BtaINT0042273 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51886442-51886999:+
Coord C1 exon
chr22:51886442-51886504
Coord A exon
chr22:51886505-51886936
Coord C2 exon
chr22:51886937-51886999
Length
432 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GTGCCTCTTTCTGTTCCCAGGGT
3' ss Score
10.73
Exon sequences
Seq C1 exon
GGGGAGCCGGGTGTTCCAGGCCAGGCAGGGGCCCCTGGGAAGGAGGGCCTGATCGGTCCCAAG
Seq A exon
GTAAGGGGGTCCCTCCACAGTGGACAGTGGGGTTCAGGATTGGGCAGGGACAGCAAGATAAGGTCGTGAAGGTTTTGGGTCAAGGAAGGTTGGGATACTGTGGGGTGGAGTGGGGTTGGTCCTGAGGTTTCAGGGTGGGTTGGGGTCACAGTGGGGATTGTGGGGTAGGAGGCGGCGCAGTACATGCCTCAGGGCTGAGGGTTAGGGTGGTCGAGGTCAGGGGGAGGTTGGAGCGTCTGTGAAGGGGAAATGGGTGGGGCCAGGGTAGGGGGCATCACAGTAGGGTGGGGTCCTGGGAATCATGGTGGACTCAGGGTCTCTGGCTGGTAGGCCACAGGAACTCGAGGTGGTGGCCATGGGGCCTGCGGGCTCATGGGGGCTGAATTGGGGAGGCTGAGGCAAAGGGACTCTCGTGCCTCTTTCTGTTCCCAG
Seq C2 exon
GGTGACCGAGGTTTCGATGGGCAGCCAGGACCCAAGGGTGACCAGGGCGAGAAAGGGGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:108
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(25.3=100),PF0139113=Collagen=PU(19.4=61.9)
A:
NA
C2:
PF0139113=Collagen=PD(15.2=57.1),PF0139113=Collagen=FE(29.9=100),PF0139113=Collagen=PU(17.7=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]