GgaINT0077362 @ galGal3
Intron Retention
Gene
ENSGALG00000004730 | CLIC2
Description
NA
Coordinates
chr4:1799818-1801427:-
Coord C1 exon
chr4:1801246-1801427
Coord A exon
chr4:1801164-1801245
Coord C2 exon
chr4:1799818-1801163
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
AGCTTCATTCTTCCTTCCAGATT
3' ss Score
8.73
Exon sequences
Seq C1 exon
ACCTGGAGAAGGCTCTGCTGCGGGAGTTTCAGAGGCTGGATCAGTACCTCACCACCCCACTGCCCGAGGAGATCGACCAGGACAGCGTGGAGGACATCACCATCTCCAAGAGGAAATTCCTGGATGGGGACCACCTGACTCTGGCTGACTGCAACCTGCTGCCCAAGCTGCACATCATCAAG
Seq A exon
GTAAGGGCTCCCAGAGCCAAATCCGGCGTTCTCTCCACACCAGCTGGCGTTGGTGAGGCCTCAGCTTCATTCTTCCTTCCAG
Seq C2 exon
ATTGCAGCCAAAAAGTACCGTGACTTCGAGATCCCTGCTGACATGACGGGTGTCTGGCGCTACCTCAACAACGCCTTCGCCTGTGATGAGTTCAGCCACACGTGTCCTGCAGACGAGGAGATCGTGCACACCTACGCCAGCGTGGCCAGGAAGATGACCTAGCCCCCTGCAGGACATCGGTCCCTCACCTCCCACCAAACCCTGGCCAACAGAGGGGCTGGGGGGGGGGGGCGGGTTACGGCATCCCTACACCCCAGTTTTTGGAAAGAGCGCCTTGCTTTGCAGCCCCCACGTGCCACCAATGTGGACCGTACCTATGGATTGGTCACCGTGTGGCTGTGGGGGCAACCGTGTCCCCACCCCTACAATTCATCACGCGGCACATGATGGGAAAAGCCAAGCACCAGCCTAGAGTGGAAGAGCTGAGGCCTCCCAGTGTGTCCCACCACTGCTGGAAGAGATGGCACGTCCCTACAAGGTCCCACCACCACCCACGCTTGGGCTGTCTCTTCCCTGAGGCATCCAGGCTCCAATAAGCTCTTCCCCTACAATTTACCTGTGGTGATAATTGACAACGTGCATCCATCTCCTCACTTGGACATCAGGGCAGGAAGATGCTGGGGACAGCACCAGGGATCTTCTGGTGGCTGGGAAGAAGGGCTCTGTGGAGCCTCCTAAGAGATCTGCAGCTGCAGGGTATAGGGACCTTGCATAGGCTCCAGCACCCGGTGTGTGGCGCCGGCTGCGAGGTCCCACCTGGCTCTGAGACCTTGGTGGGCCCCATGGGAGATGCAGCCCCAAGGCCACCACCACCTCCCTGCTCCTCATCAGCCCCTCCCCACCCGACCTGGAGAGAGGCTCAGGGCAGAGCGTCCTTCCGCTTTCCACACTGCAGCCCCAGGCAGAAGCTGCCGTGTCCATAGGAGATACCCGGGCAGCTTTGGTCCTACCCATGCTCCCTGGTTAGCGTTGTTCCTCCCATTCTGGTGCCAGAGAAGTCAAACCCCCAGCCTCCCATCCTCCCTCTCCACGCCTTCGGCTCCTCCCAGGGCTCCTACCGACACAGTCCGCCCCCTCCAGCCCCCATGGCCAGCAACAAATACTGTACAGTGAGCACGAGGGGACCATGCAGACCCTCGCTGGCAGAGCCACCCGCCAGCTCTCACTGCCACCTCCCTCTTTGCACTAAAAGGTGTGTCCTTGCAAGCCTGCTTCTGAGAGCACCGGGTTTGGGGACTGTTGTTTTTGTATTGATGAGTTTTGGGTTGTTTGGTATTGGTTTTTTTTTTTTTCTCTCTTTTTTTTTTTTGTAACAAAGGACAGCAATAAACTTTATTTTAATACGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004730:ENSGALT00000007535:5
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(42.0=100),PF075506=DUF1533=PU(74.0=60.7)
A:
NA
C2:
PF134101=GST_C_2=PD(16.1=42.6),PF075506=DUF1533=PD(22.0=20.4)
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:
AGGCTGGATCAGTACCTCACC
R:
TCACGGTACTTTTTGGCTGCA
Band lengths:
173-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]