DreINT0160548 @ danRer10
Intron Retention
Gene
ENSDARG00000073771 | tbc1d12b
Description
TBC1 domain family, member 12b [Source:ZFIN;Acc:ZDB-GENE-121214-108]
Coordinates
chr12:5396176-5396651:-
Coord C1 exon
chr12:5396523-5396651
Coord A exon
chr12:5396286-5396522
Coord C2 exon
chr12:5396176-5396285
Length
237 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTG
5' ss Score
4.41
3' ss Seq
TCTGTCTCTTTCTTATTCAGATG
3' ss Score
11.83
Exon sequences
Seq C1 exon
GTTCAGGGCATGTCCTTCATTGCTGCTGTGTTGATTCTCAATCTGGAGGAGGCCGATGCTTTCATCGCCTTCGCCAATCTCCTCAACAAACCCTGTCAGATGGCTTTCTTCAGAGTGGACCACGAGCTG
Seq A exon
GTACTGAGCCTCCCGTTATTTACACTTTACACAATGTGACAAAATATTCCCCCGTTCAAAATAAGCCTAGTGTTTGCTTCAAAACTCAATCACCAAACTATTTTGCACCTCAATAAATATTTATAAAGTTTACCTCTGTCTCAGTTGCTTGTGGGGATTTTCCCTCTTGCAGCTTCAGAATAAATTACAAAGTTCCAATGTTTTGTGTCTTGTGAATTCTGTCTCTTTCTTATTCAG
Seq C2 exon
ATGCTGAAGTACTTTGCAGCGTTTGAGGTGTTTTTTGAGGAAAACCTGCCCAGACTGTTTAATCACTTCAAGAGTTACAACCTCACGCCTGACCTGTATCTGATAGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073771:ENSDART00000109305:12
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:
PF0056613=RabGAP-TBC=FE(18.7=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(16.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGGCATGTCCTTCATTGC
R:
AGTCTATCAGATACAGGTCAGGCG
Band lengths:
236-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]