Special

BtaINT0042346 @ bosTau6

Intron Retention

Gene
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51877894-51878298:+
Coord C1 exon
chr22:51877894-51877941
Coord A exon
chr22:51877942-51878262
Coord C2 exon
chr22:51878263-51878298
Length
321 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CATCCAGTTTGTGTCCCCAGAAT
3' ss Score
7.51
Exon sequences
Seq C1 exon
GGCCTCCCAGGAGAGCGTGGCCTGAGAGGAGAGCCTGGGAGCCTGGTG
Seq A exon
GTGAGTGAAGCCTGGGACATGGTCCTTGACTGTTCCACGCATGTCTGTGGGCCGCCTCCGCCCCCTTCCGCTTGCAGCCACAGGTGCTGTCCTATATGCTAGGGCCCCTGCCCTGTTGGGATTCCTGTGGGCTACATGGACGGGAACCTGGGTGATGGGACATGCCAGGGAGGGGCTTCCAGTGGCCTCCAGTCACCCCAGCCAAGGGCTAAAGGGTCCTCTAGGCAGGAAGCCAGGGGACGAGGGTATAGAGGCTGTTTTGGGGGGCAATGTGGGGCCTTTTCTTCTGTGGGCATCCCCTCATCCAGTTTGTGTCCCCAG
Seq C2 exon
AATGCAGAGCGGTTGCTGGAAAATATTGGCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:70
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(25.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(0.1=0.0)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
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]