Special

BtaINT0042369 @ bosTau6

Intron Retention

Gene
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51881974-51882617:+
Coord C1 exon
chr22:51881974-51882018
Coord A exon
chr22:51882019-51882581
Coord C2 exon
chr22:51882582-51882617
Length
563 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
CTTACTTCGTTTTCTCTCAGGGT
3' ss Score
9.59
Exon sequences
Seq C1 exon
GGTGAAGCTGGCCGTGCGGGGGAGCCTGGAGACCCTGGCGAAGAT
Seq A exon
GTGAGTCTGGGGTCCGGGCGAGTCCGAGTCCAGGTTGAGGAGTGTAGTCGTGCACGTGAGGGAACATTCCCGGGGCTGGGCACCTCTGAACTTGAGCCTGGCCGAACGTTCCAGCACTCGGGGTCCTGCTCCCGGAGCACACGGGGGTCGAATATCCTGGCTTGCACGTGCTCCTCCTAGGTCTCCCGGCCCTCTCTTGTGAGCACGCGTGCTCTGGTCTCCTCTCCTGGTCTCGGGGCCTGTGGGAGTTCTGTGGCCCCTCCTTGGTCATGTATTGGTGCTGCCCCTTCCCCCGCCCTGGCTCTGCTCCCATATCCGAGCTCCTGTCTGTGCTCATGTCGTGGTCATGTTTGTGGTCGTATCTGTGGTCATTGCTAAGCTCCCTGGACTGGGACACATCTGAGATCCCGCCTCTGTCTACACTCCCATGTACCTGCACTCACATCCCTGGTCCCAAATGCCTGTGGTCACCTCCAAGCTCCCCTGGGAATGTTTTGGGACCATACCTGAGCTCTGGGTTCGTGTTCCCGCTCTCAAGTGCTGCTTACTTCGTTTTCTCTCAG
Seq C2 exon
GGTCAGAAGGGGGCTCCGGGACCCAAAGGTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:91
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(26.4=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.8=100)


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]