BtaINT0118680 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038904 | PRRT1
Description
proline-rich transmembrane protein 1 [Source:HGNC Symbol;Acc:HGNC:13943]
Coordinates
chr23:27040377-27041581:+
Coord C1 exon
chr23:27040377-27040392
Coord A exon
chr23:27040393-27040462
Coord C2 exon
chr23:27040463-27041581
Length
70 bp
Sequences
Splice sites
5' ss Seq
TGAGGGAGC
5' ss Score
-4.26
3' ss Seq
TGATCTTCTTTCCCTCCCTGTCC
3' ss Score
1.55
Exon sequences
Seq C1 exon
AGTGCTGGACGTTTGA
Seq A exon
GGGAGCATCTTAGAGGGAGGCTGAGGCGTGCGGCCGAGGTAGCGGCTCTCTGATCTTCTTTCCCTCCCTG
Seq C2 exon
TCCCCCGCAGGTGCGCACGGCCTTGGCCCGCGGAGACATGGTGTCAGCTGAAATCGCTTCACGCGAGGCCCGGAACTTCTCCTTTATTTCCCTGGCGGTGGGCATTGCAGCCATGGTGCTCTGTACCATCCTAACCGTAGTCATCATCATTGCAGCGCAGCACCACGAGAACTATTGGGATCCGTAAGGACAACCACGGCCCGGCCCCACCCTGCGCCCCTCGACGTCCCAAGCACGTTTTGCCGTCAAGCCGGGGATCCACAGTGGGCGCCCCGCACACCCGCTTCTGGGGCTACTGGACTTGGTTACATCCTAAACTAGGCCTCCACGGAAACTCTCGCCTTGCGAGCACGCTCGGAATCCAGTTCCTCAGGAACCTCGCCAAAACCCACACTAATAGGGACGCCACTTCCCGGCCGGGCCCTCAGTCGCTCCAGGCCCCCACCCCCTCTAAATACAGCACCCCCAGCCGAACTCTCTCGGTCAAGGCTCCCCAGACTGAAAACTGGTCCCTAAAGCCCCGCCTCCTCCATAGGTTCCGCCCCGGCTCTGATAAAACCCCGCCTCCAGGTCGGCAGGCTCCGCCTTCTTTTCTTCCCTGCGGGGTGATTCAGTCCGGTGATTGGGTTTGTGGCGCCAGGCCTTGCCCGGATAGTTGTCAGTATACTTGTCACTCCACACCTTCTCCCGGCGTGAGAGCCGAGCCCCAGGTTAGCCAGAACCCTCACCCTCACTTCCACTTCTGTCTCTCCTCCACTCCATCCCCGTCTATTTTCATGTTAATCCCAGGACCTCTATAACTTTTGGGTTTTGGCGGGATGGGGGGCGGTGAGGGGGGTTTGGAATGAGATTTAGGAGGTTACCGGTTTCGGAACCTTCTCCCTGGAAGAAGATTAAGTCCCCGTTCTCTGTAAATACTCCCTTCCTCCTACCCCAACTGGGCAAGCGAGCAGAAAGAACCGAGGGTACAAATCTTCCACTATCTGGAAGGAGCCAGCCCAATCCCTGTTCCTCATTAGTCCTCACCTTGTTCTGATCTGTGTGTGAGTGTGTGTGTGAACTTCTGAAAGACAATATTAAATAGATTAAGTGGATTTATCACCCGCAATCCCGAAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038904:ENSBTAT00000010290:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF045057=Dispanin=FE(5.6=100),PF0489312=Yip1=FE(5.0=100)
A:
NA
C2:
PF045057=Dispanin=PD(47.8=68.3),PF0489312=Yip1=PD(55.4=88.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]