BtaINT0041372 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015374 | COL22A1
Description
collagen, type XXII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22989]
Coordinates
chr14:5295879-5296842:+
Coord C1 exon
chr14:5295879-5295914
Coord A exon
chr14:5295915-5296788
Coord C2 exon
chr14:5296789-5296842
Length
874 bp
Sequences
Splice sites
5' ss Seq
CCGGTACAG
5' ss Score
5.65
3' ss Seq
GATGTCTTCTTTCTCTTCAGGGA
3' ss Score
11.63
Exon sequences
Seq C1 exon
GGCCCCTCTGGACCACCAGGAGAAAAAGGTCCTCCG
Seq A exon
GTACAGTATGACTTAAATACAGGGTTGTGTCTTGATGGGAGAAATTATGCGCTAATCAAAGCCATTTGAAGTTGGAGAGGCCAGCAAAGACAGTAGTTAAAAAACAACAACTTTAACGTTATACAGTGCAGACTCTCGAAGATACAGGCACTCACCTGTGGAATGGTGGAGTCGGGAGGAGGGTTGTCCAGTGCCCTGAGCTCCAGTGACAGCTGGGCAGACCGGCACTGCCTTTGCTTTTCGCCGCCTCTGCTTCCCTCTAGACGGACAGCTGTGGTTTCACGCATGTCATCACATTGCCAGAGGAAGTAATTTTGAATCCCAGCTTCACTGCCCCCAGCCACAGAGCCAGGAGCCAGTGAGGGTGCTCTTTTAATCTGTGAGGCAGGCGGGAAAGTCTAGGAAGATTCCTGCAGAAAGTGAGATCCGTAATTGAAAGATGATTTGGGCCGACTCCCAGTACCATCTAGAAATTGTCAGCCAGGTGGCAACGACTTTCCAATAAAAATATCTAGCAGTCACCTGAGCGCCGGCCTCCGCACTGGTCCTCTCACAGGTCAGTGTGTCCAGCCAGCGGGCTCCTGAGGCTGGTAATCGACCCTGCACCCGGAGTGAGCTCAGGCCCGTCTCACTGCAGGAGTAAGAAGGGGGCTTGCGAAGGGGGCCTGGGCAGTCAGCCTCATGGGGAAGGTTTTCCAGAGCGTTCTATCTGTGTGTTGAAGACAGCCAGTCCTCAAGCCCTGGCTGCTCTCAGGTACCTCCGTTCCATCAGATTGGTCAGTGCGCCAGGCGATTGGACAAGGAGAACCAACCCCACGCAAGGGGGCCCTTGGTTTTTGTTTTAAGTGTTGGGGGATGTCTTCTTTCTCTTCAG
Seq C2 exon
GGATCTCGAGGCCCGCCTGGGTTTCCCGGCCCCCAGGGACCAGCTGGCCAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015374:ENSBTAT00000031507:41
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(19.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(29.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]
SPECIAL DATASETS
- Pre-implantation embryo development