BtaINT0128909 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018855 | SCAF4
Description
SR-related CTD-associated factor 4 [Source:HGNC Symbol;Acc:HGNC:19304]
Coordinates
chr1:3087660-3088628:+
Coord C1 exon
chr1:3087660-3087748
Coord A exon
chr1:3087749-3088437
Coord C2 exon
chr1:3088438-3088628
Length
689 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTT
5' ss Score
6.3
3' ss Seq
CTTTGTCCTGAAAATATTAGGTC
3' ss Score
5.07
Exon sequences
Seq C1 exon
AAGGAAATGGAAGTAGAACAACCTTGTATTCAAGAGCCTAAGCGGCACATATCTGATCACAGAAAGTCAAGATCTAGATCAGCATCCAG
Seq A exon
GTAGTTTATAGAAAATGTTAATCCAGATGTTCATGTTTTGAGAGACTTAGTATTTAATTGTTTTTAGATGTATGGGATTAATAAAATAACACTTGGTATGTTTGTATGCATGAGTAGAATGGGGGCAGGAGACATATTAGTTTTAAAAAACTAAGTCATTTTAGCCAGTATTTTTTCCCTCTGAGTTTCTGTAATGCCTGTTTACAGATATGCATGGAATTGTAAGATTTATGTATTCAAAGTTCCTTTACCAATTTATCAAGCCAAAAAAAAAAAAGTGGAAAGAAAGTAAGGAATACTGTAATCAGATCACATATTTTTAATTGCTACAGAAAAAAAGACTTTTCTGAGAAGATAGAGAATAGCAATCACAGTATATCTCTGTGATGACATTAGCTTTTTCATTACAAAGATGTCATTTAAAATAATACTAGAGGTATCAAAGATGAGAGATACTTTTTTATAAGTTAGCAAACTTGTTTATAATATATATGTGCTTTCTAACTTTGTGCATATTAAAAATCCTTAAAATGAATTCCCTACTGTCAAATTCTTACACATCTTACAAATTCTTACATATCTTACATTAAATTCCCTAGTTGTATTTTTTTCTTCTTGCGATTAACACATGCTGAAGTTTTCTTTATTTCCGTATATTAATCCATTCTCCTTTGTCCTGAAAATATTAG
Seq C2 exon
GTCACCGAAAAGGAGACGATCTCGATCTGGTTCTAGATCTCGAAGGTCTCGGCATCGACGTTCTCGATCTAGGTCCAGAGATAGACGCCGACATTCTCCTCGGTCTCGATCCCAAGAAAGACGAGATCGAGAAAAGGAAAGAGAACGCCGACAGAAAGGCCTTCCTCAGATCAAAGCAGAAACCGCAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018855:ENSBTAT00000025104:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.923
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:
AGGAAATGGAAGTAGAACAACCTTGT
R:
CACTTGCGGTTTCTGCTTTGA
Band lengths:
279-968
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development