BtaINT0040765 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000601 | COL11A2
Description
collagen, type XI, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr23:7315874-7318840:-
Coord C1 exon
chr23:7318759-7318840
Coord A exon
chr23:7316024-7318758
Coord C2 exon
chr23:7315874-7316023
Length
2735 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ACCCTCACAAACTCTCCCAGGCA
3' ss Score
5.04
Exon sequences
Seq C1 exon
ATGGAGCGGTGCAGCCGCTGCCATCACCTCCTGCTGCTGGTGCTGCTATTGCTGTGGCTGAGCGCCGCCCCCGCCTGGGCAG
Seq A exon
GTAAGCGGAGTCCCAACGCCTGGGTCGTCGGAATCAGGCTGGAGGTCCGCATGTCCTCGGGACAGGGGACAGCGGATATGTAGGGACGAGGGGGGACGCTTCTGGGTCTGAGAATGGGATTTGGGGCGGTCAAGGGTCCAGGCTGGAGGGCAGGACACCTGGGTCCCTTGGAGCCAGAATGGAGATTTGTTTTCCTCTCTGAAGTGACCAGGGGAGGGCAGGTAAGGCTGAATGGTGGAGGGTCACTGAGTGGGGCTGGATGCTGGGGTCCTCCAGCAGGGCCAGTGTGGTCCAGCCAGGTGCTGGAGTCAGGGGCAGATGCGAGTGTTGATGGATGGGAGGTGCATGTCTGTCTTCTTCCTGCCCACATCTGTGGGGTGTGAGGGCGAGCATCCTTGGATAGGAGCAGAGCCCGGTAGGTAGAGAAAGAAGGGGTACCTGGACTGTTTGTCTCACTGGTTCCCCCGACAGGATCCCCTTCCCCCTCCGTGCCCTCGATCCTGCCACGCGGCTGGCTCTGGGGAGCCGTGGGGCTGACTGCCAACAGGACGGCCGCTGGACAGGCCAGGATCAGGTGTCTGAGGCGGGAGCCAACGCTCTGCATTCCTGCCCTGCCCCTCCCCCTCTGCCCAGCCGGGCTCCCCTGGGACTCTGGCCTCCACAATCCCAACCTTTTCCTTCTTTTCCCCGGGATCCAGAAGTCCTGGCTCTGGGGAAAGGGGGTTTGACGTCGGAGAGGAGGAGGCTGAGAGTACCTGGGTACTAGGCAGGCTGGAGTAAGCCCCCCCACCGCAAACCCTGGAGACTGATTGGCATATAACTTGACTATTTATTTCTTCTGGTCAGAAAAGCAGCATCAAGGATTTAGATTAGATTTCGGAAGGAAGAACTTTCAAGACAGGAGGAGCTCAGGGACAGAAAATTGAAGTACGGGATGTCTGTAGACCCTAGGAGTTTTTTTAAGAGAGAAAAGGGATCCTTTAACGTGGAGGCAGGGAGGTGGCTGAGATGACTCTCTCTTATTTGGGGGCTGAGTGGGTAGAGGTGGGACTCTGGAGGGAAGTGGGTTAGTGTGGAATTCATCAGAACTGGGCAGAGTGGTGGGGGTGATGGGGTCACCAGTGGGGAGATTGGGGCAGACTGAGGCCAGAGCCAGGGGGGCCCCTATGTGACATGAAGTAGGAAGCCGGGTGGGCAGACCTGTGGCTAGGCCGTCTATAGGGTTGAGCTGGACTCTCCTGGGGTTTGGTAGAGGGTGGGGGCCCCTGAGGTCTCCTTGGCCTGGGGTCTCTGTGAGTCTCTGTGTCTCTGTCTTACTTACCCTTCGTCTCTCAAAGCGGCCCTTGTGTGTTGATGTTTGCGGAGCTGCCACACGCGGGGGCCAGGCTAGGGCAGGGAGGTGGGAGGGGGCAAGGCCGTGGTTTCCCGGCTTCTGGACTCAAAGGGCCTTTTCTCTGCCTGCCCGCCCCACCTCACCCACCCCACCCAGCTCTGCGCTCCTGATCTCTCTGGCCCCTGCCCTGCCCCACACTTCTCTGAAAGTTTTGCTGGAACTTTCTTTGGTTTTCTTCCAATCTGGAACTGATGGTGTGAGCAGCGTGTGTTTGGGGGAGTGAGGGAGAAAGAGGTGACCTCTGTCTCCTGGGGAGTTTGAGCCCTCGGAAGCCGAGTTCTAGGTGGACAGGGCTGGTGGCCTGGCTCTAGAATCTTTGGGCCACGGGTGGCGGGGGTGGTAGGGCAGGGTCGAAGATCCAGGTGTGGGGAGCTTGCCCGGGTTTTGGGCAGAGGACTCTGATGGGATCTGCAGATGTGTGGCTCTGGGCCCTGGATCTGCTCCGGCTCTGCGTGGCAGCTTCAGGCTCCCCGTGTGCCCCCCCACCCCAGCCCATCTCCCCAGCCAGGGGCACAGGCTCCGGGGCTGGCTCCTTCTTGTATCTCCTTTCTCTGTGTGGTCGGAGTGGCCCCCGCCTCCCCCAAACACGGGGCCTGCAGCAGCTTGACGCCCCCTCTCCATAGAGCTGCCTGTCTACCCCCTCCCTGGTGGCCCCCAGCCCCTCCCGTGCCCAGGATGATGGCTTGCCCAGATGTTGTTTATGCTGGAGACACTGGACAGAGGCCAGAGACCCAGAGACCGAGAGGAAGGAAGAGCCAGAGAAAGGAAAAGATGGGTAGAGGGCGAGGGAAGCAGAGGAAGATGGAAGAACCAGAGAGAGAGACCAACAGATACGGAGACCGACAGAGCACGTGAAGGGGAGGCAGGTGGAGAGTTGGAGGAGAGAGATGAATAGAGAGACTTCCCTGGTGGTCCCGTGGTTAAGGGGGCACGGGTTTGATCCCCGCTGGGCAAATAGGGTCCTACATGCCAAGCGGCACAGCCAGAAAGTAAATAATAAACTGATTAAAATAGTTACTCGGGCTTTCTTTAAAAAAAAAAGAAAGACAGAATAGAGATTCATAGGCTGAGAGATGGAGACAGGGAGAGCGTGAGGAAGGCCGAGGCTGGGAGGAGGGGTGGTGGTGGGCATGGAGCTGAGTGCAGGCCCAGCGCTGCCTTTGTACAGGTGACTTGGTTTCCCATCCATGCATGCTCTTTTCAGAAGCGTGGAAGGGCGAGGTTGACTTACATCCTGCAGGGAGTTTGAGCCCCAGGAACCTGATCTCTAGACCCCCAAAGTCCCCTGTGCGTGCCCCCCTGGGAGTGCGCGCCTTGCCCTGACCCTCACAAACTCTCCCAG
Seq C2 exon
GCACAGCCCCCGTGGACGTGCTTCGGGCCCTGAGGTTCCCCGCCCTCCCTGACGGTGTCCGGAGGGCAAGAGGTATCTGTCCAGCTGATGTGGCCTACCGAGTGTCCCGACCCGCCCAGCTCAGTGCACCCACCCGTCAGCTCTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000601:ENSBTAT00000000793:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]