GgaINT0143529 @ galGal3
Intron Retention
Gene
ENSGALG00000000410 | TLK2
Description
NA
Coordinates
chr27:2299856-2300591:+
Coord C1 exon
chr27:2299856-2299945
Coord A exon
chr27:2299946-2300421
Coord C2 exon
chr27:2300422-2300591
Length
476 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
TGCTACTGTTTTGCCTTCAGGTT
3' ss Score
11.05
Exon sequences
Seq C1 exon
ACATGCGTGTAGAGAGTACAGAATTCACAAAGAACTGGATCATCCTCGAATAGTTAAGCTATATGACTACTTTTCACTGGATACTGACTC
Seq A exon
GTAAGTTGCATTCCTGTGTGCTTTGACTCAGTTTGACCCATCCACTACAAAGTTTTTGATCTCTCAAAATCTTACAGCAGAGTCCACAGTATATCCATGCCTTGTAGACTGTGCTGCAGAGATGTCTGTCTGAGGCAGCTCCAGCATGCACAGATTTTCTAGCGATGCTGACTCGCATGCCCTATTATGTCAGATGTGATGCTCTGCTAGTAAATCCTGCTTTTTGTTGACCTGGGCACATGCCCCAGCCAATACTGCTTTCCATTTCTGCTCTGGTGCTAAATGGGGCACGTCTGACCTTTGCACTAAGAGCATTGAGGATTGTGCTCTTGGTGCCCTAATTTTGGAAAGAGATTAATTGGCTGGAGGACTCTTCATTTATTGATCGAATGAATGAGACTTGCAGACAGACAACAGCAAAGTGGTCTGTTTTTTATCAGATGCCTTAATTACAACTGCTACTGTTTTGCCTTCAG
Seq C2 exon
GTTTTGTACAGTGTTAGAATACTGTGAGGGAAACGATCTGGACTTCTACCTGAAACAGCACAAGTTAATGTCGGAGAAGGAGGCACGATCCATTATCATGCAGATTGTGAATGCTTTAAAATACTTAAATGAAATCAAACCTCCCATCATACACTATGACCTTAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000410:ENSGALT00000000559:15
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:
PF0006920=Pkinase=FE(10.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGCGTGTAGAGAGTACAGA
R:
TAAGGTCATAGTGTATGATGGGAGGT
Band lengths:
254-730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]