GgaINT0143165 @ galGal3
Intron Retention
Gene
ENSGALG00000000252 | Q8AV15_CHICK
Description
NA
Coordinates
chr27:1542429-1543037:-
Coord C1 exon
chr27:1542883-1543037
Coord A exon
chr27:1542603-1542882
Coord C2 exon
chr27:1542429-1542602
Length
280 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
TAGCTCCACATCTCTTCCAGGCT
3' ss Score
5.65
Exon sequences
Seq C1 exon
GCTGCGTCAAGAGGTTTCCCTGTCTCCACGTGGACATCACCAGTGACAGAGGGAAGATCTGGTGGAACATTCGTAAAACCTGCTTCCTCATCGTGGAGCACGACTGGTTTGAGACCTTCATCGTCTTCATGATCCTCCTCAGCAGCGGGGCGCTG
Seq A exon
GTAGGTCCCATCCCTCCTTTTTCCCCTTCCCCTTCGCTCTTCAGCAGCTGCAGGCCAGATGTTTTAGTTAAAACTCCTTTTGGGCCATGCCTGCTCGGTGCAAGGGGATCTAAGCATCCTCCAGGTGCCCTGCATTGGTAGACCATGATACAATCCTCCTCAGCCTTCACTTTTCAAGCTGTCCCAGGAAAGTAGGGATGATGCAGCCACGGTCCTGCACCAAGCCATGCAGTGGGTCTAATGGCAGAATGACTGTCATGTAGCTCCACATCTCTTCCAG
Seq C2 exon
GCTTTTGAGGACATCTACATAGAGCAGCGGAAGGTGATCCGCACCATCCTGGAGTATGCTGATAAGGTCTTCTCCTACATCTTCGTCATTGAGATGCTGCTCAAGTGGGTGGCCTATGGCTTCAAGGTGTACTTCACCAACGCGTGGTGCTGGCTGGACTTCCTCATCGTCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252:ENSGALT00000040680:22
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:
PF065128=Na_trans_assoc=PD(49.4=84.6)
A:
NA
C2:
PF0052026=Ion_trans=PU(22.4=67.2)
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:
CGTGGACATCACCAGTGACAG
R:
GACGATGAGGAAGTCCAGCCA
Band lengths:
298-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]