BtaINT0165717 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030929 | ZNF558
Description
zinc finger protein 558 [Source:HGNC Symbol;Acc:HGNC:26422]
Coordinates
chr7:17228995-17230346:+
Coord C1 exon
chr7:17228995-17229077
Coord A exon
chr7:17229078-17229563
Coord C2 exon
chr7:17229564-17230346
Length
486 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGA
5' ss Score
9.63
3' ss Seq
TTTCGTTCATCTCTTAACAGGAG
3' ss Score
10.01
Exon sequences
Seq C1 exon
ATTTGGAGACGGTACTTAAAGCAAAATGGTTAACTCCAAAGAAGCCTATTTTTAGAAAAGAACATTCTAATGATGTTAGAGCG
Seq A exon
GTAAGACCAATGTGGTAATTGCTGGTTTTTCTCAGTAGGAAAATTTCATAAGTTAGAAAAGCAACAAATAATCAGGGGAGTCATTATCGGGAAATGTCATTAACATGTGAGATAATGGTGTCTCAGGAGAGATACTGTAAATCAGTTGTAAATTTGGAGAAAATTATAAATTAGCTCCAGACTTGTTTCTTTGCTGAGAGTTCCCACAAGTAAATACTTCCTTAAATGTGACCGTCAAAATATAGAGTAGTCTTAAACTTATCAGAAAATGCTCTGTGAATATGATAAGGACTTGTGGCAATGCATCTGTCTATCCTTTCTTAACTTGTAAAAGCTCAGACCGGGTAGAAGCCATTTAACAAGCATTTAAAATAGATAGCTGCAACATCAATGATAATAATGTAACAGAATTCCTGGGAGAGAAAATTTGTATAACAGCATTGAATATTAAAAAATGTTATATAGATTTCGTTCATCTCTTAACAG
Seq C2 exon
GAGAGAAGTCATCTGGGAGTGAAACTCAATGAATGTAATCAGTGTTTTAAAGTCTTCAGCACAAAATCTAACCTTACTCAGCACAAAAGAATTCATACTGGAGAAAAACCCTATGACTGTAATCAGTGTGGAAAATCCTTCAGCAGTAGATCTTACCTTACTATTCATAAGAGAATACATAATGGGGAGAAACCCTATGAATGTAATGACTGTGGGAAAGCCTTCAATGATCCTTCCTCTCTTAGACTGCATGTGAGAATTCACACTGGAGAAAAACCCTATGAATGTAACCAGTGTTTTCATGTTTTCCGCACTAGTTGTAACCTCAAAAGCCACAAGAGAATTCATACGAGGGAGAATCACCATGAATGTAATCAGTGTGGCAAGGCCTTCAGCACGAGGTCCTCCCTTACTGGGCACAATAGTATTCATACAGGAGAGAAGCCTTATGAATGCAATGACTGTGGGAAAACCTTTAGGAAGAGCTCATATCTGACACAGCATATGAGAACTCATACTGGAGAAAAACCCTATGAGTGTAATCAGTGTGGAAAGTCCTTCAGCAGTAGCTTTTCTCTTACTGTTCACAAGAGGATTCATACTGGTGAGAAACCCTATGAATGCAGTAACTGCGGGAAAGCATTTAATAATCTCTCAGCTGTTAAGAAACATGTGAGAACTCACACTGGAGAAAAACCCTATGAATGTAATCATTGTGGAAAATCTTTCACCACTAATTCTTACCTTTCTGTGCACAAGAGAATACATAACAGGTGGATATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030929:ENSBTAT00000043771:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0),PF134651=zf-H2C2_2=WD(100=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAAATGGTTAACTCCAAAGAAGC
R:
AGGGTTTTTCTCCAGTGTGAA
Band lengths:
344-830
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]