GgaINT0100231 @ galGal3
Intron Retention
Gene
ENSGALG00000006652 | DIP2C
Description
NA
Coordinates
chr2:9935298-9936196:-
Coord C1 exon
chr2:9936073-9936196
Coord A exon
chr2:9935408-9936072
Coord C2 exon
chr2:9935298-9935407
Length
665 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TCTTTGTGACTATGTCTCAGGCT
3' ss Score
5.12
Exon sequences
Seq C1 exon
GATGCAGGAAGTCAACAGATAGGCTTTTTGCTTGGAAGCTGTGGAGTCACTGTGGCCTTGACAAGTGACGCATGCCATAAAGGACTGCCTAAAAGCCCCACAGGGGAGATACCACAGTTTAAAG
Seq A exon
GTAAGCTATCTCTTGTTTACAGTGGATGTCACACTTACAATTTATTACAATAGTCATTGTATTTGTTTACTTGGAGTGGGTGAGATTAAATGCTAAATTCAGCTTACCTGTAGTTAGGACCCATAACACATCACATGCCACAGGAGCAGCCACAACTATTAGGATGCTGTTGCCCAGCTGTGTGTTATCGGGCCACTGTTAAACATTGCTGCTCCCTGCTTCTAGCTGCCAAAGGGTGCAATCTGCTTCATGGCCAGCTCAGCTGGGCTACCAAAACCATTGTCAGTCCCAAGCTACACTCAGGCAACAGATTTTGTGCTATAGTAGATGAGAAGCCTTCAGACAATTCAGTCCAATAGCTAAGAGGTAGGGACAGTAACCTCTGATAAGAGCACGGTAATAAACTATTTGGGTCAGTAACAGCTTAAACTGCCTGGCTGTTTCTTCAGGGTTTGTCTGAGCACTCCTCAGCACTTGGTAGATGTGCTAAGAAAGCCGTTTTGAAAAATCTTTTTTCTCATGCTACACTGAGGTTTAAAAGCAGAACTGTTTAGATAATGGCAACGTGGATATCTAGGAAAAAACTTTGGCAGAGAAGAATTTTGTTGTGTCTTGTCCTGCAGAAGCTCAACAATAGCTGACTTTTCTTTGTGACTATGTCTCAG
Seq C2 exon
GCTGGCCAAAGCTGCTGTGGTTTGTCACAGAGTCTAAACATCTCTCCAAGCCTCCTCGTGACTGGTTCCCACATATCAAGGATGCAAACAATGACACAGCTTACATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006652:ENSGALT00000010760:10
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:
PF0050123=AMP-binding=FE(8.6=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGGAAGTCAACAGATAGGC
R:
TCGATGTAAGCTGTGTCATTGT
Band lengths:
231-896
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]