GgaINT0126559 @ galGal3
Intron Retention
Gene
ENSGALG00000004645 | TBC1D13
Description
NA
Coordinates
chr17:5899859-5900311:+
Coord C1 exon
chr17:5899859-5900019
Coord A exon
chr17:5900020-5900253
Coord C2 exon
chr17:5900254-5900311
Length
234 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
GAGTCATTTCCATCTTTCAGACT
3' ss Score
6.83
Exon sequences
Seq C1 exon
CAAGAGCAGAACATCAAACCCCAGTTCTTCGCCTTCCGCTGGCTGACACTGCTCTTGTCCCAAGAGTTCCTGCTGCCAGATGTCATCCGGATCTGGGACTCCCTCTTTGCTGACGATAAACGCTTCGATTTCCTGCTGTTGGTGTGTTGTGCCATGCTGAC
Seq A exon
GTAAGTATGGAAACGGCCACTGTGCTCTTTCCTTTCCCTCCTCTAATGAAACCCATAGGCCTAGGAACCTTCTATAGGCGTGTGTTAATGCACCTGATGAATAGGCCACAGGCATTTGTCACAGTGCTAAGTGGAGGTGTTCTCAGAAATCTCCATAAAGGCACATTGAAGTCCATTTTTTTGAAGTTCCTCTGTAAAGAGCTGAGAGTAGCTGGAGTCATTTCCATCTTTCAG
Seq C2 exon
ACTAATCCGGGATCAGTTGCTGGAAGGAGACTTCACTCTCAACATGAGGCTGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004645:ENSGALT00000007398:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=FE(32.3=100),PF038478=TFIID_20kDa=PD(8.0=7.4)
A:
NA
C2:
PF0056613=RabGAP-TBC=PD(4.3=35.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGAACATCAAACCCCAGT
R:
CTGTAGCAGCCTCATGTTGAG
Band lengths:
215-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]