BtaINT0119914 @ 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
chr6:103491766-103492406:+
Coord C1 exon
chr6:103491766-103491873
Coord A exon
chr6:103491874-103492274
Coord C2 exon
chr6:103492275-103492406
Length
401 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
TGGGTTGTCTGTTTTTACAGGAG
3' ss Score
8.65
Exon sequences
Seq C1 exon
GATTTCAAATTATTGGTGGAGAAAAGATGGGAAGACTGGATCTAGGTGTATTTATTAGTTCAGTTACTCCTGGAGGACCAGCTGACTTGGATGGATGCTTAAAGCCAG
Seq A exon
GTATTTATTTTTAGGGAATTTAGGGAATTTCCTAAGTGTTTACTGGGCTTCCCTAGTGGCTCAGATGGTAAAGCTGCCTGCAATATGGGAGATCCAGGTTCGATCCTTGGGTTGGGAATATCCCCTGGAGACGGGAATGGCTACTCACTCCAGTATTCTTCCCTGGAGAATTCCATGAACAGTGGAGCCTGGCAGGCTACAGTCCATGGGGTCGCAAAGAGTCAGACACACAACTGGCCAACTAACACTTTCACTTTAAAGTACTTACTGACAGTGAATTTGCACAGATGGCAAAAGTAGAAGTTGGGGAAAACAGAAATAATGAGGGGGAGGTAACATTTCTAAGATTTAGCCTGAATTTCTCTTAGCTGTAGAAGACACTGGGTTGTCTGTTTTTACAG
Seq C2 exon
GAGACCGTTTGATATCTGTGAATAGTGTCAGTCTGGAGGGGGTCAGCCACCATGCCGCAGTTGAAATTTTGCAAAATGCACCTGAAGATGTGACCCTGGTTATCTCTCAGCCAAAAGAAAAGCTATCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014947:ENSBTAT00000055276:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.222
Domain overlap (PFAM):
C1:
PF0059519=PDZ=FE(42.9=100)
A:
NA
C2:
PF0059519=PDZ=PD(41.7=77.8)
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:
TATTGGTGGAGAAAAGATGGGAAGAC
R:
CTTTGGATAGCTTTTCTTTTGGCTGA
Band lengths:
230-631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]