DreINT0160535 @ danRer10
Intron Retention
Gene
ENSDARG00000038237 | tbc1d12a
Description
TBC1 domain family, member 12a [Source:ZFIN;Acc:ZDB-GENE-030131-3920]
Coordinates
chr17:23217431-23218467:-
Coord C1 exon
chr17:23218358-23218467
Coord A exon
chr17:23217690-23218357
Coord C2 exon
chr17:23217431-23217689
Length
668 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAT
5' ss Score
6.06
3' ss Seq
TCTGTTCACTCTGTTCTCAGGAT
3' ss Score
10.93
Exon sequences
Seq C1 exon
ATGCTGAAGTATTTTGCAGCGTTTGAGGTGTTTTTTGAGGAGAACCTTCCCAGACTTTTCCAGCACTTTCAGAACAACAGCTTGACGCCTGACTTTTACCTCATAGACTG
Seq A exon
GTAAATCAGCTTTAAAATCTCTCTTCCTGCTGTGTTTACTCGTTTTTCTTCTCTCTGTGTTGCTTTTCCTTGTTTTGAAATGGGAGAGCAGAGGTTGCAATGTTTTCCTAACGCAACTCTTTATCGCCCCCTAGGGCTGCTTTTATGTTTTGTCAAACGAGAGAAATTTTTTTTCATATTTCCTCTAGAAAAGTCAGCTTGAAACAAGTCTAGGGTGGTTAAGTGTAGAATTAGTGTCAAGCTTTTACAACGTAATGTACATATTTCCTTCTTCCATTTATTTAATAGAAGCATATATTTGAAAAGCACTGTTGTTAGTCCACCTGTAAATTTTCTTCTTCAAATTTTTTTCTTCAAATATTTCCCAAATGCTGTTTAATTAAAACACATTTTTTTTTGCATAATAGTTTTAAACTAAATAGTAAAAAAAAAATAGTAGGACTGTGAAACATAGCTGCATTATTACAATTATTATGAGAAATGATAATATTATGAACAATTGTATTTTGTTGACTCTTAAAAGACAAACGTGAATTAAAAACTGATTGTGTTTATTAGAACTTTTAGCAGCTGCCGTATTTAATTACGTTTCCATCTTCACACATCCAGAGCAGCTGATCGGAGGAGGTTTTGCTAGTCTTTGACAGCTCTGTTCACTCTGTTCTCAG
Seq C2 exon
GATCTTCACTCTGTACAGTAAGTCTTTACCGCTAGACGTGGCGTGTCGTGTTTGGGATGTGTTTTGTCGAGACGGAGAGGAGGCGTTATTCCGGACGGGATTGGGGATCCTGCGGTTGTACCAGGATGTTTTGCTGCAGATGGATTTCATTCATAGTGCGCAGTTTCTTTCCCGGTTGCCTGAAAACACTCCTGCACACACACTCTTCTCCTGCATCGCAAACACACAGATGATCAGCAACAACCGCCGCTGGAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038237:ENSDART00000055756:11
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(15.8=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=PD(19.7=51.7)
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:
TGCAGCGTTTGAGGTGTTTTT
R:
GGCGGTTGTTGCTGATCATCT
Band lengths:
344-1012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]