BtaINT0107918 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000410 | PAX4
Description
paired box 4 [Source:HGNC Symbol;Acc:HGNC:8618]
Coordinates
chr4:92642411-92643041:-
Coord C1 exon
chr4:92642972-92643041
Coord A exon
chr4:92642467-92642971
Coord C2 exon
chr4:92642411-92642466
Length
505 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATT
5' ss Score
5.95
3' ss Seq
GATTCTCCCTTACCTTGTAGGTG
3' ss Score
10.47
Exon sequences
Seq C1 exon
ATCTGGTTTTCCAACCGAAGGGCCAAATGGCGCCGACAAGAGAAGCTCAAGTGGGAGATGCAGTTTCCAG
Seq A exon
GTGATTTCTCAGCCCATGCATCTACTCATCCATCCACTCACCTTTCTTTTCCTTCCTTCCTTCTTCCCTTTCATTCCTTCCATCCATTCACATTTCCCTTCCTTCCTTCCCTTCCATTCATCCATCTATCCATCCATCCACTCACCTTTCCCTTCCTTCCCTCCATCCATCCATCCACCTATCTTTCCTTCCATCTATCCATCCACCGAACATTTACTTGGCACATCCCACGCATCAGATCTTGTACTGGATGCTGGACACACACAATCCTTGCTCTTCAGGGTTGCACAGCCCCAGATTTATCATCCCTAGGAATTAATCCTTCTTCCCCAGTCTTTTAAGATCCCGCGTTGGAGAGGAGGCAGTTTAGGGCTGTAGCATCAACCCCCTCCCACCCCTGCCAGAAGTCGTCGCCTTTCCTAAAACTTCCCCTGCCTCTCACCACCATCCCCTGCTCCACAGACCCTTGTTCCTCCTGCTGAGTGGATTCTCCCTTACCTTGTAG
Seq C2 exon
GTGGTTCCCGGGGTCTGACTGTACCAAGTGCCTCCCCAGGAATCTTCTCTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000410:ENSBTAT00000045264:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.375 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(19.3=45.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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]