DreINT0160159 @ danRer10
Intron Retention
Gene
ENSDARG00000079097 | tanc2a
Description
tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2a [Source:ZFIN;Acc:ZDB-GENE-060130-180]
Coordinates
chr3:22659079-22659808:+
Coord C1 exon
chr3:22659079-22659357
Coord A exon
chr3:22659358-22659476
Coord C2 exon
chr3:22659477-22659808
Length
119 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
ACACCAATGTTTTTATTTAGGTG
3' ss Score
9.05
Exon sequences
Seq C1 exon
GATGTGACTCGTCCATTGCCATTCCACCGTATCTCTCTGGATCGTCTGGAAGAAAGTGATGCAATTGATTCTGACCTGCAAGGCTACATCCTTCACCGGCTTCATGCCAGCCAGGAGATTCAGAACAATGTGGCACTCAATGGCAAGCTGGACAACACAGCCTTCACAAAACTTAGCGCTCATCTCAAGAGTCTGAGCCGGGGCTCCTACCTGTACCTAAAGCTCACGCTGGACCTCATTGAGAAGGGTTACCTTGTGCTCAAAAGCTCTAGCTACAAG
Seq A exon
GTCAGGGCTCAACAAAGTCAAACATTCATTTTAGATTGGTTCTGTGTTGAAATGGTATATAATGAATAAGCTTCTGGCATATATTTATTTTATTTTGTAACACCAATGTTTTTATTTAG
Seq C2 exon
GTGGTTCCAGTGAATCTGGCTGAGGTCTACTTGCTGCAGCTGAACATGCGTTTCCCAACTCAGTCATCATTCGAGCGTGTTCTTCCACTGCTAAACGTGGCTGTAGCTTCTCTGCACCCATTAACCGATGAGCAGGCCTATGGTGCCGTGAACGCTGGTATGATGCGTGGAGCATCCATGGAGTGGGAGGATTTCCAGCAGAGATCTGAGCTTCTGTCGCCATTTCTGGTGAAACGACGTGATGGAACCCGCATGTTCATCCACCCCTCTTTCAGAGAGTGGCTCATCTGGAGAGAGGATGGAGAGAAGACCAAGTTTCTCTGTGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079097:ENSDART00000112270:13
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTACATCCTTCACCGGCTTC
R:
GAAACGCATGTTCAGCTGCAG
Band lengths:
251-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]