GgaINT0143523 @ galGal3
Intron Retention
Gene
ENSGALG00000000410 | TLK2
Description
NA
Coordinates
chr27:2288680-2290394:+
Coord C1 exon
chr27:2288680-2288816
Coord A exon
chr27:2288817-2290241
Coord C2 exon
chr27:2290242-2290394
Length
1425 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
TTCTACCCTCATCTTTCCAGGCA
3' ss Score
8.61
Exon sequences
Seq C1 exon
TCAAAACAGGAGAAGATGGCGTGCAGAGATAAGAGCATGCAGGATCGATTGAGGCTAGGTCACTTCACTACGGTGCGGCATGGGGCGTCCTTCACCGAGCAGTGGACAGATGGCTATGCCTTCCAGAACCTCATCAA
Seq A exon
GTGAGGACAGTTTTCTTTACCTTCTGAGGCAGAGAAGGAAAAACTAAGCAGTTGTGTGTGATGTCTTGCATGTCAAAATGTGAGAACGGTGTGACTGGTGCATGAAAGGATCAGACAGGGACTCAGCTACAGACAGTGAGGAATCTTTTAGCTCTGAAGTAAGAAATATGCTTCCACTTAACTCCAGAGACTTAAAACTGGAGGCAAATTGTTTGAATTGGCTTCTGGATTGGAAAGAAGCAGACTGCTGTGTTAGGTGTTCTCATTGCACCTGTCTGGCTGAGCAAGGCATAGAGTGGGGGGAGAGGGAGGTCAGATACTCTCGTGTGTCCTGAGTCAATCAGTTTGGTTTGCCTATCTGCTTATATTCCTCCAGGAAAGTTGCTTATCTTCCCCTCCCCCTTTTCTACCTTCTAACTTTAAAAGAAAAAAAAAAAGCTTAAAAAAGAAAATCTATGCTATTTAACTTCTTTTGCCTCCTGGTAACTGTGATCAAAGTAGCTGCATAAACCTGGAAATGAAGATCAGAGACCCTTTTATGCAGGATGTTAATGGAAAGAGCCAGTAAATTCCCACCTGGCCTCGACCTTTAAGTAGGACTTGGCAAATTAATTGCATAGAGAGAGCTGTGTATAATCCATTAAAATCATCTTATTTTTCTATGGTCTGATAGGAGGCACACATCTTGTTAGATGCAGATTGTGAACTTGATAATATTCTCCTTAGTTTGTGCTATAAGACATGGAAGAAATGCTTCTGGTATCCTTACCTGCAATCTCAGTCTATTTTAAAATGTGAATTAGGCATCTAAATTCATAAGTCATTTAGGTTTGTAATTCCATAAATGCTTTTATCACTATAAAATAACAAGGCAGCTTTGTGATGGTCTCTCCTCTGAAACAGAAAGACTGTTTTCTTCATGAAATTGAGGATGGTGTTGGTTATGCTTCAGAAAACTAAGCATAGCTGGACTGTAGCCTTAAAGCATAGGGATACTTTCTCAGACAGTGCCAGACTTCAGGAACAGTTCAAACAGGAAAGTCTAGGATTTAGAACAGAGTATTCTAGGAAAAAAGTGTGTGGAAACTTAGTGACTTACCATAGATCCCTGGGTTTTCCATGAGGTTAGCAACTCCTTGGTTTTGGATATCCTCTGCATGAATAAAACCTTTCACTTACTGAAAGGTTTCTGTGGGCTGGGAAAAGAATCCACTTCTATGTGAAAAATACCTTGGAAAAAAAAAAATCTGAGTCAATGTTTGGCACATCCTCCCTTTCTGAACAAGAGTATTTTGTTGGTAATCTAAGAGTACAGCTGATTGGAATTCATTGCTGAAGTCTGTTAAAAGCAGATGCTGAGGACGACTGAGTGCATTCCATTAGTTATCTGCTTTGTGTGTTTTTTTTCTACCCTCATCTTTCCAG
Seq C2 exon
GCAACAGGAAAGGATAAATTCCCAGCGGGAAGAAATAGAAAGGCAACGAAAGATGTTAGCAAAACGGAAGCCACCTGCAATGGGACAGACCCCCCCAGCAAGCAATGAGCAGAAGCAGCGCAAGAACAAGACCAACGGAGCAGAAAATGAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000410:ENSGALT00000000559:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.962
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AAACAGGAGAAGATGGCGTGC
R:
GTTTCATTTTCTGCTCCGTTGGT
Band lengths:
287-1712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]