BtaINT0165696 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012606 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:HGNC:25294]
Coordinates
chr18:54939462-54941720:-
Coord C1 exon
chr18:54941385-54941720
Coord A exon
chr18:54939526-54941384
Coord C2 exon
chr18:54939462-54939525
Length
1859 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CTTCTTTACGTGTTTTCCAGATC
3' ss Score
10.53
Exon sequences
Seq C1 exon
TTCTTGTCCAGGGACAGGAGAAGGATGGGGACGAGAGAAACAGCAAGGAGGATGGCCAGCACCGAAAGCGGAAGAAGCGCCCCCAGCCCAAGGCGCTGTTCGTCCCTCCTCCGCCCCCCACGTTCGGGCAGCCGGGCCCGGGGGGGTGTCACCAGAGCCGCCTGCGCTCCCCCGTGTTCCTGGTGGACCGCCTCCTGAAGGGGCTGTTCCAGTGCTCGCCCTACACACCGCCGCCCATGCTCAGCCCCATCCGGGAGGGCTCAGGGCTCTATTTCAACACCCTCTGTTCCACGTCCGCTCAGGCCAGCCCTGACAGGCTCATCAGCACGGTGCTCA
Seq A exon
GTGAGTGAGGCTGATCCCCACCCCCTCCGGTGGCCGCGGCAGGCCAGACCCACCCCTCTGGTAGCATGCGGTCCAGCCATTTTCCCTGGCCTGTGGCTGCATCGGTCTGGCGGTCCCGTTGCTGTTCATAACTATCCCAGGACTATCTGGGTCCAGCAGCCTTCTAGCTGCTTGTAATTTTGTAGGCAGAAAGAAAACAGGCCATTTAACCTAGCCACCCTTCTTCTGCCCAGTCTTTTGAGTAATTTTTAAACAGGTTTACTGAGATATAATTCACAGATCACAGGAACCACCCGTTTAAAGTGTACGGTGTTTGCGAGAATATTCATAGGGTTGTGCACCCGTCACACAGTCTGATCCTAAGCACGTTCATCTCCTCAGGAGATGTGCTATATGCACGAGCAGTTACACACAGGCCCCATAGCCCCCCAGCTCCTCAGCCCCAGGCAGCACTCACCTACTGGTCTAGTTTCTCTCTCCATGGGTCTGCCTTCTCTAGACGTTTCATCGAATCGGTGTCCTGTGATACGTGACAGTTTGTGTGTGGTTTGTTCACTTGGAGGAACATCTGCAGGGTTCACCCCGTCGTATGTATCAGGGCTTCGTTCTTTTTATGGATGAATGATACGCCGTTGTCTGGACAGGTGACCTTTTATTTATCCACTCATCAGTTGGTGAGCATCTGGGCTGTTTTTGTCCCTTGGCTATTGCAAAGAGCACTGGTTAAGAACCCTTAGGCATCAGTTTTCGTCGTACCTAAGTTCTGATTTCTCTTGGGTGTATGCCTCAGGGTGGCATTGCTGGTCCGTAGGGTAACTGTTTGACTGTTTAAGGAACTGCCAGACTTTTCCAAAACGGTCGTTTTACACTTCCACGAGCACTGTATGAGAGTTCATTGCCCTGTTGCATTCTGCAGAATTTCCTTTTTGACGGCTGAACAGTGCCCCATCGTAGGCACACACCCCATTTCCTGTATGTGTGTAGTTGCCCATCGGGGACATTGAGGTGGTCTCCACCTCTTGGCTACTGTGAATAGTGCTGGAGTGGACATGGGAGTTCAGATGTATTTTTGAGATCTTGACTGCAATTCTTTTGGATGAATACCCAGAAGTGGGATTGCTGGACCATATGATAGTTCTACTTTTAATTTTTGAGATAATTTCATACCATGCAGTCTTTTTTTTCTACTTTTTTATTTTATATTGGAGTATAGTTTTTTATTGGCGTGTATATTGGAGCATAATTATTTACCATGTTGTGTTGGTTTCAGGTGTTCAGCAAAAGTGGTTTAGTTATCCACTTATCTGTTCTTTTCAGATTCTTCTTCCATAGAGAAGATCATTGAGTATGGTTACTATTACAGATCATTGAGTATGGTTACTATTGCAGATCATTGAGTATGGTTCTCTGTGCTGTACAGTCGGTCCTTGGGTTTTTTTGGTTCTGTTCTGTTTGCTGGGCTGCACCGGGCCTTCCTTGCTGCGTGCGGGCTTTCTCTAGTGGCGTGCCAGGTCTGCTCTGTAGTTGTGGTGTGCAGGCCTCTCATTGCAGTGGCTTCTCTCGTTGCGGAGCATGGCCCCGGGGCACACGCACTTCAGAAGTTGCAACACGCTGGCTCGGTAGTTGTGGCGCACGTGGCATGTGGGATCTTCCCAGATCAGGGATCGAACCCATGTCCCCTGCTTTGCAAGGTGGATTCTTAACCGTTGGACCACCAGGGAAGTCCAGGAGGTCCTTGTTGATTATCTATTTTATATACAGTAGTGGGTCTATTAGCTGCTCCAGAAAGGGAGTCAGAAAGGGCCTCACAGGTCAGTTGTAGCCAGCCTTTTTGAGGCTCTTCTTTACGTGTTTTCCAG
Seq C2 exon
ATCCCCTGGATGACTCCTTCGGCATCTGTCTGGTGAAGGACGACACCAAGATCAGCATTGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012606:ENSBTAT00000061246:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.491 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACGAGAGAAACAGCAAGG
R:
CGTCCTTCACCAGACAGATGC
Band lengths:
351-2210
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development