BtaINT0110672 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001634 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr23:7533246-7534103:+
Coord C1 exon
chr23:7533246-7533326
Coord A exon
chr23:7533327-7533480
Coord C2 exon
chr23:7533481-7534103
Length
154 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CAGTTGCTTTCTTTACCTAGGTC
3' ss Score
7.89
Exon sequences
Seq C1 exon
CAGTCCCATCCGGATGTTCGCTTCCTTCCACCCCTCTGCCAGCACCGCAGGGACCTCTGGGGATGGTGAACCCCCAGACAG
Seq A exon
GTGAGATTTTACTCCTTTACCTGTGATACCTCTGTACTCTTAACCTCCTTGGTCTCTTAAGCATTTTTGTTGTTGTTCCTCTGATCCCCACACGGCCTCCGTTTCTGGTCAGTCTTTATCTCCATCTGGACTGACAGTTGCTTTCTTTACCTAG
Seq C2 exon
GTCACCCCTGGAACTTCACATTGGTTTCCCCACAGACCTCCCTAAAAGTGCCCCCCACTCGATGACTGCCTCATCTTCCTCAGTCCCAGCCCCCTCCCCAGGTGTTCCCAGACGCTCAGCACCCCCTTCTCCCCTGTGCCGTAGTTTGTCTCCTGGGGCTGGGGGTGGAGTCCGAGGTGGGGTCGGTTACCTGTCCCGTGGGGATCCTGTCCGGGTCCTTGCTCGGAGAGTGCGGCCTGATGGCTCTGTGCAGTACCTGGTTGAGTGGGGAGGTGGGGGCATCTTCTGAACAGCCTGCCTCTGCCCAACTGCCCATTGACACACACCGGCACTTTCATACCCTGACCTCTGACCTCACCTACAGCTGGGATGTACCTGGAGCACTAGGAGGGGTATGTCCCCCTACTGTCCAGGCTGGAATCCAGGTTGGGGGTTGGGGAAGAGGCTCACTCTCCTCTACTCCCTTCACGGTTCCTGACCCTTCCCCCCAACCATTCCCTCATTTCCTTTGATGTTATTTTGTTACAGCTTTTTAAATATTTTTTAAAATTATTTAACCCCTGGGGACGGAGACTGAGGAGGGGAGGAGAACAGATCCTGGGCTCTGTATCATTGAAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001634:ENSBTAT00000002140:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.719
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF140611=Mtf2_C=WD(100=43.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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:
CAGTCCCATCCGGATGTTCG
R:
CCAGCCCCAGGAGACAAACTA
Band lengths:
243-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]