GgaINT0021577 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NQR9]
Coordinates
chr12:8683145-8684808:-
Coord C1 exon
chr12:8684526-8684808
Coord A exon
chr12:8683265-8684525
Coord C2 exon
chr12:8683145-8683264
Length
1261 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGG
5' ss Score
5.88
3' ss Seq
ACTCTATTTATCTCTTTCAGGCA
3' ss Score
10.5
Exon sequences
Seq C1 exon
CTTCTTTTTCTTGTCTAATGATGAAATGCTGGAGATCCTGTCAGAGACCAAAGATCCTCTCAGAGTTCAGCCTCACTTGAAGAAGTGTTTTGAAGGCATTGCAAAGCTACATTTCCTTCCCAATCTGGATATAAAAGCAATGTACAGTTCTGAAGGCGAGCGTGTTGAATTTATTTCAACAATTTCTACTTCTGAAGCTCGAGGCGCAGTGGAGAAGTGGTTGATTCAAGTAGAAGATATTATGCTGAAGAGCATACACAATGTTATTGCTAAATCAAGAATG
Seq A exon
GTAGGGATTTTGTAGTATGCATTTTGTAATAATTTAATAACAGTAGCACACAGTGGAATAGACCTTCCTTTTATGTTAAGGCTGTCTGCTTCCTAAAATTCTTTCTGATTACAGGAGTTCAAATAGGTGAAATTATGGCACCAAGAAGAAGTTAACATGTCTTATATTTATAAGCCACTGAGAGAGAGTAGAGTTTAGGTTGAGTAAGAGTTAACTTGTAATACTGGATTTAAATTTTTTTTAAATGATTTGCAGCATTACTCTGTTTCAAGGATATGCCATTTGAGTTTAATTAATTAATGTTTCCTCCCTCACCAACAAAGTTAATGAGCCAGAAAAGATTTCTTTTGTGAAGTTTGCACACTGTGAATATTTACATTATATGGAAATATAAGTTGATGTATCCTAACATTTGAGATCAAATTGCAAATCTCTGGGTAAAAAGCCATTTAAAAGTTCACTTGCATTTTGAAAATAGTACTTTCATGTAAGAACATCAATAGATTTACAATATATACTTTTTATTACATTATGGAATCATATGGTGGTTTGGGTTGGAAAGAACCTTAAAGATCATTCAGTTCTAACCAGCCTGCCATGGGCAGGGACACCTTCCACTAGATCATACTGGCCAAAGCCCTGTCCGATCTGGCCTTGGACTCTTCCAGGGATGAAACATCCTCAACTTCTCTGGCCTGCCTGTTCTAGAGGCTTAGCAATCTCATAGTAAATAATTTATTCCTTATCTCATTCAAATCTACCCTTAAATAGTTTTAAATGGTTATTATTTGTCTAATCTACTCTCCCTGATAAAGGATCCCTCTCCAGCTTTCTTGTAGGTTCTCTTTAAGTACTGAAAAGTCTGCTCTAATGTGTCCCCAGAGTCTTTTCTTTTCTAGGCTATATAACCTCAACTGTCTTAGCCTGTCTTTTGCAGGAGAGGTGCTCCAGCCCTCAGATCATCTTCACAGCCCTCTTCTGCATTCACTCAAACAAGTCCATGCTTTCTGGTGTTGGGTGCCTCCAAGTAGAACACAGGATTGTGAGTGGAGTCTCATAGGAGCAGAGAGGGGGGACAATCACCTCTTTGATCTGCTAGCAAGACTTATTTTGATGCAACCCAAGATACAGGTGGCTTTTTGGGTTGCAAGTGCACATTGCTGGCTCCTGTTGAGCTTTTCATCTACCAGAACCCATGCCCCCCCCGTCCCAGTGTGTATGCACTGACACTGTATTTGTATACTCTATTTATCTCTTTCAG
Seq C2 exon
GCATATCTAGAGACTGAGAGAAAAAGTTGGGTTCTGGAGTGGCCTGGACAAGTAGTATTGTGCGTATCTCAAATGTTCTGGACAAGTGAGGTCCATGAAGTTCTTTGCAGTCAGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005601:ENSGALT00000008986:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083938=DHC_N2=FE(22.7=100)
A:
NA
C2:
PF083938=DHC_N2=PD(0.5=5.0)
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:
TCCTCTCAGAGTTCAGCCTCA
R:
TCTGGCTGACTGCAAAGAACT
Band lengths:
348-1609
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]