DreINT0160541 @ danRer10
Intron Retention
Gene
ENSDARG00000038237 | tbc1d12a
Description
TBC1 domain family, member 12a [Source:ZFIN;Acc:ZDB-GENE-030131-3920]
Coordinates
chr17:23223169-23223535:-
Coord C1 exon
chr17:23223429-23223535
Coord A exon
chr17:23223250-23223428
Coord C2 exon
chr17:23223169-23223249
Length
179 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TTGTGTTTTGTGTGTTTTAGAAC
3' ss Score
11.66
Exon sequences
Seq C1 exon
GCGTAACACTCGGCGGGTACGCGACCTTTGGTGGCAGGGCGTTCCTCCCAGCGTCCGAGGAAAGGTCTGGTGCCTCGCCATCGGGAATGAACTCAACATCACTCCAG
Seq A exon
GTAAACATGACAGCTGCTGCACTATTCACATTTGCTTTTTCTTGATCATCTGTGGCCATCTGGCTCAGTGTAACATCAGTCTGACGAATCATACAAACACAGATTGTGTCCAGATGAACTGTGTTGACACTGAAGCAGCTGTTGTGTTTGTCACGGCTGTTGTGTTTTGTGTGTTTTAG
Seq C2 exon
AACTGTATGAGATCTTCCTGTCCAGAGCCAAAGAGAAGTGGAGGAGCTTCAGTGAGACCAGTTCAGTCAATGAAAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038237:ENSDART00000055756:6
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=PU(8.8=54.1)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(11.8=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:
CGTAACACTCGGCGGGTAC
R:
TTCATTTTCATTGACTGAACTGGTCT
Band lengths:
186-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]