BtaINT0165687 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012606 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:HGNC:25294]
Coordinates
chr18:54935813-54937548:-
Coord C1 exon
chr18:54937460-54937548
Coord A exon
chr18:54935954-54937459
Coord C2 exon
chr18:54935813-54935953
Length
1506 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CTTCTGTCTTCCCCCATCAGATC
3' ss Score
10.31
Exon sequences
Seq C1 exon
GTTCAGACATCTGGACCCCCATGGAGAAGAGGCTCTTTAAGAAGGCATTCTGTGCCCACAAGAAGGACTTTAACTTGATACACAAGACG
Seq A exon
GTAAGGCGCACGTGGCAGGCTGGCATAGATGAGGTTCCCTTACCGCACCGAGGGGCTAGAGCCGCAGGGCCTGTCGGGAGCAACCCTCTGCTCCTGCTCTGAACGACTGACAACTTTAAAAAGCCATCGCTGGGAACAGCCCCAAACAATACAGAAAAGAAGCCCATGTTCAAAATAAAGCCCTCCAGGCCCCACCCCACTGTCCTACTTCTGACTGTAACCTGACAGGCTTTTACTGTCCGTACAGTTTACACACATATGTACACTTTCTCAAAAAATGATGAGGTTGTATATTTGATACCCTGCTGATTATTTTGCTCTTTTTTAAAAAACTTATCCACAAAACTGCACATAATCGAAGTGTAAGATTCGATGTTTTGACGTACCTATCCCCGGTGGCTCAGCGGGTAAAGAACCTGCCTGCCCATGCAGGAGACACAGGAAACGTGGGTTCGATTCCTGGGTTGGGAAAATCCCATGGAGAAGGGAGTGGCAACCACTCCAGTATACTCACCTGAAAAATCCCATGGACGGAGAAGCCTGGTGGGCTGCAGTCCATGGGGTCAGAAGTTCCCTCCTGCGCCTTTGTAACCTCTCCTTCCTGCCATCAACTCCTGTCTGCCTCCTGCCACTGTAAATTAGTTTGCATTTTCTAGAGTTTTATAGAAATGGAGTAATCGCGCAGCACGTGCTCTGCTTTGTCTGACTTCTTATAATCAGCATGACGGTTTTGAGCTTCATTCGCGCTGTCGGGTGTGCCAGTAGTTCATCATTTTGCTGAGGAGTATCCCATTGTGTGTCCCCTTCTCTTTTTATAAACTTCGTTTTGGGCTGCACTGGGTCTTCCTTGTTGTGCATAGGCTTTCCCCAGTTACATTTTGTGGGCTTCTCATTACAGGGGTTTCTCTCGTAGGGCTAGGGCTCTAGGGTGCGTGGGCTTAGTTGCTCCCCAGCATGTGGAATCTTCCCGGACCAGGGACTGAACCTGTATCCCCTGCATTGGCAGGCAGATTCTTAACCACTGGATCACTAAGGAGGTCCCATTGTGTGTCCTCTTGGGGGCCTCTTCCCTCAGTACTTACTGTAGGGCCCTGCCCAGCTGTCACAGAGTCCATGCGGTACCCACTGCATGAGGGTGCTCTGCTTTAATTAGTCCTGGTCAGTAGACACATGGCTCCATATGGTGTCACAGTGAACACATACCTCTGTGTACATATCCCTGGACGGAAGGGTTCCTGGGCCAGCCGTGTTGCTCAGAGCATGCGAGCTTAGCTGGTGTGGGCTCTGGTGGTTTCCTCTCTGAGCCCCTCACCCCTCGGAAGGAGTCTGTGATTCTCTGCCCCTTTAGTAAAGGGGTCCACCAAGCCATAGCAGGAGAGAGTTCAGGAGGGTTTTCAAAAAGTGGCAGCTGGCCCCCTGAGGGGGAGGGGCTTTAGGGCATCGAGGCCCCACTCACTGCTGCTCCTGAGGCGCTGTCCATAGCCAGCTTCTGTCTTCCCCCATCAG
Seq C2 exon
ATCCAGACAAAGACCGTAGCCCAGTGTGTCGAGTATTATTACATCTGGAAAAAAATGATCAAGTTTGACTGTGGCCGAGCCCCAGGGCCAGAAAAGAGGGTCAGGAGGGAGCCAGATGAAGTAGACAGGGCGGAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012606:ENSBTAT00000061246:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.447
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PU(60.9=93.3)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PD(34.8=34.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGACATCTGGACCCCCAT
R:
TCCGCCCTGTCTACTTCATCT
Band lengths:
222-1728
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development