BtaINT0166392 @ 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
chr23:30311124-30312399:-
Coord C1 exon
chr23:30312349-30312399
Coord A exon
chr23:30311594-30312348
Coord C2 exon
chr23:30311124-30311593
Length
755 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCATTTCTCTATGGCAATAGGTT
3' ss Score
6.06
Exon sequences
Seq C1 exon
AGTCCTTGTTCGTGCCGCCCCAAAGAACGCTAGCTGTTCTCCAAGCGTGAG
Seq A exon
GTGAGTCTCTCCCGGCTCCTGAGGAGGGGACAGGGCACAGTTGTAGGCAGCAACCCCCTCCCCACACCTCCCCCTTCCAGGCTGCCTCTTCAAACAGCTACGAGGGAGGACTAGGGCTTACATGCCCGGAGGACCGAGCTAAAGGGGAACACTGATTGTGAGCTGCTCTGCGAGGGTACTCTTATAACCCTCTTCCTAAATTGGAGCATGTACCCCCACAACCACTGAATCCTACAGACCGGTCCACCTCAGGTTGTGGAATGAAAAAGCCTCTTAACAAATACTCAGCGTTTACTCAATGCTTGCTGCCAGGCCAAGGGCTTTGCCTACTTATTTACACATCAACCCTATGAGAAACCTGAGAATTTTTACAGATGAGGATCTAGTAACTTGCTTTAAATTACACGACAGCCCAGATTCAAATTCATGCTCCTGCTTCAGTGTTCTTATTTACAGCCTCATATCAGACTGTTTGGGCTTCTCTGGTGGCTCAGACGGTAAAGTATTTGCCTGCAATGCAGGAGACCCAGGTTCAATCCCTTGGTAGGGAAGATCCCCTGGAGAAGGGAATGGCAACCCACTCCAGTATTCTTGCCGGGAGAATCTCATGGACAGAAGAGCCTGGTGGGCTACAGTCCATGGGGTTGAAAAGAGTCGGACATGACTGAGCAACAGATTGTTTACTCAGTTCTGGTAGCTTCCTTTTATTAGTGTTTGTGTTCACAGCAGTTATTGTCATTTCTCTATGGCAATAG
Seq C2 exon
GTTTTTCTCTGAGACAAGATTCTGAGAGATTCCCCTTGACTCAGTCCCAGATAGAGGATTAATCTCCTGAAAAACAGCCCAGAATGACCACATTTCTGGAACTTGAAGAACAAAAAAGACTTCTAATAGTTAAAGCAGAAGACCATTACAGGGGACAGGACTCCATCTCACAAAAGTCCAGTCCTCACAGAAGGGAACTCTTCAGGCAACACTTCAGGAAGCTCTGCTATCGGGATGCACCTGGACCCCGTGAAGCTCTTATCCAGCTCTGGGACCTTTGCCGCCAGTGGCTGAGGCCAGAATGCCACACAAAAGAGCAGATTTTAGACCTGCTGGTGCTTGAACAATTCCTGAGCATTCTCCCCAGGGACCTGCAAGCATGGGTGCAGGCACACCATCCAGAGACTGGAGAGGAGGCGGTGATTGTGCTGGAGGATCTGGAGAGAGAGCTTGATGAACCTCGAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031873:ENSBTAT00000009301:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.147
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0202312=SCAN=PU(97.9=72.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
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:
AACGCTAGCTGTTCTCCAAGC
R:
TCTTTTGTGTGGCATTCTGGC
Band lengths:
342-1097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]