BtaINT0107912 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009950 | PAX3
Description
paired box 3 [Source:HGNC Symbol;Acc:HGNC:8617]
Coordinates
chr2:111129286-111130061:-
Coord C1 exon
chr2:111129815-111130061
Coord A exon
chr2:111129321-111129814
Coord C2 exon
chr2:111129286-111129320
Length
494 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
CTGCGTGTGTTTCCTTACAGGTG
3' ss Score
12.84
Exon sequences
Seq C1 exon
GTAATGGGACTTCTGACCAACCACGGCGGGGTACCCCACCAACCCCAGACTGACTACGCGCTCTCGCCTCTCACTGGGGGCCTGGAACCTACCACCACGGTGTCGGCCAGCTGCAGTCAGAGACTAGACCATATGAAGAGCTTGGACAGTCTGCCGACCTCTCAATCTTATTGTCCACCCACCTATAGCACCACGGGCTACAGTATGGACCCTGTCACGGGCTATCAATATGGGCAGTATGGACAAA
Seq A exon
GTAAGCCTTGGACTTTCTAGGGAGTGATTATTCCTGGAAGAGTGAAACACTTTAACTCTTCCTGGAGAAAGGGGAGCTGCCAACATGATTAAGCCTTCCATCCCGGTATCAATTTTGTGGCAAAGCCAGCTGGTCGTTCCAGCAAGGGCTTCCTTGTATAATTATTTTCTTAACTGATGTCAACAACCTCTTGCGGTTATTAATTGCTGAGACGTGAAAGCTGATTGCCACTAGGTAGAACACAAGTGTTGGCCCAAACGAAATAACCCCTGGCATTAGAAACACATGTTCTTAATGAGGTCAGCCCAAGGATCATACGGGGTATAATCCCCAGGACACAGAGTTCTGTCAAACTTGTCTCAGGAATAAAAATATTAGTCTCGATCCTTTGATACCCCGGTATTAAATATGACATTGTCAGCCTGTAGCTGATTTTGCCCCTTGCTGTGAATTGTCCCAGCCTGACCTGAAAAGCTGCGTGTGTTTCCTTACAG
Seq C2 exon
GTGCCTTTCATTATCTCAAGCCAGATATCGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009950:ENSBTAT00000013131:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.636
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGGACTTCTGACCAACCAC
R:
ATGCGATATCTGGCTTGAGAT
Band lengths:
278-772
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]