BtaINT0164966 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006805 | ZNF180
Description
Bos taurus zinc finger protein 180 (ZNF180), mRNA. [Source:RefSeq mRNA;Acc:NM_001075644]
Coordinates
chr18:52638277-52642052:-
Coord C1 exon
chr18:52641932-52642052
Coord A exon
chr18:52640588-52641931
Coord C2 exon
chr18:52638277-52640587
Length
1344 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGA
5' ss Score
7.83
3' ss Seq
TCTATTTTGCTTTCTTCCAGACT
3' ss Score
9.55
Exon sequences
Seq C1 exon
GAGGGAGTGAACTTCAAAATAGTGACTGTGGACTTCACTCAGGAAGAAGAAGGCACTTTGAGCTCTGCTCAGAGGACCCTGGACAGAGATGTGATCCTGGAAAACCACGGGGACTCTTGGG
Seq A exon
GTAAGAGTACAGTCCCCTTTAATGGTATCTGTATATTGAAATAATTTCTCATTTCTACAGATCAGGATCTAGGGAGTTCAGAGGCCAGAATGATTTTGGCCACACAAAGATTAGTATGGTAAAGATATAGTTTTAGTTTGTAGGGTAACAAAGGTACAACTTCGTGAGTTTGAGCTTATTCAGTCTGCTAGGTTCCTAAGAGCCAAAGACAGGGACCAGATTCTGCAGTGACTTTCTTTTGTCCCCAGTCCAGACACCCAAAGTTCTATATCTTTCCTCTCAGCTTTCCAAACTAGATGTAATCTAGTTCAAACAAGAGGATGAGTATAAAAAGAGTTTCCCCACATACATATCCAGGTGAGAAATAGACATTTAGGAGTCATTACAGGTAGACTTCCCTGGTGGCTGGGTGGTAAAGAATCAGCCTGCCAATGCAGGAGATGTGGGTTCGATCCCTGGGTCAGGAAGATCCCCTGGAGAAGGAAATGGCAATCCACTCCAGTATTATTGCCTGGGGAATCCCATGGACAGAGGAGCCTCGTGGGTTATAGTGCATTGGGGTTGCAAAGAGTCAGACACGACTGAATGACTAACACTTTCACTTTCTTTCACAGGTATAGATTTGTTTGAGAAATCCCCATAGGGCATGCCACATATTTATCTTTTCTCCCACTCAAAGAGGACTATATACATCACCACTTTTTCCCAAATGTACCTTCTGTTGCTTGGCCTAATAGCCACTCAGGCTTCTGTGTATGAGCAGATCTCCATCCTCTCTCACTTGGGACCAAAGGAATCCATGGGGCCATATTAGCCTCTAAGGCATTTAGGGAACCTGGGATAACAGTGCACTCATTATTTTTTCCTGGTTCACAAAGTAGTTTGACTTCATCTTACTAACACGACTGTACTAACAAGTTTCATGCCTTCAGAAAGTCCTAGAAATGTAAACATTAATTTCTATTTCAGTGAACATGTGTCTTAGCACTAAAGAGGGTAGAAAGGATCCTTTGTGTTTTTACTAAGAATTGCAGAATTGTTTTAAAATCCTGTAAGTTTTGCATAGATGATCCTATTTTGGAATATGGAGATATTTGACATCTAAAGTCTTTATTCAGCAACACTAAGATATGATATAGTTTCATATTAATTCCTTGTTATGCTCTCTGACTGTGGTAGTTCTCTGCTTACTGCTCATCTCATCATTTTGCTTTTCAATTTATATTTTGGTCTATAGCTGAAAATAAATCTACATATAATTTTCATACTTTCTTGTCAGCTTTCCCCCCACTATTCCAGCTCTAACAATTTTTGGCTAGGGTATTCTATTTTGCTTTCTTCCAG
Seq C2 exon
ACTTGGCAACTGCACTTGGAAGAAGAGAATCAAGATTGAAGCAGAGCGTTTTTGATGACAAACTATCCCATAGTGTGAAGATAGAAAAGTTGACAAGAGATGATCCTTGGTTATCTTCATGCAAAGAATTTCAGGATTGTAAGGAGCTGTTGGAGAAGCAACAGGAAAAACAAGAGAGACTTTTGAAGGAAGTGACATTTACTCACAGGAATGCCATTACTCATGAGAGAGACTGCAAAAATGATAGCCCTGAGGAGAAGGCTGGTCTGAATTCCAATCTTCTTTCATCACAGATGATACCCATAAGGAACCATTTTCATAAACACGCTTCACATGTTAAAAAATTACATTATAATTCTATGGTAAACACTCATCAGATGATTACTGATACTGAGAAACTCTGTGAAAATAATGAATTTGGAAACCTCCCCCAGAGTATTCATTTTATTCAGTTTACAAGAACTCAAACAGAAGATAAATCCTATGGATTTAGTGACAGTATTCAACCTTTTAACCATGGTACACCCTTAAACATACATGAGAAAACACATGCACAAGGAAGATCCTTTGATTTTAAAGAATGTGGGCAAATTTTGAACCACAGCATATCCCATAACGAACAACAGAGAAACTCCATTGGAGAGAGTCAGTATAAATGTCATAAGACCTCCCAGAGTTCATCCCTTGCTCAAAACATGAGAAATCATTCTGAAGAGAAGCCCTTTGAATGTAATCAGTGTGGAAAATCCTTCAGTTGGAGCTCTCATCTTGTTGCACATCAGAGAACTCATACAGGGGAGAAACCTTATGAATGTAATGAATGTGGGAAATCATTCAGCCGCAGCTCTCACCTTGTTTCCCATCAAAGAACTCATACTGGAGAGAAACCTTACAGATGTAATCAGTGTGGTAAATCCTTTAGCCAGAGCTATGTCCTTGTTGTGCATCAGAGAACTCATACTGGAGAGAAGCCTTACGAGTGCAATCAGTGTGGAAAGTCATTCAGACAGAGCTACAAACTTATCGCACATCAAAGAACTCATACTGGAGAGAAGCCCTACGAATGTAATCAATGTGGGAAATCATTTATCCAGAGCTATAAACTTATTGCCCATCAAAGAATTCATACTGGAGAAAAGCCCTATGAATGCAATCAATGTGGAAAGTCTTTTAGTCAAAGTTACAAACTTGTTGCCCACCAGAGAACTCACACAGGAGAAAAACCCTTTGAATGTAATCAGTGTGGAAAATCCTTCAGCTGGAGCTCTCAACTTGTTGCACACCAAAGAACTCACACTGGAGAGAAACCCTACGAATGTAATGAGTGTGGGAAATCTTTCAACCGCAGTTCTCACCTTGTTATGCATCAGAGAACTCACACTGGAGAAAAACCCTATGAATGTAACCAGTGTGGGAAGTCCTTCAGCCAGAGTTATGTCCTTGTTGTACATCAGAGAACTCACACTGGCGAAAAGCCCTATGAGTGCAGTGAGTGTGGAAAATCCTTCAGGCAGAGTTCATGCCTTACTCAACATCAGAGAACTCATACTGGAGAGAAACCCTATGAATGTAATCAGTGTGGGAAAACATTCAGCTTGAGTGCTCGACTTATTGTACATCAAAGAACTCATACTGGAGAGAAACCCTTTACGTGTAATCAATGTGGGAAAGCTTTCATTAATAGTTCTAAACTTATTAGACATCAGGCAACTCATACAGAAGAGAAACCCTATGGATGTAACTAGCCTGGAAATCTTTCAGCAGAGGATATCCCTTCCTCCTTGCCTCCCTTTCTCCCTCACTCTTTCCCTTTCTCCCTTCAGCCCCTCATTCCCTTGTTCCCTCCTTCCATTCCTCCAGGATTACATGTATTGGAAAGAACAAGCATGAAAATAGTGTGTGTGGAAAAAAAGCTTTCCATTAGCTCTCTGTTCAACTGTGTATCTGAAAACTCTTTCTGGAGAAGAAAGAAAAAGTATGAGTCATGTATTTTACTTGGCAATTCCATGTTTTAAAAAATCAAACTTGACCCTTGTTAAACATTCCCATGAGCATGATAACTCTTGGCACTTTTCCTTGAAGAAAGCACTTCGACCTGAATTTGAGAGAATTATTAAATGGTCAATATGCTGTGGAGTGATTGCCAGTGAGGTAGACCTCTTTTCCAATAAAGAATAAATGAGAGGGGACATATATACACCTATGACTGATTCATGTTGATATATGGCAAAAACTAACACAATATTGTAAAGCAATTATCCTGCAATTAAAAAAAGATAGTAAATCTAAAGAGAATAAAGCTATGGCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006805:ENSBTAT00000052471:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.195 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.1)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.5),PF134651=zf-H2C2_2=WD(100=4.1),PF134651=zf-H2C2_2=WD(100=4.5)
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:
TCACTCAGGAAGAAGAAGGCAC
R:
GCCTTCTCCTCAGGGCTATCA
Band lengths:
349-1693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development