BtaINT0118679 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038904 | PRRT1
Description
proline-rich transmembrane protein 1 [Source:HGNC Symbol;Acc:HGNC:13943]
Coordinates
chr23:27039225-27040272:+
Coord C1 exon
chr23:27039225-27039760
Coord A exon
chr23:27039761-27040112
Coord C2 exon
chr23:27040113-27040272
Length
352 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
AACCTTCTTTCCTTTCACAGCCC
3' ss Score
10.54
Exon sequences
Seq C1 exon
GTCTCCCTGACTCAGTCCCTCACACCTCTCCACCACCCTACAATGCCCCCCAGCCCCCCGCCGAACCTCCTGCCCCGCCCCCACAGACAGCCCCTTCCTCGCACCATCACCACCACCACCACTACCACCAGTCCGGCACTGCCACCCTCCCGCGCTTAGGGGCAGGGGGCCTGGCTTCTGGGGCCGCCGCTCAGCGCGGTCCCTCGTCCTCCGCTACCTTGCCAAGGCCCCCACACCATGCCCCTCCTGGCCCGGCCGCTGGGGCGCCCCCACCCGGCTGCGCTACCTTGCCCCGCATGCCACCCGACCCTTACCTGCAGGAGACTCGCTTCGAGGGCCCACTGCCCCCACCGCCGCCCGCCGCCGCCGCCCCGCCCCCGCCGGCGACCTCTCATACTGCCCAGGCCCCGGGCTTCGTGGTGCCCACGCACACGGGAGCGGTAGGCACGCTGCCGCTGGGTGGCTACGTAGCCCCGGGTTACCCTTTACAGCTGCAGCCTTGCACTGCCTACGTGCCGGTCTACCCGGTGGGCACG
Seq A exon
GTGAGTACAGGGCGGACAGGGGACTGGAAGGAGGGGGCTGGGAGAAGGATGGAACAGGACATGGAATTGGAGGCACAGTGGGGACTGGTGGGAAAGAGGAACAGAACCAGGGGACCAGGAGGCGATCTGGGGCCAAGGGAGAGGAGAGACTAGAGAAAGATCTGGGAATGGGGTGGGTGGTCTGTTGGAGTCAAAGATCAAGATCTGGCAGGGGAAACAGCCTTGAAGTCCAGAGGAGGTTTAAAAGAGGAAAGCAACCTTCTTTCTCTGCTAGACGTGGAAAGCTGGTGGGCTCAAAGAGGGTTTAAGAATGATAGACGTCCCCTCCCTACAACCTTCTTTCCTTTCACAG
Seq C2 exon
CCCTATGCAGGCGCGACCCCGGGGGGAACAGGAGTAACCTCCACGCTCCCCCCGCCACCCCAGGGCCCAGGGCTGGCCCTGCTGGAGCCAAGGCGCCCGCCCCACGACTACATGCCCATCGCGGTGCTGACCACCATCTGCTGCTTCTGGCCTACAGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038904:ENSBTAT00000010290:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.816 A=NA C2=0.444
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF045057=Dispanin=PU(45.6=75.9),PF0489312=Yip1=PU(38.6=72.2)
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:
ACCCTTACCTGCAGGAGACTC
R:
CGATGGGCATGTAGTCGTGG
Band lengths:
351-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]