BtaINT0166393 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031873 | ZSCAN16
Description
Bos taurus zinc finger and SCAN domain containing 16 (ZSCAN16), mRNA. [Source:RefSeq mRNA;Acc:NM_001034411]
Coordinates
chr23:30309506-30311593:-
Coord C1 exon
chr23:30311124-30311593
Coord A exon
chr23:30309645-30311123
Coord C2 exon
chr23:30309506-30309644
Length
1479 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
ACATACTTCATTTTTCCCAGGTT
3' ss Score
7.47
Exon sequences
Seq C1 exon
GTTTTTCTCTGAGACAAGATTCTGAGAGATTCCCCTTGACTCAGTCCCAGATAGAGGATTAATCTCCTGAAAAACAGCCCAGAATGACCACATTTCTGGAACTTGAAGAACAAAAAAGACTTCTAATAGTTAAAGCAGAAGACCATTACAGGGGACAGGACTCCATCTCACAAAAGTCCAGTCCTCACAGAAGGGAACTCTTCAGGCAACACTTCAGGAAGCTCTGCTATCGGGATGCACCTGGACCCCGTGAAGCTCTTATCCAGCTCTGGGACCTTTGCCGCCAGTGGCTGAGGCCAGAATGCCACACAAAAGAGCAGATTTTAGACCTGCTGGTGCTTGAACAATTCCTGAGCATTCTCCCCAGGGACCTGCAAGCATGGGTGCAGGCACACCATCCAGAGACTGGAGAGGAGGCGGTGATTGTGCTGGAGGATCTGGAGAGAGAGCTTGATGAACCTCGAAAGCAG
Seq A exon
GTGGGAAGGCGGTAATCATTTGCCTGTGAGTTTTCAGGGTATATGCACCCAGCGGAGGCAAAAGGCATATGCAAGAATACCTGAAAATATTTTAATATGTTACCCTAGGGAAGAACAAGGCTTAGGGACTGGCACTACCCGTGTCAAATAACTAAAGTGTGACTGAGTAAAAAGAGACACTAGGCCAATTCTGTCAGTTTGGAAGGCTAGGATCAGTGAGAAGCTATAGGAAGGCAAATAGGTGTCAGAGGAAAACAAAGAATTTTCTAATATTCATGGTTACCTATACACAAAATGCTTCCCTGGTGGCTCAGATGGTAAAGAATCTGCCTGCAATGCAGGAGAGACCTGGGTTCAGTCCCTGAGTTGGGAAGATTCTCTGGAGGATGGCATGGCAACCCACTCCAGTATTCTTGCCTGGAGAATCCCCATGGACAGAGATGCCTGGTGGGCTACAGTCCACGGGGTAGCAAACAGTGGGACATGACTGAGCGACTAAGCACAACACATACATAAAATAGGCTACCTTGTAATAAAAAACTCCCCTTCGAGGAGGGGTTCAAGTAGATAACAAGGATATTGCAGAACAGCACTGTCTGTGACCCATTCACATTTAATACCTATAATTAAATATACATTTAATATATGGTAATTAAATATGAGCATATATGTAATTTAAATTTTTAGTAGCCACATTTGTGAAATATATTTACCAAAAATATGTAATCATGCAATCAATATTAAACATGAGGTATTTTACATTCTTTTTTTTCAGTTTTCAAAATGTGTATGTATTTTACATATCTCAATTTGTATTAGCTATATTTCAGGTGCTCAGTAACCACATTTGACTAGTGGCTATCATCCTGGACCACACAGTTATAGAAGCTGCTGCTGCTGCTAAGTTGCTTCAGTCGTGTCCGATCCTGTGCAACCCCATAGACAGCAGCCCACCAGGCTCCTCTCTCCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAGAGTGAAAAGTGAAAGTGAAGTCACTCAGTCGTGTCCGACTCTTCGCGACCCCATGGACTGTAGCCAACCAGGCTCCTCCATCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGTTGCCATTTCCTTCTCCTAGTTATAGAAGGAATGCCCCCATTTGGTGGAAGTTGAGTTCAATGATATTTAAGGTATCTCAAGTCCCAAGACTATGATTCTGGGCCTCTGCAGATCACTGTTAGAGACACTGAATTTTACTCTCCAGTGTCCTGAAGTGTAGATTAGCCTCTGTCTCGTTTTTAGTCATTATTGCCATTTGCAGTTAAATGATAATTTGTCCTCTTTTCTGTGGCCCTGGTTCCTGGCACATGCTTCTTCTGATCTAGCTCTGAAGTTCTTTCTGTTCTTTCACAAAATCTACTTTACACACCAAACATACTTCATTTTTCCCAG
Seq C2 exon
GTTCCAGGCAATTCAGAAAGACAGGACACACTTTTGGACAAGTTGGCCCCCTTGAGAAGGCCACATGAGTCATTGACTATCCAGCTTCATCCCAAGAAGACCTGTCAGGAGCAGAAATCTGGGGAGGCCCAAAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031873:ENSBTAT00000009301:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.851
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=72.9)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCCAGTCCTCACAGAAGGG
R:
CTTCTCAAGGGGGCCAACTTG
Band lengths:
355-1834
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]