GgaINT0048441 @ galGal3
Intron Retention
Gene
ENSGALG00000012444 | AVR2A_CHICK
Description
NA
Coordinates
chr7:36176749-36177460:+
Coord C1 exon
chr7:36176749-36176894
Coord A exon
chr7:36176895-36177345
Coord C2 exon
chr7:36177346-36177460
Length
451 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TCTTTCCTTTAACTTGAAAGGGA
3' ss Score
4.74
Exon sequences
Seq C1 exon
GGTTCATTAACTGACTTCCTCAAGGCTAACGTGGTTTCCTGGAATGAGCTGTGTCACATTGCTCAGACTATGGCTCGAGGCTTGGCTTATCTCCATGAGGATATACCAGGGCTAAAAGACGGACATAAACCCGCCATCTCACACAG
Seq A exon
GTATGGTGCTGTAAGGGATTTGCAGCTGATGGTTAATGTTTAACTTGCAGCCAAAGGACATGAAATATGGATAGATACAAAGTACTCAAAAATGACTGTGATAACTTCCTTCTGTATATATCAAGGGCCTAATAAGGAAAATCTGCCCGGCCTAAGCAGAAAGTTAGCTGACGTTTTATAGAGGGCAGTTGGGTGACTGCAGTTAATGTAACTGTTTTTACACAGTTACTTGGGTATCCTGTGCAGTATACGAAGTAATTGACAGTATAGCTTTTGAAACAACTTAAACACTTCTGTATGTAACTTTGTAATACTGAGTGCCTTCAGATGGAAACATGTACTGTAAGTGGTGGTTTTGCATATTTCTTTATACTGTGTATATATGTATCTATTATCACTTCGTACAATATTTCATGTTCTGGATTTCTAATTCTTTCCTTTAACTTGAAAG
Seq C2 exon
GGACATCAAAAGCAAGAATGTGCTGCTGAAAAACAACCTTACAGCTTGCATTGCTGATTTTGGTCTAGCTTTAAAGTTTGAGGCTGGAAAATCTGCAGGAGATACACATGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012444:ENSGALT00000020344:7
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=0.051
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(16.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.1=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:
TAACTGACTTCCTCAAGGCTAACG
R:
CTGTCCATGTGTATCTCCTGCA
Band lengths:
254-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]