BtaINT0164798 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007167 | ZMYM5
Description
Bos taurus zinc finger, MYM-type 5 (ZMYM5), mRNA. [Source:RefSeq mRNA;Acc:NM_001195018]
Coordinates
chr12:36513360-36514691:+
Coord C1 exon
chr12:36513360-36513645
Coord A exon
chr12:36513646-36514525
Coord C2 exon
chr12:36514526-36514691
Length
880 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
GTCTGTCCTTTGCGTTTCAGAGA
3' ss Score
9.69
Exon sequences
Seq C1 exon
ATTCTTGGATCTCCCAGTCAGCATCCTTTCCCCGTAATCAGAAACAGCCAGGGGTGGATTCTTTATCACCAGTGGCCTCGCTTCCTAAACAGATATTCCAGTCTTCTGCCCAACAGCAACCCACTAAAGCAGCTAAAATCACTTGTGCAAACTGCAAAAAACCTTTACAGAAGGGACAGACAGCTTATCAGCGAAAAGGATCAGCTCATCTCTTCTGTTCTACCACCTGCCTTTCTTCCTTCTCTCATAAGCGTACTCCAAAGAAACGCAATGTGACATGTAAAAA
Seq A exon
GTAAGCTGTACCCTTCAACACACCTCCATATGATTGGACACTGGTAGTATGCATGTGTGTTCTGAATGTCCTTACAGAGTTGCAGAGATCGATAGGTAGAATCGATGCACAGGTGTCTTCCACTTTACAGAATTTGAGTTAGCTTAGCGTACATCAGAGCTGTGGGTCATTTGTACTGTACTTACTCTTGGCAGGAAAATGGAGTTTAGGTATTGAGATAAATGGACCCTCTCTTTTCCACTGCCTTTTCCTCACCCTTTCCCCCACGCTCTATCTTGTCTACCTGGTTGATTGTCCCCTTTTTGTATGCTTTTAGAAGTCATAACCTGTGGCAAGGTTCTAAAGGTCAACCTATGATGACAATACTTGCTCTAGTTAATTTATGGTTATTTATTTGTTTGGCTGTGCTGGGTCTTAAGTTGCAGTACTTGGGATCTTCAGTCTTCATTGTGGCATGTAAGATCTTTAGCTGTGGCATGTGAGATCTAGTTCCCTGACCAGGAATTGAACCCAGGCCCCCTGCATTGGGAGCACAGAGTCTTAGCCACTGGACGACCATGAGTCTCAACAAAATATTTCTGAATCTCTTCCTATATTATTTAGGAACTCTTAGCAGTGAAACCAAAATGTGGATTTTTTCTGGATGGATCCAAAAATTATAGTTGATTCCTAGGATTAAATCATGAGAAAATGAAAAATGTCAGTTGTTATTCATATATTTGACTTCTATTAAAATGCAGTATTCTGGGGAGTTCCTTGGCGACTTCTGTGGCCTGGCTTCAGTCCCTGGTTGGGGTGCTGAGGGAACCGATATCCTGAAAGCCACACAGCACGACCAAAAAGAAAGGTTCTTAAATTGTGTCTGTCCTTTGCGTTTCAG
Seq C2 exon
AGATGCACCTACCAAAAAAGCTACTGTTGTTCCTCAAGGGGAGTCAAGTGAACCCTTCCCAAAATGTTTTAGTACATCTCATTTGTCTCCCTATGAAGACAGCCAGAATCTTCGAAAAAGAGTTCTGAACAAATCAAGATGTACAATCTGCAATAAACTAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007167:ENSBTAT00000009433:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.479 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=WD(100=42.7)
A:
NA
C2:
PF064679=zf-FCS=PU(40.0=28.6)
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:
GAAACAGCCAGGGGTGGATTC
R:
TGGCTGTCTTCATAGGGAGACA
Band lengths:
351-1231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development