BtaINT0041393 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015374 | COL22A1
Description
collagen, type XXII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22989]
Coordinates
chr14:5348291-5351026:+
Coord C1 exon
chr14:5348291-5348357
Coord A exon
chr14:5348358-5350843
Coord C2 exon
chr14:5350844-5351026
Length
2486 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTGTTTTTCTTACTCCACAGCCA
3' ss Score
10.55
Exon sequences
Seq C1 exon
GGCGAGTCTCCATCCATGGACATCCTGCGGCGGCTCATCCAAGAGGAACTGGAGAAACAGCTGGAAA
Seq A exon
GTGAGTCGCTGGCTTTTTCACAGCATCGGGTCCTAGATGCTCTGTAAGCCTGGGCGGTAGTCCGTTCACTTCTCCTTCGGGACCTCTGCAGCCTGGCTTGGTAAAGGCAGCCTCAGGGCGGCTCCTGCAGAAGTCAGCACAGAGGTGCACCTTGTAGGCTCCCTCCAGCCTCTTCTGACACAGATCCCGCTCCAAGGCGCTCTTTGGGGCCGCTTGAGCTATGGCTGCTTGATTACCTCCAGGAAGGGGAGCTCACCACCTACAGAACCAGCCTTGCCATGAGCACTTCTCTGTGCATTCAGTGGTTTATCTAATCAACAAGGAGCTCTGGCAGGCCTGCAATGGCTCTTGTAGAACTCACAGCCCAGAACAGGAGACAGAGGCACAGGCAAGATGACTTCGGTATAGTAAGAAAATGCCCGTGATTTAATGTGACACAGAGGACACAGAGGAGGACGGGGGAAGAAACTAAGATTTCAGAGAGGGTGGGGAGCAGGTGAGGGAAGGCTTCCTGGAGGAGGGGCCGTGGGAGCTGACACCAAGGACCAGACTCCAGACCTTAGACACAGCATGTGCAGAGACCCTAATGGGAGCTGGAACACACTGTGCTTTCAAGGAACTAGAATCCTTGTAATTCTCCTGTGTAGGATTCTTTGTGAAATCCCAGTCTTGCATGGGCCCCATACAGAGCAGGTGCTCAGGAAGGGAGGGGTGGGGAGGTAATAGTCATAGCACCAGTATGTAGGGCCAGCTCCACGTCAGGTGGAGTTCTCAGAACCCACACGTGTTTACTGACGTAAGGAAGCCTCTGTGAGCTCTTGAGCCATGGATGAGGGTTAAATCAGAGACGCTAAGTAACCTGCCCGAGGCTGCAGAGCTGGTGAGTGTCTAACCAGGCAGCCAGGCTGCAGAGTCCAGGCTCTTAGCCACTGCATCCTCTCCCATCTCATCTCCGCCTGCCCTCTGTGTTGGAAACTGTTAGGAGAAGAAAGTCACAAACCACTCTGGGCTAGGGAAGATCGGAAACCCACCACCATTACCAGGCACGGGTGGGCAAAGGGGAAGGGCACATTAATTCACGTGGTCAGGTCTCAGACAGTGAAATATTCCTCCTGGCACATTCGAGACTCTGCACTGGGTCTGTGGATGCAGCACAGAACACAATGACTGTCTCAATGCCCTTGTGGGGTATCCAGGCGAGTGAGTGTGGTCCGTCTTCCCTGCCCAGGAGAACCAGAGACCGTTCCCTGGAGAGGACAGCACAGAGCTGGGCTGGTGGTAAGGAGGGTGAAGAAAGGAAGGATACCAGAGGCTGGAATGGTGACTCCCCCTGGGCGGGGCAGTCCTGAGGTCGCCCGTGTGTGAGCATCCCCATCTACAGCCTTTCTTCTGGATGTTAGATTTATCGGGCACACGAGGAGTTTCCAGCCCCTGGGCAGAGACGAGTCCTGTTTTGAATGAGTTCAGATGGAGCATCTGCTGAGCTGAATCCTTTCTTCTAAACAATCTTGGGAGGAGGAAGCATCAGAAGCATCTGCTCCACGTTCAAGATGAGAGTGTCCTGGCTGTGAGCCGAACAGCTGTGTGCCCCGGTCTCCGGCGCACGCCCCTCCCGCTTCCTCATGTGGGAGGGTGGGGAAGGGGCTACTCGGAAGCTCCCCCGCCAGGCTGTCAGAGACCTGATTCTGCTTTGGTTTTACCACTGAGACCCAGGAGGGCATCAGGACTGCCTCTCTGGGCTGGTCACTCCCCATTGCCAGGTGAAGGGCATGGCCTGATCGTCTGGAAAACACAGGAAGAGCCCCTGGTGGCCCTGGGGTGGGCTGTGTATGCCCCGTGCAGTAGGAAGGCATGGAGGCCAGCGGCTGGACCTCTGGGTTTGGAATCAGCCTGTGATCTTTAACATTTCACACACCTAAGAATCATTAATGACATCGCGTCCAGCCCTTCATTTATAGATGAGGAATTCCACGCTTAGGAGAAGTCCCTAAGTTGCTCTGTGTAAGCCACTGAAGTCTCACCCTCCCCCACTGGCCTCAGTTTCCCCAGCCTGAGAGTTGCAACAGTTTCTGCTGCTGCTGTCATTGCCGCCTCGAGGGGAACAGCGACATCCACGCACCACTTGGATCTCGTGCCGGGGGCTGTCATGATGCCTCGTCTCATTGGTTCCATCTTCCACCAGCCCAGTGGGGTTGGACTTATTTCATTGCCCCCGTTTTGCAGAAAAGGCAGCAAAGGCTAAGAGAGGTCAGGTGGCTTGCCCAGGGCCATGCCACCAGCAGTGGTGGCACTGGGACCACAGCCCAGCTGCCTGGCTCCGGAGCAGCGTCCACACGGACACGCGCCCTGCAGCGCGCTCTTGGTGTGTCTCTCTCGCTGCTATTCCCCAGCTCTTACTGCCTCGAGCTTTGCAGTGCGCTGCTGGCCCATCTTCAGTCCTTTATCCCTCCTTCATGAAACATCTCTCTGTTTTTCTTACTCCACAG
Seq C2 exon
CCAAACTCGCCTACCTCCTGGCCCAGATGCCCTCTGCACACACGAAGCCCTCTCAAGGCAGACCCGGACCCCCAGGGCCTCCTGGAAAAGATGGGCTTCCAGGTCGGGCAGGCCCCGTCGGGGAGCCAGGAAGGCCAGGGCAAGGGGGTCTGGAGGGACCCTCTGGCCCCATAGGTCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015374:ENSBTAT00000031507:61
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(8.2=21.7)
A:
NA
C2:
PF0139113=Collagen=PU(75.0=72.6)
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:
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