GgaINT1002454 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:H9L0Z3]
Coordinates
chr2:351346-352952:+
Coord C1 exon
chr2:351346-351503
Coord A exon
chr2:351504-352220
Coord C2 exon
chr2:352221-352952
Length
717 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
AGCGCCTCCGCTCCCTGCAGCCC
3' ss Score
8.45
Exon sequences
Seq C1 exon
CCATGCCCTCAGCCCCCCCACTCCCCCAAAGGTGGTGGTGGCATTTGAGGACGTGGCTGTGTATTTCTCTGCCGAGGAGTGGCTGCTGCTGGCGCGGTGGCAGCGGGAGCTGTACCAGGAGGTGATGATGGATAACTACGACCTGGTGGCGTGTCTGG
Seq A exon
GTAAGGAGCAGTGCTGCGCAGCCCCCCCAGCGCCCCCGGCCCCAGGTGCACCCCTGCTCACACTGCATCCCAGTTTGCTGCCATGACTGGGGGTGGCACAGCAGCACCCGGCACAAGGCAGCCCCATGGCACTGCAGTCCCCAGCTGGCACCTCATGGGCACCTCGGTGACGGTGACACCCCCAGGGCACATCCCCGGGGTCTCAGTGACATCTCTGAGGGCAGCTCAGGGGGACAAGTGATGGTGATGCCCCTGTGGTGTCTCCGGGGGGTGCTGAGGACTCTCACTTCCCCAGACTCCCTCGACACCAAATCCCCCATTGTCCACGGAATGGATCCCAGGGAGGCATCGCATGGAGGGGACAGAGGGACGCTGGACTCCCCGGGCGGCGGTGAGAGTGATGGGGCAGAGCTGGGGGCAACAGGATGGGGACTGGGGGGGGGGTTGGGCACACAGTGGATGTGAGTCCTGAGCTGTGCCATGAGCCATGCCATGAGCCGTGCCATGAGCCGTGCCAGGAGCTGTGCCATGAGCTGAGCCATGAGCTGAGCCATGAGACATGTCATGAGCTGTGTCATGATCCATGCCATGAGCCGTGCCATGAGCCGTCCCACAGCCGTGTACAAGAGGGGGTCCTGCAGGAGCCCCCCTGCTGTGTGCCAACTGGTGGCATCCCATGGGGATGTGGCCCTGACCCAGCGCCTCCGCTCCCTGCAG
Seq C2 exon
CCCCCTGGGATGACGGCACACCGGGGGACTCCATCCAGGGCCACCGTGTGCCACCGGAGCCGGGGTGCCCCCCGCTGCGCCCTGCCTGGGGCGGGTGGGGTCCGGCGCGGCCACAGATCTGCAGGGTCTGCGGGCAGAGCTTCGAGGACGCGGCGGCGCTGAGCGCACACCGGGCAGAGCACGGGGACCCGACGCCCGGCCACGAGTGCACGGCGTGCGGCAAAGTGTTCCGGCACCACCGCAACCTCCTGGCACACAAGAAGCAGCGGGGCCCGCAGCGGCACCCCTGCAGCGAATGCGGCCACAGCTTCTGCCTGAAGGGCGACCTGCTGCGGCACCGCCACCAGCGCGACCCGCGGGCGCACGGCGAAGGGCAGAAGGCCGCAGCGCCACGGCTGTCCCCCGAGTGCGGGCGGCGCTTGGAGGCCGAGCTCAGCCTCATCCGGCACGGCGCGCAGCACGGCGAGGAGCGGCCCTTCGCCTGCGGGCGCTGCGAGCGCCGCTTCTCCTGGAAGGAGAGCCTGCAGCTGCACCTGCGCAGCCACGCGCCCGAGCGCCGCCACAAATGCCAGCAGTGCGGCCGGGCGTTCAGCCGCAGCGGGAATCTGCTGCTGCACCAACGTGTGCACACGGGTGAGCGGCCCTACGCCTGCACGCAGTGCGACAAAGCCTTCTGCAACAAGGCCAGCCTCACCACGCACCGCCGGCTGCACCGCCGCTGCAGGACCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018597:ENSGALT00000029406:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.296
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=75.9)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0),PF139121=zf-C2H2_6=WD(100=9.0),PF139121=zf-C2H2_6=WD(100=9.8),PF079757=C1_4=WD(100=19.6),PF134651=zf-H2C2_2=WD(100=10.6),PF134651=zf-H2C2_2=WD(100=9.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCTCTGCCGAGGAGTGGC
R:
TTCTTGTGTGCCAGGAGGTTG
Band lengths:
358-1075
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]