGTGCTGTAGTTGATCATTTAGTGCAGGGGTGTCAAACTCAATTCCTGGAGGGCCGAAGCCCTGCACAGTTTAGTTCCAACCCTGCTCCAACACACTTACCTGTAGGTTTCAAACAAGCCTGAGGGACTCAATTAGTTTGATCAGGTGTGTTTTATTAGGGTTGCAACTAAACTGTGCAGGGCTGCGGCCCTTTTGGAACCGAGTTTGACACCTGTGATTTAGTGTAAGATTAATAACTGGAGATTCCAGTAAACACGTTCCTTTTTATTCCACAGAATATTTAATTTAATTAATTTATTTTTTAAATCATTAATTTCTGAAAAATATGCACCTTATTATTTTTATTAATATTTCCTTTATTATTTTTTATGGATGATAAAACATATACATGAAACAATACCTGACAAAAGTCTTGTCATCGATCCCAGTTGTAAGAGCACCAAATAATATCTTCTAGTTGATCATTTGGAAAAGTGGCAGAAGGGAGATTTTTCAGATGAATTATCTGTTGAACTGCATCTTAATCATCACAAATACTGCAGAAGACCTGGAATCAGCAAGATTCTTACAGAAATCAGTCAAGTTTGGTAAAGGAAAAATCATGGTTTGTGATTACATTCAGTATGGGGGCGTGCGAGAGATCTGCAGAGGGAATGGCAACATCAACAGCCTGAGGTATCAAGGCATTTGTGCTTATGATGGCAATTATATGTCAAAAATAATCAAATGCACCAGTGATGTTTACGCATGAGGAGAAGTAAACCGTGAGAATATTACAGACCTACACGTGAGGAAATAATTGTTCGCTCTCGCGCTTGCTGGCTGCTCTCTCTGCTCGCGTAAAACTTTTAGAATTTTTGTCAGTCCTGGACTTGGTTTAATTGTTGTCTCTAATCCGGGCGACCCCGGATTAATAAAGGGACTAAGCCGACAAGAAAATGAATGAATAATAGGTGATGACTTTCAATAGTGAGATATTTCTCGTAATGTCGCGTGTAGGTCTGTAATCTTCTTGCGGTTTATTCCTTCTCTTATGTAAACATCACTGGTGCGCTTGATTATTTTTGGCATAGAATTGCTGTCATACGTGCACATTACAAACCACAGGAGAGGGCAAATTCTCCAGCAGGATAGCGCTCCTTCTCATACTTCAGCCTCCACATCAAAGCTCTTGAAAGCAAAGAAGGTCAAGGTGCTTTAGGATTGGCCAGCCCAGTCACCAGACATGAACATTATTGAGCATGTCAGGGATAAGATGAAGGAGGCATTGAAGATGAACCCAAAGAATCTTGATGAACTCTGGGAGTCCTGCAAGAACACTTTCTTTGCCATTCCAGATGACTTTATTAATCAGTGATTTGAGTCATTGCAGAGATGTATGGATGCAGTCCTCCAAGCTCATGATGGAGTCAGACACAAGATTAATTCTGTTTTCACTTCAGCAAGACTTTATATTCTATACTGGACATTATTTCTGTTCAGTGACAAGACTTTTGTCTAAGCAAAGTCAGACCTACTGTCCTCATTAAACAATTAAAAATCAAAGCATGATAATATTTTATTAGGTAAAACAAGCGTAATCTAGAGGCCTTTGCCTTTCATATAAGCGACTTCTGATACCAAATAATAATATTATTGACCTTTTTTATTTTAAGAACTGATTTTATTCCGGCTAAAAAACTCACCTGACCTGACATTTATTAGGACGATCAATTAACAGCACCAATAATTTTTCTTCCCACATTCAG
Seq C2 exon
GTGGTGTCTAAGAAATACCGTAACTTTGAGATCCCGTCTGATCTGAGTGGAGTGTGGAGATACCTGCAGAACGCCTACAGCCGAGACGAGTTCACCAACACCTGCGCCGCAGACCGAGAGATCGAACTGGCCTATCAGGACGTGGCCAAGCGGCTCGGAAAATAAACACACACTAATCACAGACTGGAATAATACACAACAAACATGCTGAGGGGGTCAACCCATACAGGCTCTGTCCTGAAACACACACACAAACAAACACACACTGACCTGCTAGCTGTTCCCATCATGCTTGTGTGAGCTATTGCCATTATGTTTACTATATAAGTGACATAAACTCCTCTATTAGTGTCGTTATCTATGACAGCCTAGAGAAAACACTGTGCCACTCTTTCTGTACTCCCTCATGAAATAATACTATATTCATTTATAGTGGTTTTGAATCATACTATAGTAAAGTGTATTATATTAGTGTTTTACAACAGGGTTTTTGAATGAATGCTACTGCACTCTTGCATAGTGAGCTGATAAAGTTATAAACACTGTAGTAAACAGTGTTGTATTGTAGTATAATATAGAAATCAGCACTATATTTGGGTAATTTGGCTACAGTTATTGTATAATAGCAACTATAGAATAACTACAACAGATTAATTCAAGTACTTACTATAGTAGTGTTCCAAAACATGCTAGTAATTACTATAGTATTTTTTCATGTGTGCTGATTTTGAGTTTTGGATGATTTTCTTCATTTAAAGTGCAATTTTTGATCTCTAAACCTTTACATTTTTGTGTATTATATAAATTATTTTTGCTAGCTTGTGAAACAGTAATATAAAGCTTTATTTTATTGTAGAGTGTAACATTTAACATTGATATTTATGAAAGGTAATGTGTGTGTAAATATCTGAAGGAGGAAAAAAAAACATTTCTTTGGAATTAGTTTGAAGTAATTGTATTTTAGCACGCAGCCCCACCTAGTGGAGAAATTAGCTATTTAAATTCGCCTCAAACAGCAGTTGGTATGCACAAACTGGCACAAAATGTCAACATTTGAGAATACCTTTTGTTATTACAATCCAATGAAAGCCATCGAGTTAGGCACACGTTTAGGTCTCAGGTATTATATCTTGCCCTGTCTGGAGTTTTCATATATTGAAGTGAACAATATCAGTTGTCTCTTATTAATAAAAATATATTTTTCCACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075993:ENSDART00000035944:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.279 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(42.6=100)
A:
NA
C2:
PF134101=GST_C_2=PD(16.3=41.8)
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:
AAACCGCAAGTACTTGGACGG
R:
CAGCTAGCAGGTCAGTGTGTG
Band lengths:
356-2112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]