BtaINT0042279 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51887777-51888504:+
Coord C1 exon
chr22:51887777-51887825
Coord A exon
chr22:51887826-51888471
Coord C2 exon
chr22:51888472-51888504
Length
646 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CCCTTCTCTGCCCTCTCCAGCCT
3' ss Score
8.6
Exon sequences
Seq C1 exon
GAGGATGACATTCGGGGCCTTGTGCGTCAGGAGATGAGTCAACATTGCG
Seq A exon
GTGAGTGGGGTCCAGCCTGGAGTCTCCTGGGTCCCATCCCCACTGCATCCCCGCACCCCTAGACAGAGGCAGGCAGCACCCCCAGAATGTCCAGGGGGCAAGCAGTCAGGGAGGTGGGTGGAGACAGATGGATACACAAAGTATGGGTGTTTCAGGACAGACATGCTTACCCTAAGTGGAGACGCGGGCAGAGGTGGGCACACACGTGCTTCTGTGCCCAGGATGGCCGTGTGTGGAGGGGAGGAGGTGTGAGCAGAGCCGGCTCCTCAAGCCAGATATGGCGCCGGGGTACAGGGCGGGGGCTCTGACGGCCCTGGGGGGCATCAGAGTGAAGCTCATCTCCTTCCTCCTCTGCCTTCTCCCTGTCCTTCTCCATTCCTGCCGGCTCCTGACCCTTTGCCTCTCTCCTTCTCTCACCTTTGGCTGGCCTGTTCCCCTCTTCTCTCTCGCCCTTGGTCCACTTCTCCCCCTTGGTCTCTTTCTCTCCTTGTGTCTGCTTCCCTTCCTCTCCCCCGCCGTCTGTCACTCTCTCCGTCCCCTCCGTATGTCTCTGCCCCCCGTGAGCCTCTCTCCCTGCCTCTTTCCGCCTCTGTCTCCTGTTCTCTGTTATTGTCTCTCTCCCTGGCCCCTTCTCTGCCCTCTCCAG
Seq C2 exon
CCTGTCAGGGCCAGTATATCGCATCTGGATCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:113
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.706 A=NA C2=0.583
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(0.1=0.0)
A:
NA
C2:
NO
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]