DreINT0049154 @ danRer10
Intron Retention
Gene
ENSDARG00000005762 | col14a1a
Description
collagen, type XIV, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9889]
Coordinates
chr16:15118154-15118944:+
Coord C1 exon
chr16:15118154-15118207
Coord A exon
chr16:15118208-15118848
Coord C2 exon
chr16:15118849-15118944
Length
641 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAC
5' ss Score
5.88
3' ss Seq
GTACTCACTTTATGTTCAAGGGA
3' ss Score
5.87
Exon sequences
Seq C1 exon
GGCGGTCCTGGTATCAGAGGTTCAAGAGGAGATCGGGGGGAGCCAGGCCTGACG
Seq A exon
GTAAACTACACATACTTTACCATATGTGTCGCGTATCTCATATGTAGGACCACCCAGAGTTGTCATGATTTCCTGAATAGACAAACGCTCAAAATGTGGAAATCTATAAATAAACACAATGCATGTGCCTCCATGTTGTTTTTGGAATGTGCAAGTGAGTAAATCTCACCCTCTCTCGTTCTGCTTTTTCTGAGAGCTTGCTTTGTTTATTTGTGGCTCTCCATCCAACTCTAGTTTCCTCTACAGAAAAGTCCCTCCAGATGTGTGCACGCATGTGTGTGTGTGTGTGTATGAGAGTGTGTGCTTGTGTGTGTTTGCATGGAAGTCTAAATAAAGCTGAAGCAGACATCATTTCATTTCACGCTCCAAGAATTCATGTAAACTTGGTCCAAATGACCATGGCTAAGAAGTTTGTCACAAGCTAGACTGTGACGAGTGTCTTTTGCTTCCTTGATTATTGCATCCCTGATGGAGAAGGAGACTGCAGGGCATTCACACTTTGTTTCAGCAGCTCGGCTGGTGGTAGGCCTTAAATGTTACGTAATTATATTGAGGGAATTAAAGCCGGCAATGAAACTGTGATGATTTTGTAATGCGGTTATTAAGCATCATTAAGATAATGTACTCACTTTATGTTCAAG
Seq C2 exon
GGATCTCAAGGACTGCCTGGGGAGATCGGACCACCTGGACCACAAGGGCCTCCGGGTCCTCAGGGACCAAATGGGCTGTCCATTCAAGGGCCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005762:ENSDART00000134087:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.926 A=NA C2=0.691
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(29.8=100)
A:
NA
C2:
PF0139113=Collagen=PD(47.4=84.4),PF0139113=Collagen=PU(8.5=15.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
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]