BtaEX6016247 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000021217 | COL11A1
Description
Bos taurus collagen, type XI, alpha 1 (COL11A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001166509]
Coordinates
chr3:40676093-40682012:+
Coord C1 exon
chr3:40676093-40676161
Coord A exon
chr3:40678364-40678597
Coord C2 exon
chr3:40680298-40682012
Length
234 bp
Sequences
Splice sites
3' ss Seq
CTTTATTCTCTTATTTCCAGCTT
3' ss Score
8.2
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GTAAGAATTTCATCATGGCCAAAGGAGAAACCAGGAAGCTGGTTTAGTGAATTTAAGAGAGGAAAACTG
Seq A exon
CTTTCATATTTAGATATCGAAGGCAATTCCATTAATATGGTGCAAATGACATTTCTGAAACTGCTGACTGCCTCTGCTCGGCAAAATTTCACCTATTACTGTCATCAGTCAGTGGCCTGGTATGATATGTCATCAGGAAGCTATGACAAAGCACTTCGGTTCTTGGGATCAAATGATGAGGAGATGTCCTATGACAACAACCCTTACATCAAAGCCCTATTTGATGGCTGTGCG
Seq C2 exon
TCCAGAAAAGGCTATGAAAAGACTGTGATTGAAATCAATACACCGAAAATTGATCAAGTACCTATCGTTGATGTAATGATCAATGACTTTGGTGATCAGAATCAGAAGTTTGGATTTGAAGTTGGTCCTGTTTGTTTTCTTGGCTAAGATTAGGACAAAGAACATATGAAATCAACAGAAAATATACCTTGGTACCACCAACCCATTTTATGCCACATGCAAGTTTTGAATAAGAATGGTATAGAAAATAACTTGCTACATATGTATGTACCAATTAGGAAATACTGATGCCCTTGTGGGCACAGAACCACATGACAAAACTTTGAAAATCATAAAAATATAAGATAGTGTGGCTGAGATGGAAACAGGCCTTATTCTTGAATCCCAATTTTCATCTCTCCTTTTCCTATTTGGATTTCTTTGGTGCTGTAGAAAAAAAAAAAAAGAGAGAAAAATATATATTCATAAAAGATATGGTGCTCATTCCCATCCATCAAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021217-'74-76,'74-75,75-76=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
PF0141013=COLFI=FE(36.3=100)
C2:
PF0141013=COLFI=PD(21.2=91.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATGGCCAAAGGAGAAACCA
R:
TCTTATTCAAAACTTGCATGTGGC
Band lengths:
292-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]