DreINT0050243 @ danRer10
Intron Retention
Gene
ENSDARG00000079752 | col6a6
Description
collagen, type VI, alpha 6 [Source:ZFIN;Acc:ZDB-GENE-041111-303]
Coordinates
chr16:36745426-36746607:+
Coord C1 exon
chr16:36745426-36745470
Coord A exon
chr16:36745471-36746553
Coord C2 exon
chr16:36746554-36746607
Length
1083 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
TTACTTTTTGAAATTTTCAGGGT
3' ss Score
8.84
Exon sequences
Seq C1 exon
GGAGAAGAGGGAGATAATGGATTAGATGGGGTTGATGGTGAACAG
Seq A exon
GTACCTAATAAAATTATGATGCACTTCTAACATTCAGTGAGTAATCTAGGGTCAATGGATAGATGTAATGCACACTGAATTAAAACATATAATAAATATACAGTTAAAGTCAGAATTATTGACCCCCTTTGTTTTTTTTCCTCCTTTTTTAAATATTTCCAAAATGATGTTTAACAGAGCAAGGAAATTTCATGGCATGTCTAATAATTACTTATTTGTTTTATCTCGGCTAGAATAAAAGCAGTTTGTAATTTTTTTAACACTATTTTGAGGACAAAATCATTAGCCCCTTTAAGCTATATTATTTTTTGATAGTCCACAGAACAAACCATCGTTATACAATAACTTGCCTAATTACCCTAACCTGCCTAGTTAACATAATTAACCTAGTTAAGCCTTTAAATGTTACTTTAAGCTGTAAAAAAGTATTGAAAAATATCTAGTAAAATATTATTTACTGTCATCATGGCAAAGATAAAATAAATCAGTTATTAGAGATGAATTATTAAAAATATTATGTTTAGAAATGTGTTGAAAAAAATCTTCTCTCCGTTAAACAGAAATTTGGGAAAAAAATAAACGGGGGCTAATAATTCAGAGGGGCTAATAATTCTGAATTCAACTGTATATATGTACAGAATGTTTTAAATGGTTGCAGCTAAAGCATAAACATCAATACCCTACATTGTAAAAAATATCTTAACAGGTTCCATATTTTGTGATTCACTCATGTTTTCTGCTTATTTACTGTTGTGATTTGCCTTTTGGGGCCTTGATCTCTGCTCTGTCAACTTTTGATGTTGAAAATTAAACTCTACAGTTTAACAAAGTGACTTTTATTAGCATTTAGTAGCTTAAAATAATATAATGTATAAAAAATATTATATAGAGAAGTAAGTCTGTAAAATAAAAAGGTTTTGCAAGGTTTATGCAGGATTTTTGTGTTATATACAACACCAACCCAGAAACTATGTCACTTTAAATTATTAAAGATGTTAAAAAACGTCACTTTTTTAACTTTTCAAGGATAAAAATTTTTGGAAGAAAGATCATGCCTTGCATTTTACTTTTTGAAATTTTCAG
Seq C2 exon
GGTAAAACTGGAGCACCGGGAAGTCCAGGAGAGCGAGGAGATCCAGGCAATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079752:ENSDART00000109703:15
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(22.2=100)
A:
NA
C2:
PF0139113=Collagen=FE(27.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]