GgaINT1009602 @ galGal4
Intron Retention
Gene
ENSGALG00000001262 | CLIC4
Description
chloride intracellular channel 4 [Source:HGNC Symbol;Acc:HGNC:13518]
Coordinates
chr23:2458718-2461397:-
Coord C1 exon
chr23:2461216-2461397
Coord A exon
chr23:2460711-2461215
Coord C2 exon
chr23:2458718-2460710
Length
505 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
ACCTAATCCTTCTGTTCCAGGTG
3' ss Score
10.49
Exon sequences
Seq C1 exon
GCTTAGAACGTGGCCTCTTGAAAACCCTGCAGAAATTGGATGAGTACCTGAACTCTCCTCTCCCTGACGAGATAGATGAGAACAGCATGGAGGATATTACAGTTTCTACCCGCAAGTTTTTGGATGGCAATGAGATGACATTAGCAGACTGCAACCTGCTGCCCAAACTACACATTGTGAAG
Seq A exon
GTAAATGGCCCGCAGGGCATTACGTGAGGGGGAAACTGATGGTGTGTGACGTGCCGGAGTCCAACTCCTTCCAACCGTGTGTGGGACCCCACCTAAATTTAAGTGCAATATGAGCAGAGAAGTACTGTAGTAACAACGTAGGGAGCTCAGTGAGTGGGGGGGACGTTTAGAAAGCTGGAAGGAGGTGGCACAGTAAGTGCAGGAGAGGAGGTGGAGCGCTGTGATCACGGCTTGCTCTCTTCTCGCTGCTTCCAGTGACCTCTGTACGTTTCGTACTGCAGATGGAGCCACAGATTAAGCTTCTGCCTGCATGCAGGAGGGTTTGCTTTGGTGAGGGCAGAATGAAAGGCAGCGTGAGGCAGGGTGCTGTCGGGTCTGGGCATATCCCAGAGGGACGGGTTCTGCAGAACGGGAGTGTGTTGGAAGAGCAACAGAGCGAGAGGAGGAGGAGAGACGGAGGGGTGCTTGGAGCGTGTCGGTTCGTAACCTAATCCTTCTGTTCCAG
Seq C2 exon
GTGGTGGCCAAAAAATATCGCAACTTTGAGATCCCCAAGGAAATGACGGGGATTTGGAGATACCTGAGCAATGCTTACAGCAGGGATGAGTTCACCAATACCTGTCCTGGAGACAAAGAAATTGAAATAGCTTACAGTGATGTAGCCAAGAGACTCACTAAGTAAACAGCATTTGCAGAAAGAGACGACTTCTCGCGTATTCCGTAACAGTGCTTCTAACAGACTGCTCTTTTCATATAAGATAGCAATTGTTTTTTGTTTGCATGAACTTGCAGTTATTCAAAGTTATGGTGGATAGACCAGGTACAGTAATTACCTAAAGTTTGCAGACTTAATTATAGGCTTGTTTTTCCTCACCTCTTTTCATGGCAAGTCATATTATTAATGCAGTTACGTTACTATTGTTGTGGGGTATTGGATTCCTCAGTATGAGGAGTTCTCTTGCCCCCATTCCTTTTCTTTGCAGACATTTGCAAACATCCCCATCTACAAATTGGTCTGGGATACTGTCTTTCTGTATGGTACAAGGAATATTTATGTATTTTGGAATTTATTGCTCTTCCAGAAGATCTATAACACAGCTGTCATTATGTGCAACACATCGAGCTGTACCTGTTCGTCTATCCTGCTTTCATATAGAAGGGAACTTACTCTCCAGAAAAGCCATTTGAGAGCTATTTGGCCATGCTTTTAAAATAGATATATCTATATATATATATATATATAATAATTCTCTTGGATTTGAAATCACAGTAATGGTTGAGAGTGGACTCGCACGTGAAACGTGGATTTGAATGACCTCAAACATCAGGAGGTTTGAGTCCAGGCTTGTGCACTACAGCCAGGAGCTCACGGTGCAGAGTTAACATGTAGCTGTGTCTTCAAGAACGTGGTGAGACCAAACAACAACGAAGCAATTGACAGCTTACACTTACCCCAAATTCTGAGTTGCAGCAAAGCAATACCCGCCAGGATGCCCTTTAGCATCCCGAAACCAAAAGGATTGGATGCTTGCCATCTGTTCACCTTAAGCATTTCAAGTGGCTTTCTTTTTGGTAGTTAAGAGCCTTTATTTTGTATAGGTCTTTCTGGTGATGTTTACTTACAGATCTTTGCTGTCATAAGCAAACTGTGTAAGCGTTAGGGACGAGTAGCTGCTGCACGTGGTGGATAGCAGTGCAGTGATGGGCGATGCAAAACTGACCGCTGGCAGCCCGTGGAGTGGGAGTCTTTCTGGGAACTTTTGTAAGCTGTTTGATTTAATGTTTGTCCTAAAGAAAGCTGAAGTGACCTTTCAAGATAACACTTGCCTTAAATTCGAGCGTTCCCTTTTCTTTTCTTAACCTGAAGGGATATCTGTTCGTTACTCCTGTAAAGAAAGGCTGCGTGGAATCCGGTCCTGTACCCCACATTTACCTGAACTGCTTTCTGTGCACCTGGATTGCAGCTTTGCACGATCGGAATCGTGGCACTACCAGACAGGACTTTTTTACTGCAACACTGAGGAATAGCACTGCAGTTTTTCTAAGAGCCAATTTTTGAGCGTTTCTGAAGTGGGGAAATGACAGTTTTCCTGTTTCAGATGGATGATTTTGGTGCATGGAATGAACAGCTCGGTAATTTTGAAGAGGCCACCATAAAGACTCCAAAGAACACTTAGACCTGTATGCCTATTTTTTTGTAAAGCTACTTTTGTATTTAACTGATTTCAGAAGCTGGAAAGTGCTATTCCTGCTCGGTTGTCCTCGGAATATTTGACGTTCTGCAATAACACGAAGGCGCTCACATAAACACTTTTATACACTGCGTTTTTGGTAAGCCCAACTTTTGTAAGCATCCTGCTCCTGCTCCTTTATATACCCCGTGGCGTCAGCTCGATGTAGAAGAGGTAGAGTAAGAGATGTGCGTTTGTACACGTGGCTTTGTGGTGCCTTGTCCTGCCTTCCCAGGGCCAGGACTGCGATGCAGAGGCAATGAGCAGTCCTGTTACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001262:ENSGALT00000001916:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(42.9=100)
A:
NA
C2:
PF134101=GST_C_2=PD(16.4=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:
GCCTCTTGAAAACCCTGCAGA
R:
TCGTCTCTTTCTGCAAATGCTGT
Band lengths:
358-863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]