BtaINT0041178 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020991 | COL19A1
Description
collagen, type XIX, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2196]
Coordinates
chr9:9432345-9433285:+
Coord C1 exon
chr9:9432345-9432395
Coord A exon
chr9:9432396-9433231
Coord C2 exon
chr9:9433232-9433285
Length
836 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
TATATTGCCTTCTATTTTAGGGT
3' ss Score
11.28
Exon sequences
Seq C1 exon
GAGCCTGGAGATCCTGGTCCACCTGGTGTAATTGGAAGCCCAGGACTAAAG
Seq A exon
GTACATAAGAAATCACTCAGGGAAATGTGGAAGTTGTTTTGAAGGTATAGCCATTTCTGTGTAAAACAAGGAGCTCTGATGTACCACTCATTTTCATCACAAATGTTGTCAGGGATTTTATCATGTTTTCATAGCGATTCCCCCCACAGACACACTCCCGTATCGGCTGCATTTATTACACACATGGTGCCTCTGTCTTTTGGATCACAATAGGATATTTAAGTACTTTTCAGACCATATTTACGGTACCATCCCTGAAAGCTTTAAGAGTAAAAAATATGAGCCACATCTACGACCCTGTTTCCTTAAAGAGAACAGGATTTATTTCCCAAGCCCAAATTCTGCAGCCCACAGGCACTTGAGTTTCCCACACAGAATTCTATAGGACTGTCCCAAAGGAGACCCACTGCTAGGAGGCACTAGAAGGATCCATGTAATGTGCCCGACCCATGTGTATGGCAGGTTATCCAGACTCACCTGCTGGTAAGAACATGCATGTGTGCTCAGCCGCTAAGCCATGTCCGACTCTTTGAGACCCCATGGGCTGTAGCCCACCAGGCTCCTCTGTCCATGGGATTTTCCAGGCAAGAATACTGGAAAGGATTGCCATTTCCTCCTCCAGGGGAATCTTCCCAACCTAGGCATCAAACCTGCGTGAGAGCAGACTCATTTGAATGAAAATATCTTGAAACTGTAAGCCCATAGCACATTTCAGTGTTACACAGAGGAGCCTGGATACTTTTTCTATAGATAAAGGTCACAGCATGTTTTACATATATTCAGGTACAGACTATATTTTTAGCACAAGTAAAGTATTATATTGCCTTCTATTTTAG
Seq C2 exon
GGTCAGCAAGGACCTGCAGGCTCTGTGGGACCCAGAGGACCACCAGGAGATATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020991:ENSBTAT00000027953:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(27.6=94.1)
A:
NA
C2:
PF0139113=Collagen=FE(29.3=100),PF0139113=Collagen=PU(8.7=44.4)
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]