BtaINT0041197 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020991 | COL19A1
Description
collagen, type XIX, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2196]
Coordinates
chr9:9439789-9440659:+
Coord C1 exon
chr9:9439789-9439878
Coord A exon
chr9:9439879-9440614
Coord C2 exon
chr9:9440615-9440659
Length
736 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
ATTTTCTTTTCTTTCTTTAGGGA
3' ss Score
12.12
Exon sequences
Seq C1 exon
GGAGACCCAGGTGGGATTACAGGCCCTCCTGGACTTCCAGGTCCAAAAGGTGAGGCTGGTCCTCCAGGAAAAAGCCTGCCAGGGGAACCA
Seq A exon
GTAAGTAGTAACCTTTTTGCTGATATTTCCTTTGAAAGTTGATGAATCACTGTTTGTGTACTCCCTGTTTCTGATCACAGGTATAGCAATAAGTTTAGGTCTGCAGAAAAAAGAAGCATTCATCTTATTCTTTAGATCAGAGGTCTAATCTTTTTGGAAATTTGATACAAAGGCCTCTCTTCTGAAGACAATGCACATACACATACCATTTTACATACAATTTTGGAAGATTTATAGCCCCACCCCACCCCCTGAATCTTCTTTAGGGATCGAAGAAGCCTAGTAAAGTATGCTAGTTTTAAAACATGAACCTTCCTTGGACAGTCTTAAACAAACTGCTTGAAATTTCCCTTCTAGAGGCTCTGCATATGTGGCACGTCATCTATTAAAAAAAAAAAAGTCCTTGTGGCTTGGGCTAATCCCAGGACATTTTATGGAAAATCTAAACCATATGCTTATTTCATGTGCCTTTTTTTCCTCATCCCCTTTGACCTTTTATATAATAATAATAAAGTTCTCAATATCAGATGCCTCATTTTAAAGATGAAAACATCTTATATTTTAAAGTAACTATACAAAATTTATAACCTAGTAAAATGTGTATTCTTTTACAAAAAAAGGTTTATGCAAAAAAGATGAGGAGCAATGAAATATTTTTGAGTTATAACTTCTTAAGTGTAAGTAAACTTTTTAGAAAAAGAAAATATATTAACCTCATTTTCTTTTCTTTCTTTAG
Seq C2 exon
GGATTAGATGGAAGTCCTGGGGCACCTGGTCCACGAGGGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020991:ENSBTAT00000027953:4
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=PD(6.9=13.3),PF0139113=Collagen=FE(31.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(15.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]