GgaINT0055933 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8359163-8360252:-
Coord C1 exon
chr5:8360112-8360252
Coord A exon
chr5:8359303-8360111
Coord C2 exon
chr5:8359163-8359302
Length
809 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TCAATTTTTGCTTTTCTCTGGAT
3' ss Score
0.29
Exon sequences
Seq C1 exon
GGAAATTCTGTGGAGGAGATCTTCCATTACCTATTTTGATTGGGTCCAATAATATAAGGCTGAAATTTGTTTCTGACAACAAGGATTATGGAACTGGTTTTTCTATGACTTATAAAGCTCTTACAACAGGTATTCTTCCTG
Seq A exon
GTAAGTCTAACTCAGAGAAAGCTTCTGTGATTTTTCCTAAGTGGATGGCATAATGAACAAGGTGTGTTTTGGCTGGTGCGTAGCATTGTGGGAAAACTGAGATGCCAGGAAGAGACAGGACAGACACTGTTCAGAAAAAAACCTCCTGTTACTTTGCCTCTATCCTGAATTCTCTAGAAGGATTTAATTTCCTTCTCTACTTATAGAAAGTTTTAAAACTTAATAAAATCAGTCACACAAGCCAAATTTCCAGTGAAAGCTACTTTCAGTTTTGCTGTGCAGAGTGGTTTATCATCACTAGGGGGGCAGGTCCAAGGGCCATCTCCTGAGTCTGGACAATACTTAAAAAACAGACACCTGTTGTTTCTGTTTCTGCAGCTTTTTCAACCAATTTTGTTCTTTTATGATCTGTAAGGGCAGGGAGGAATTCCCTCTGAGGGGCTTGCCACTGCATAGCAAGAAAGTCACATCTACTGACTGTGTTCTATATCTCCACTTTCATTTCCAAATAAAATTGGCAGATGTACTGACATCCCTGTGTCCTGCGCTTCTGTCACTCCCACTCAAGTAACTCACTCTGCAGTACACTGCCTGTACCACAGGGAACATGCTGTAGTGATGATTGAATGTCTCTCCTGTCTGATAACAGATGAAAAAATTTTGTCGTATTTTTCTTGCAGAAGGATTTGGCTTGCTGCTGTTTTCCTGTTTCTGTGTGAAAGCACCACAAGAGATTTTCTGGGTTTCTTTTTTTCCTTTTGTGTGTGTGTGAATGATTTAATAGGTGCCTCAATTTTTGCTTTTCTCTG
Seq C2 exon
GATTTCTAGATTCAGGCTGTGAGTCCTTAGCTGTCCTTTTTGAAGAAGGAGTGTTGCAAAGTATGCACTATCCAGAGAATTACAGCAATCTGGCTGTCTGTCAATGGATTATTTGTGCACCAGAGGACCATGTAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:11
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:
PF0043115=CUB=PD(33.3=77.1)
A:
NA
C2:
PF0043115=CUB=PU(36.4=85.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAATTCTGTGGAGGAGATCT
R:
GATTACATGGTCCTCTGGTGCA
Band lengths:
278-1087
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]