BtaINT0139332 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014389 | SP4
Description
Sp4 transcription factor [Source:HGNC Symbol;Acc:HGNC:11209]
Coordinates
chr4:30321664-30322346:+
Coord C1 exon
chr4:30321664-30321801
Coord A exon
chr4:30321802-30322229
Coord C2 exon
chr4:30322230-30322346
Length
428 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
GGGGGGGGGGTTTGTTGCAGATC
3' ss Score
4.11
Exon sequences
Seq C1 exon
GCCTGTGCCAGCTACAGCCTCCTCCGAGCCACCGCGGGCGGGCGGGACCGGCCTCTCCTCCCGCCTCGCCCCCACCCCCACCCACCTCTATCCCAGTGTCTCCGTCTGAGGGTTTGTCCTGTTAATGCGGGATGAGCG
Seq A exon
GTACGTATTCTCCACCCCCCTCGGTCTCCTTCACCACCTCCCTCCCTCCCTCCCTCCCCAGACCCTGCTCGGTTCTCCCCCCTCCCCCGGGGCCGCTGAGATGCTTTAAGGGGAGGAGGAGAGGGAGGGAGGGAATCAAGGGGAGGGAAGGAGGGTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATCCCCCACCTCCCTTCCCTCCTTCTCCCCCACCCCCTGCCGGTGTGCGTGGATCGCGGGTTTATGGAGATTAATGTTCGGGGGGAGGGGGAGGAGAGGGGAAGGGGAAGACGAATAATAATAATCCTAATAACCTGTTGTCGTGTACGGGGGGGGGGGGTTTGTTGCAG
Seq C2 exon
ATCAGAAGAAGGAGGAGGAGGAGGAGGCGGCACAGGCAGCGGCTTATGGCTACAGAAGGAGGGAAAACCTCTGAGCCAGAGAATAACTATAAAAAACCCAAAACCTCAGGCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014389:ENSBTAT00000019135:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGCCAGCTACAGCCTC
R:
CTGGGAGCCTGAGGTTTTGG
Band lengths:
254-682
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]