GgaINT0077358 @ galGal3
Intron Retention
Gene
ENSGALG00000004730 | CLIC2
Description
NA
Coordinates
chr4:1802431-1804668:-
Coord C1 exon
chr4:1804538-1804668
Coord A exon
chr4:1802541-1804537
Coord C2 exon
chr4:1802431-1802540
Length
1997 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CCTCTCTGCTCTCCCCGCAGGCT
3' ss Score
13.57
Exon sequences
Seq C1 exon
CTGAGGTGCAGCAGCCGCGCGCTGCAGAGCACGGGCGAAACTCAGCGCAGCAGTGAGCAGCTCCCCCCACTGCAATCCCTGCGATGGAGAGCCGGCCGGTGAAGGAGCCCGAGATTGAGCTCTTCGTCAAG
Seq A exon
GTGGGCTCGGCCAGGTCTGCTGGCTCCTGTTACGTGCGGGTGGTGGGGATTCGGGGTGTCTCTGCGGTTTGGCAGCCGGCTGGGTGATGTGGGGAGCCCCGCAGGATGCTGTGCTCCGGAGGTGGTCGTGCACCCCCTGGAAACTGCAATTGCAGCAAAGCAGAGGGGTGAGCGGCTCCAGAAGCGCAACGACCAACCCAGCTGGGAAAGCAACAGGAGGGTGGAAACACAACGCAGTGGGGCTGGGAAATGGAGCGGGTGCCCCAGTGTGGGCGGGATGGGGCAGCTCCTTCGGTCAGCCCTGAGGATTATTCACTCGAAAATAGGCTGTTTTTTTTTCCCCTTCTCTCTCCTTTTCTTTCCTTCCCTTTCTTCTATTGAGCAATTTCTCAAGTGTTTCCTCGGGAACATTCCGACACTCAGCTCCAAACAAACATCTGCAGCCGCACGCGCGGTCTTTGCTCCCCTTTGGATACCAGCGCTGGGAGGTGTTATCCCAGGCTTCACCCCATCCCCTCTCCCCAAAGCAATGCTCCCCGGGCACCCAGCCCAGGCTGAGCCCTGAGCAACGCATCTGCCTGGGGACAAGGATTCAGGTCCCACATTCCCACTTCTGCACCCCTTTTTGCCCCAGGATGGCCTGGGGAGGAGGAAGACGTGTGCAGGCTGCTGTGATGGCGGCGGCACATCGAGGGGGGTTTTGGAGGGAAGGGAAACAGAAAACAAAGTGGCGGCTCAGGACTTCCCCTAAATCTTAATTTAGCACCCAAAACCCCCTCTTGCACATCCGTTAGCAGGCTGCCTGGTGTGCGCATCACCCTCCACGTGCTCTGCGCACGGTGTCACTGCACAGCCCACCCCGACGTGGTGCCCCCCAGCTTCCTTAAGGGAGGTGGGTCTGGGGGACGTTGGGGTGATGCAGCTCATGGAGCGCTCCCTCCTCCTCGTGCTGCCTCGCTCTGCGTTAAACCACCGGAACTTGTGAGCAACTTTGGGGTTTTGATGCCTTGTGCAGGCGTGGGGCCTCCGGTGGGGGCTGAAAGGCTGCACCTCCCAGGCTGCCTTCGTCCATTGGCTATGGGGCTTTTCCATCATCTGTAGGGTTTCTCCAGCATCTGGAGTGGTTCTTTATTATCAGGAAGGGTTCTTCCATCATCTAGAGGGATTCTCCATCATCTGGAGGGGTTCTCCATCGTCTGGATGGCTTTCTCTACCACCCGGAAGGGTTTCTCCACCATCCGGATGGCTTCTGTCATCATCTGAAGGGGTTTCTGCATCATCTGGAGGGGAGAACAGTGGGCACAATCACTGGGGAGCCACGGGAGCTCTTGCTGAGCAGAGGAAGAGGCTCTTGCTGGAGAGGGGAAGCAAAGAGCGATGACTTCCTCTCCCTGCTGCTTGGTGCCATGAGTGCTCGTAGAGCTTCCTCCTGATAACATTTGGCTCCAAGCATCCTCAGATTGACTTGGCTAAGGTTTATTTTCTGCTTCCTGCAGAGGCTATCCTGATTTTCCTTTCAGGACAGCCTCGCTGAGCTGCCAGTGCTGGAGGTGCTCCAAGGGATGACATTGGTGTTGGCTTGCTAGGGACTGTGGAGAGGGGAAAGGGAGCGGAGATGCTTGATGGCATAAGAGTGGGGCAGATTTGAGGCTGTTTTCTAACCTGCCAACCCCTCTCAGGTCACCTGCAACCCAGTGTTATCCCAAACGCCCCTCCAGCTGCTGGTGGTGACTGTGTTCCCCAACCCCTTCTCCTCCCTGGGGCCGGGTGATGCTCACTCCTCTCGCTTGGCTGCTTTAAGGCTGCGCAGTGCAGCAGACAAAAACAAGCCGTGCTTTTCCTGGCAAACATGAGCACATTTCCCCTCTGAGCCTGGCGTCCCAGCCAAGCTGACCCTCCCTTCCTCTCCCATGCGCTGTCCATCCTCCTCCACCTCCTCCTCCTCTCCTCCTGGCTTCGTCTCAGGGCAGGCTTTGACCTCTCTGCTCTCCCCGCAG
Seq C2 exon
GCTGGGCTGGATGGAGAGAACATTGGGAACTGCCCCTTCTGCCAGCGCCTCTTCATGGTGCTGTGGCTCAAAGGGGTGAAGTTCAACGTCACCACAGTGGACATGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004730:ENSGALT00000007535:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134171=GST_N_3=PU(41.1=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGGGCGAAACTCAGCG
R:
CTGGTCATGTCCACTGTGGTG
Band lengths:
212-2209
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]