GgaINT0112009 @ galGal3
Intron Retention
Gene
ENSGALG00000016020 | CLIC6
Description
NA
Coordinates
chr1:109444575-109447354:+
Coord C1 exon
chr1:109444575-109444756
Coord A exon
chr1:109444757-109446931
Coord C2 exon
chr1:109446932-109447354
Length
2175 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGC
5' ss Score
5.42
3' ss Seq
TTTATTTTCTTTATAAAAAGGTT
3' ss Score
7.45
Exon sequences
Seq C1 exon
ATCTGGAAAAATCTTTGCTTAAAGCCCTGAGGAAGCTGGACAACTATTTAAATAGCCCCTTGCCTGATGAAATTGATGCTTACAGCACTGAGGAGATCACTGTGTCCTGCCGCAAATTCCTGGATGGAGATGAGCTCACCTTAGCGGATTGCAACCTCCTACCAAAGCTCCACATAATTAAG
Seq A exon
GTTTGCATTTGCTTTTCAGCCTCCTGAAGAGAAAGGCAGCCTAGAAGCTCAGGTTCTTTTCTAAAAGGCAGAGGAAGTCCGTGTATTTTCTGAAGCCACACGGTAGCTGGGTAGGGACAAGGAGTGCTAGTGCACAAGGCCATTTCAGTGCAGCACAGCTAGGCAGATCTTCACATTGACAGCTGGAGCTGGAATATCTGGTTTCATATTTGAACTGTGACTGCGTTCTCCAGGCTTCTCACAAATACTAAATGAGTACTATATTCAGTGCTGTAGAGAAATATTTCTATTTGCGTTTCACATGCAAAGTGCCACAGATTGATAAGATTAAATGATCTTGCCCGTGCTAAATCAAGAAAGCAGCAAATGCTGAAATTTGACCATCTCTCCCACTTTTAATCCAAACCTCTTTGTTGAATATTACCACCAATACCAATAGCACTGGCAGCCACCATCTTCCAGCCAAGTGCTCCAAAGCACCCACGCACTCCTAAGGGTCTGAGGTGTCTGGGCATTGTTACAGCCTGTCCTGTGCTACCCTGGAGCCACACAGGCTCTGGAAGGGAAGTGGCCATACTGAAAACTCACGTAGTTTCCAAACACTTCAGAAAGTTTCATTCTTGACTACTATTTTGTCAGGGAAAGGGTGGATGGAATTGTTTTCAGACTCCCTCAGGGGTGAAAGCTTTCCCAGGAGGTGTCCTGGTTGAAACTATTCCAGCGACAGAAGTAGGGCAGTGAGCCCTGTCCTGCTCCCAGCCACAGCTCAGGCACAAGGAAAACACATTTAAAGGATGGTAGAGGGTGAATGTCAGGTCATCCTTGCTGAACCACAGGAAGGAATTAGATGTCAGCTGGTAGTTGTTTCCTCCAGCCACTCAAAATCTAATATAAAGGGGAGCTCTGAGAAAGAAGGGAACAGACTCTTTTAGCAGGGTCTGTTCTGACAGGACAAGGGGAAGTGGGTTCAAGCTAAAAGAGGGGAAAATTTAGATTGAATATAAGGAGAATGTTTTATACTCTAAGGGTGGTGAGGCAGTGGAACAGGTTTCTCAGAGAGGCAGTGGATGCCTTATCCCTGTCGACACTCAAGGCCAGGATGTACGGGGCTCTGAGCACCTGATGGAGCTGTAGGTGTCCCTGCTCATTGCAGGGGGGTTGGACCAGATGGCCTTGAAGAGTCCCTTCCAGCTCAAATGATTCTATGATTCTATTAATTTTCTAAGTGTGAGTCAGTTTTATTATTGTAAGAGAGTTAATTCTGTTTGATGCCAGCTCTTTTGCTGCTTTAAGCTGCATCTCTTCCATGGTCTGATGGTGCATATAGCTCCACAAAGCTCTAGCAAAATATTGATACCAAATTAATCCTTTCAAGTGAGTTGGCTTGTTAGCCAGCTTTCTTCATCTCATATCTTTCCTTTCTTTTTCTTTTTTCTTTTTTTTTCTGCCTTTTCTGCCTTTTTCTTCTTTTCTACATTGTATATAAAGATAGTCTGTTATATATTGAAAATTAAAAATGTCCATAGAATAGATTCAGTTACATTTAGGTCGCGTCCCTCTCTACTCTGCCCTCATGTCCCCATCTGGAGTACTGCGTCCAGGTCTGGGGCCCCCAATACAAGAAAGACAGGGAGCTGTTGGAGAGGGTCCAGAGGAGGGCTACTAAGATGCTCAGAGGGCTGGAGCACCTCCCCTATGAAAACAGGCTGAGGGAGCTGGGCTTGTTCAGCCTGGAGAAAAGAAGGCTGTGGGGTGACCTCACTGCAGCTTTCCAGTACGTAAAGGGAGCCTATAAACAGGAGGGGAGTCAACTCTTTACAAGGGTAGATAACAGCAGGACAAGGGGAAATGGTTTTAAGTTGAGGGAGGGAAGATTTAGGTTGGCTATCAGGGGGGGAGTTCTTCACAGAGAGAGTGGTGAAGTGCTGGCACAGGCTGCCCAGAGAGGTTGTGGATGCCCCATCCCTGGAGGTGTTCAAGGCCAGGTTGGATGGGGCCCTGGGCAGCCTGCTCTAGTTTTAGATATGGATGTTGGTGGCCGATCCTACAGCAGGGGGATTGGAGCTTCATGATCCTTGGAGTCCCTTCCAACCCAAGCCATCCTATGATTCTATGATCCTATGATTCTATGTATGTGTGTAATAAAACGTTTTCTTTTATTTTCTTTATAAAAAG
Seq C2 exon
GTTGTCGCAAAGAAATACAGAAATTTTGATTTCCCACCTGAAATGACGGGGATTTCAAGATACTTGAATAATGCATATGCAAGAGATGAATTTACAAACACTTGTCCTGCTGATCAAGAAATCGAGTATGCATATTTGGACGTCGCAAAGAGAATGAAGTAAATGGAAGATGTTTCCCTTCTTTATTACTTCTGAGATTTTATGGGCACCAGCCAATATGGAAACAAAACAAGCCAGCGTGCATTCTGCAGTGTAATTTTAAGTTCTGTTATTGGCCAATCCTTCTTTTGTAATAACTGTGTAGCGTTGTTTGCTCATTCTTAAATGATGTATGTATATGTGTGTCCGTACAGATGTACACACACACGAACGTGTGTTATGCACTCCAAGTTAAAGGCATCAGTCAGTACTCAGGCTTTTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016020:ENSGALT00000025807:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(55.6=100)
A:
NA
C2:
PF134101=GST_C_2=PD(21.3=42.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]