BtaINT0119903 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014947 | PTPN13
Description
Bos taurus protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase) (PTPN13), mRNA. [Source:RefSeq mRNA;Acc:NM_174590]
Coordinates
chr6:103455936-103456303:+
Coord C1 exon
chr6:103455936-103456010
Coord A exon
chr6:103456011-103456128
Coord C2 exon
chr6:103456129-103456303
Length
118 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
TTCATTTTTTTCAATTGTAGACC
3' ss Score
10
Exon sequences
Seq C1 exon
AATTTCTTTGGTCCAGAGTTTGTGAAAATGACGATTGAACCATTTATATCTTTGGATTTGCCACGGTCTATCCTT
Seq A exon
GTAAGTAATAAGACCACTTTGTCACTCTGAGAAAATAACTTTGGTAATGATTTTTTAAGCAGTTAAAATTCTTATCATGGTTCCATTGGTAACTGCCATTCATTTTTTTCAATTGTAG
Seq C2 exon
ACCAAGAAAGGGAAGAGTGAAGATAACCGAAGAAAAGTTAACATAATGCTTCTGAGTGGACAGAGACTGGAACTGACTTGTGATACCAAAACAATATGTAAAGATGTGTTTGATATGGTGGTGGCCCATATTGGCTTAGTGGAACATCATTTGTTTGCCTTAGCTACTCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014947:ENSBTAT00000055276:10
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=0.017
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF093795=FERM_N=PU(49.4=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTGGTCCAGAGTTTGTGA
R:
TGAGAGTAGCTAAGGCAAACAA
Band lengths:
243-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]