BtaINT0139333 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014389 | SP4
Description
Sp4 transcription factor [Source:HGNC Symbol;Acc:HGNC:11209]
Coordinates
chr4:30322230-30324420:+
Coord C1 exon
chr4:30322230-30322346
Coord A exon
chr4:30322347-30322868
Coord C2 exon
chr4:30322869-30324420
Length
522 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TACTATCCCATTTTGGGTAGGAC
3' ss Score
4.54
Exon sequences
Seq C1 exon
ATCAGAAGAAGGAGGAGGAGGAGGAGGCGGCACAGGCAGCGGCTTATGGCTACAGAAGGAGGGAAAACCTCTGAGCCAGAGAATAACTATAAAAAACCCAAAACCTCAGGCTCCCAG
Seq A exon
GTAAAGGCAAACATTAAAAAAAAAAAAAAAAAAGGCATCACGAAACGTAAGGGGAAAGAGGGAGTTATGCCCTTTAAATGCCCAGAAGTGAAGAACAGAACAAAAATGTTTGTCCACTCAAAGCATCTTTCTGAGAGTAAGGAAGTTAAATTGTAAATTCATACGGATTTCACGTGTTTGGGATATCGTGGTTAAAATTCCACCAGGAACTCAGACTATAAGAGAAAGGTGTGTGTTTTCCCAAGGGCGTTTTGAGTTTAGTAAAATAACACTTCAAGAAAGTTTGTTAGAAATTTCTTGTTATTTATAGTTTATATTGTGGGACCTGCTTCCTTATTCCTGTATCTTATTGCTTTTGTTAATATTTAGATTTCTTCCTTTTCCTGAGTAAGTTCTGAAATGTAGAGCTGTCTAAATAAATAAATAAATAAATAAATAAACAAACCCCTCCCAACTACTGGCCTTCACTAAATCCTCCCACTTTTTTTTCCCCTCTCCCTTTTACTATCCCATTTTGGGTAG
Seq C2 exon
GACTCTCAGCCCTCTCCTCTGGCTTTACTGGCAGCTACTTGCAGCAAAATAGGGACTCCTGGTGAAAATCAAGCAACTGGACAACAACAAATTATTATAGATCCAAGCCAAGGATTGGTGCAGCTTCAAAATCAACCACAACAGCTAGAACTGGTAACAACACAACTTGCTGGGAATGCTTGGCAACTTGTTGCCTCCACTCCTCCTGCTTCAAAAGAAAATAACATTTCTCAACCAGCTTCTAGTTCATCTAGTTCTTCCACCAGTAATAATGGGAGTGCATCTCCCACAAAAACTAAATCAGGTAATTCTTCTTCCCCTGGTCAGTTTCAAGTCATACAAGTACAAAATCCAAGTGGTAGTGTACAGTACCAAGTGATTCCACAACTTCAAACAGTGGAAGGTCAGCAAATTCAAATCAATCCAACTAGTAGTTCATCTCTACAGGATTTGCAGGGTCAAATTCAGCTTATTTCTGCAGGTAATAATCAAGCTATACTCACAGCTGGTAACAGGACAGCTTCTGGGAATATTCTTGCTCAAAACCTGGCAAATCAGACAGTTCCAGTCCAAATTAGACCTGGTGTTTCAATACCACTGCAGTTACAGACCCTTCCTGGTACTCAGGCTCAAGTTGTAACAACCCTACCAATTAACATTGGAGGAGTGACTTTAGCTTTGCCAGTGATAAACAGTGTGGCTGCTGGAGGAGGAACTGCACAGGTTGGCCAGCCTGCTACTACTACTGAGAGTGGGACTTCCAATGGGAGTCAGTTAGCTTCCACACCTACCACCACCACTGCTTCTGCCAGTATGCCGGAATCTCCCTCCTCCTCCACTACCTGTACAACCACTGCATCAACATCTCTGACCAGCAGTGACACGTTAGTAAGTTCAGCAGATACGGGCCAGTATGCAAGCACATCAGCCAGTAGTTCTGAACGCACCATTGAAGATTCTCAGACACCTGCTGCTACAGAGTCTGAAGCCCAGAGCTCCAGTCAGCTTCAGTCTAATGGAATACAGAATACACAGGATCAATCAAATTCTCTTCAGCAGGTGCAAATTGTAGGCCAGCCTATCTTGCAACAGATCCAGATCCAGCAGCCTCAGCAACAGATAATTCAAGCTATTCCACCCCAGTCTTTTCAGCTCCAGTCAGGGCAGACGATTCAGACCATCCAGCAGCAGCCTTTGCAGAATGTTCAACTTCAAGCAGTAAATCCGACTCAGGTGCTTATCAGGGCTCCAACTTTAACACCTTCAGGGCAAATCACCTGGCAAACTGTACAGGTTCAGAATATTCAGAGTCTTTCAAATTTGCAAGTTCAGAATGCTGGGTTATCCCAGCAATTAACCATCACCCCAGTGTCTTCAAGTGGTGGCACAACCCTTGCTCAGATTGCTCCTGTGGCTGTTGCTGGTGCCCCAATAACTTTGAATACTGCCCAGCTTGCATCAGTGCCTAACCTTCAGACAGTGAGTGTTGCCAACCTGGGTGCTGCGGGCGTTCAAGTGCAAGGAGTTCCAGTTACAATCACCAGTGTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014389:ENSBTAT00000019135:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.492
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
AAACCCAAAACCTCAGGCTCC
R:
TGAAACTGACCAGGGGAAGAAG
Band lengths:
356-878
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]