BtaINT0041395 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015374 | COL22A1
Description
collagen, type XXII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22989]
Coordinates
chr14:5353232-5353760:+
Coord C1 exon
chr14:5353232-5353309
Coord A exon
chr14:5353310-5353569
Coord C2 exon
chr14:5353570-5353760
Length
260 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCTTTTGCTCCTTGGTCCAGGTC
3' ss Score
9.2
Exon sequences
Seq C1 exon
GTGAGCGAGGAGCCAAAGGTGACCCAGGGGCACCTGGAGTTGGCCTCCGAGGCGAGATGGGACCCCCCGGGATCCCAG
Seq A exon
GTAGGAGTGGCTGGGCTGCAGTCTGGGGTAGGGGAGGGGCCGGGCCCCAGGGTGTCGGATGCAAAGAGCAGCCATCTGGCTGCACCATGTCCATGGGGACCATTCTCATCTCTCCAGGCAGGGCGCCCAGACCGTGGGGTGTTTGCTCTGAGCCTGTGGCATCCTCAGCTCACTTCTGAATGAAAATAGTGGCATCAGGGCTTGTGTGTGCTCCGGAAGGAACTTGAACCACCGTCTCTTTCTTTTGCTCCTTGGTCCAG
Seq C2 exon
GTCAGCCCGGGGAACCTGGCTATGCTAAAGATGGGCTTCCCGGGAGTCCCGGGCCTCAAGGAGAGACAGGACCAGCTGGACACCCCGGCCCCCCAGGTCCCCCCGGCCCCCCGGGCCAGTGCGACCCCTCACAGTGTGCCTACTTCGCCAGCCTTGCTGCTGCTCGACCTGGTAACGTGAAGGGCCCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015374:ENSBTAT00000031507:63
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(23.3=51.9),PF0139113=Collagen=PU(24.1=51.9)
A:
NA
C2:
PF0139113=Collagen=PD(74.1=67.2)
Main Inclusion Isoform:
NA
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:
GAGGAGCCAAAGGTGACCCAG
R:
CTAGGGGCCCTTCACGTTACC
Band lengths:
263-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development