BtaINT0165690 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012606 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:HGNC:25294]
Coordinates
chr18:54945379-54949441:-
Coord C1 exon
chr18:54949198-54949441
Coord A exon
chr18:54947198-54949197
Coord C2 exon
chr18:54945379-54947197
Length
2000 bp
Sequences
Splice sites
5' ss Seq
CCTGTGCGT
5' ss Score
4.27
3' ss Seq
CCGTGCTCGTGTGCTTCCAGGAC
3' ss Score
9.39
Exon sequences
Seq C1 exon
ACCTGGGGCAGGGCGCCCTCAAGGTGCCCAAAGAAGCGGATGAAGGAGGCCGGGCCACCTCGGGGAGCGCACGGAAAGGCAAGCGGCAGCACAGCTCCCCTCAGAACACACTCCTGGACTGCAGCCTCTGCGGGAAGGTGTTCAGCAGCGCCAGCTCCCTGAGCAAGCACTACCTGACGCACAGCCAGGAGAGGAAGCACGTGTGCAAGATCTGCAGCAAGGCCTTCAAGCGGCAGGACCACCT
Seq A exon
GTGCGTAGGGGCCGGGTCAGGACGTCTGCCCAGGGGGCTGGGGGCACGCCTGGGCCTCAGCACCCCTACCATCAGCCCGCACCCGCCGTGTCGAGGCCCCCAGGGGTGTGCAGCCTGTGCTCACATGCAGTGTAGGGGCCGGGGGCGCGCCTGGGCCTCAGCACCCCTCCCATCAGCCTGTACCCGCCCTGTCGAGGCCTCCAGGGGTGTGCAGCCTGTGCTCGCATGCAGTGTAGGGGCCGGGGGCGTGCCTGGGCCTCAGCACCCCTCCCATCAGCCTGCACTCGCCCTGTCGAGGCCCCCGGGGGTGTGCAACCTGTGCTCAGACGCAGACTGGTTTCCTTGAGGTGCCAGGGTTCTGGGGGCCAGACCCACACGGCCCCAGCCCCCAAACCCACTCCAGAGAGGCGAGTGCTGCTGCGATTGGCAGACGGGACCCCTGTGGTTTAAAGACACACCCCAGGGGCAGTTTTGTCCTGGAGGGAATTGGGCTAACTCTGTGCAGAAAGATTTAGAGCAGGTGCCTGAAGAGAACAGATCTGTGCTCTGTGAGGGGTATGCATTGGGATAAGAGACTATGAGAGGCTATGAAATGCTTGGAATGTTCACTCTCCCTTTTTTTTTTAAATTCTTGATTTTAAAAAGCAAGCCCAGTGTAAGAGCAGAATTACCTTTGTTCTTCATGCCTTAGAAATGATAAGGTTTTCTTGCTACTGAGGAAGGAAAGACAAGACTTTTCAAATGGAAAGAGCTGTAAGTGGGAGGGATTATCCATCACCTTTTGATAGCATGCCCAGGCTTGTCAGGAGAGACAGTGGTAAAGAATCCACCTGCCAATGCTAGAGACGCGGGTTCAGTCCCTGGGTCGGGAAGATCCCCTGGAGGAGGGAATGGCTACCCACTCCAGTACTCTTGCCCGGAGAATCCCATGGACAGAAGAGCCTGGCAGGCTACAGTCCATGGGGTCACAAAGGGTCGGACACGACTGAGCAGCTGAGGAGCACAGCCTGCACAGAGCATCAGCGAATCCCACTTTCATTCTGTCCTTGCTGCCTAACCCCCTCCCCACCCCCCTCCCCGCCAGGGATGGGAAGCAATTTGCTCATGTCACAGGATGGTAACAGTTAGGGCCAGAACCTGGGTCTCTTGATCCCTTCTCTGCTGCTTCCCTCAGATGGAAGCTAAGGGTTCACCTTTGCGGGGAGAATTTTTTTATTTATTGTGCCTCATTTATCAGAACCATCCAGAGTAGGGCTGCTGGGAACCCAGAGGGTGATTTACCCATTTGCTTATTTCTGTAATAAATTAACGTAGGTACAAGTGGGATACAAATATAAGACATTTGTATTCATTCATATTTGCAGAAATTACAGGCAAATTTGGCTGTTTTCTAGAGAGTCTTTATTGACTGGGCATCTGTAGTTTTTTTCTTTTTGTTTTGCGATGGGGGTCGCAGGTGGCTCTCTAGAGGAATCCTTTGGGAAGGCAGAGACTCCTTTGTTCAAAGAAGGAGCACCCCCAAGTTAACACTTCTTTGCATGCGTTCTCCGAACTCTGGTTCTCAGGATGCTAAAAGGGGCTCTTTGGAAAAAGGTGATTCTGTGGGCAAATAACTTGGAGAGACATGGAAAGTTAAGCAGGTTCGCTTTATGTTCTCTATGGCTTTTCACTTTGCTACTATGAACATCCAAGAAGTAAACAGTGTTTTTTCAAAACTCACTTGCCAGCTGAGCCCAAGTCCTCAGGGAGCAACTCTGGAGACTGGTGTTGCTTTGGGGAACTCTGACTTGGCTCCCACGATTTTTTCTCTGATTAGGGGTTTGCCTAAGGGTGCGGGAAAGAGCCCCCGTTCTAGATGACCTTGACCTTAGTCGGGGGTCTTTCTTCATGGGGTCTGAGCCCATTTTCTGCCCCGATGTTCCCTGGGGACGTGCTTGGGTTCCTGCGACAGGTGACTCGCACAAAAGACCCCCCATGACCCCGTGCTCGTGTGCTTCCAG
Seq C2 exon
GACCGGACACATGCTCACCCACCAGAAGACCAAGCCCTTCGTGTGCATCGAGCAGGGCTGCAGCAAGAGCTACTGCGACTACCGCTCGCTGCGCCGGCACTACGAGGTCCAGCACGGCCTGTGCATCCTCAAGGAGGTGCCCCCGGAGGAGGAGGCCTGTGGGGACTCACCCCACATGCACGAGGTGGCAGGCCAGCCCACACCATCCGGCCTGAGGTCCCCCGGTTCCCTCCTGCCCAACCGAGACTTCCTGCGCTGCCTCGTGAACAGCATCGTCCACCACAAGATCCCTTCCCCGGGGCCGGCTGGGCTTGCGGACAGCGGTGAGGGGAGGAACATGGCCTGCTCCTGCCCGTCCTCGGGGTCTTCCTGCTGCGGCCCAGCTGGCACCCCGGGGACCCTGGGCCCTGACGTTCTCGAGGAGTCGAGGCCCTCAAGGAAGGAGCCTGCCGCTGACGTGTTCACGGCCATTCACTCGCGGGCGGCGGAGAGCAGCGGCCCCGACCCAGCCGAGCTAGAGCCACTCCAGCTCTCGTCCTCCCTGGAGGGCTGGCCCGAGGGCGCCCCTCTGCCCTCCTGCCTGCCTCTGTTCCGTGGCCAGACAATCCCCACCACTGGTTCCCAGCCATCAAGCCACAGTTTCCAGTGGCTGCAGAACCTGTCGGGCTGCCCCAAGAGCAAAGGGAATGGTATGTTTGTCGTCCATAAGCCGCCATCCCAGGAGGCCTCTGAGCCTGGCCCTGGGCTCAGCAGCACCTCCCTAGTGGGGGAACCCTCAGCTGGCCTGGGGCTCGGCCCAGAGGACGTGCCGCCCTTCCCTCCCATGCTCCTGAAGGCTCCCGGGGAGGCCTCGGGGGACCCCAGATTTGCCTGTGCCAGTGGGGATGATGACTGCTGGGCTCCCAAGAAGAGCAAGTTTGACTGCGACTCCTTCCGGTGGCCGAAACCCGGGGACCCTGGCTCGCAGGATCCTGGCTTGAAGCCCAGCAGCCTCTCGTCGGATGCCACGCCGCTCTTCCGGCAGCTCTTCCTGAAGTCGCAGGAGTCCCTGGTGAGCCACGAGCAGATGCAGGTGTTCCAGATGATCACCAAGTCCCAGCGGATCTTCTCTCATGCCCAGGTGGCCACCGCTTCCTCCCAGCTCCCCACTCCCGATGGCAAGCAGGGCCCCCTGAAGCCGCTGCAGGGGCCACGGCCACAGCAGCCCCCGTCTCTGACGCCCACTGTTGACTCTCTCCGTGCTGGCCCCATGAACCCTGAGCCAGAGGGCTCCCCAGCCCGCCGGAGAAAATCCACACCCACTTTCCCCAGGGAGGCCTCACCTGGCGGCATGAGCCGGGATGCAAAGGGTGGGCCAAAAGTGGCTGCTGCTCCGCCAGCCCTCACAGCGTCATCCCTGGACCCTCCCGGGAACCCGGACATCTCTTCTCTGGCCAAGCAGTTGAGGTCCTCAAAAGGGACCTTGGATCTGGGCGATATCTTCTCTCCCGGGGGCCTGCGTCAGACCCAGTTAGGAGGGGACGAGCCATCTGGAACCCACCTCCCAGGGAAGCAGACCCAGGCTGAGAATGGCATGGCCTCTGGGGCCACAAAAGCCGAAAAGGGCCCGGCCTGCTCCCGGGGTGGAGGCTACAGGCTCTTCTCCGGCAACTCCAGAGCACAGCGCTTTTCAGGCGTCCGGAAGGAGAAGGTGAAAATGGATATGTGCTGTGCGGCTTCCCCGAGTCAGGTGGCCATGGCTTCCTTCTCGTCGGCAGGGCCTCCAGCAGACCTCTCCAGGGACTCCAAGTCCAAACTGACGATATTCAACAGGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012606:ENSBTAT00000061246:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.402 A=NA C2=0.716
Domain overlap (PFAM):
C1:
PF138941=zf-C2H2_4=WD(100=29.3),PF0009621=zf-C2H2=PU(65.2=18.3)
A:
NA
C2:
PF0009621=zf-C2H2=PD(30.4=1.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CAGGAGAGGAAGCACGTGTG
R:
AGGGATCTTGTGGTGGACGAT
Band lengths:
351-2351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development