GgaINT0126555 @ galGal3
Intron Retention
Gene
ENSGALG00000004645 | TBC1D13
Description
NA
Coordinates
chr17:5896336-5896728:+
Coord C1 exon
chr17:5896336-5896418
Coord A exon
chr17:5896419-5896568
Coord C2 exon
chr17:5896569-5896728
Length
150 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TCCTCCTGCATCCACCCCAGGAG
3' ss Score
7.71
Exon sequences
Seq C1 exon
CCCCTCAATCCAAACCCAGACAGCCGGTGGAATACTTACTTCAAAGACAACGAGGTGCTCCTCCAGATAGACAAAGACGTCAG
Seq A exon
GTGTGTATGGCATAACGACTCAGGTTTCTGAGTGCTTTGCTTTAATACTTTGTACTTTGAATATCGAGTTTAATATTAAACTGAGCTTCCTATGTAGCACGGGGCACGCACTTCCTTCTCACGCTTGATTTCCTCCTGCATCCACCCCAG
Seq C2 exon
GAGGCTGTACCCCGACATGGCATTCTTCCAGCGCCCGACCGACTACCCCTGCCTTCTAATCCTGGACCCCCAAAATGAGTTTGAGACGCTGCGTAAGCGGGTGGAGCAGACCACGCTGAAGTCCCAGACGGTGGCACGGAACCGCAGCGGGGTTACAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004645:ENSGALT00000007398:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.204
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCCCTCAATCCAAACCCAGAC
R:
ATTTGTAACCCCGCTGCGGT
Band lengths:
243-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]