GgaINT0043075 @ galGal3
Intron Retention
Gene
ENSGALG00000004286 | COL13A1
Description
NA
Coordinates
chr6:12134729-12135597:+
Coord C1 exon
chr6:12134729-12134782
Coord A exon
chr6:12134783-12135555
Coord C2 exon
chr6:12135556-12135597
Length
773 bp
Sequences
Splice sites
5' ss Seq
TCGGTAGGT
5' ss Score
9.09
3' ss Seq
TATCTTGCATTGCTTTCTAGATG
3' ss Score
8.8
Exon sequences
Seq C1 exon
GGAGAGAAGGGTCAGCCTGGGGAGCGTGGAGACAAAGGAAATCCAGGAGAATCG
Seq A exon
GTAGGTCACCTGTCTCATTTCCTTTCTGCAGTAGGGGAGGGATGGCTTTGGCAGCAGTGTTGCTGAAGGCCAGCACATCCCACCCTCTTATGATACATCCCACAAACTTATCTTGTGGGACTGAATTGCCAGAATTGCTGGCCATCTTTAGCTCCTGATGCCCTACTTTTCTTCTACATAAGAACAATCTAGCTCACGAGCAATCAATAATGAGTGCCCAAGGAAGAACAGAAGACAATGGGAAGCATAACAATTACTTTCCTCAACATTTGTGGGGAAGGATTTAAAAAAAAAAAAAAAATTACCTGCCTGGACCTAGATATTTTCAATAGATGAAAATGAATTTGCCCCTTCTCTCCTCAAAGCTCACTGAACTTCCATAATGCCCTGCAGTGAGGAGTCCCTGAGGCTATCGGTACTCGTGTGTATAGAGCCAGCTACCTTCCTTCCTATGCTTTGAAACAGCCAGCTGCAGTAACAGTGGGAGACTAGCGGAAGTGTATTTTTTTTTTTTCTGTAAAAATATCACTGCTTTCCTTTCTCCTAAATCTCTGCAACTGCTGCAATAACTCTTTCCAGCATCCTGCTTCTGCTGCTTGGCCACTATGTCCTGGATCGCTGTCGCTTCTGAATGCAGTCCTCTGGGACAGTCCAGGTTTCCAAGCCTGGCGGAGCTCGGCTGCTCCACGTGCCCTGTCTCCCCCCATGAGCAGTTCCCCTTCACACGCTGAGGCCAGCAGCTTGACACTGACTTATCTTGCATTGCTTTCTAG
Seq C2 exon
ATGTCTGGTCCCCCTGGACCTCAAGGCCCACCAGGACCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286:ENSGALT00000006816:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(15.5=100),PF0139113=Collagen=FE(18.6=100),PF0139113=Collagen=PU(2.4=14.3)
A:
NA
C2:
PF0139113=Collagen=FE(15.5=100),PF0139113=Collagen=FE(18.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]