BtaINT0113940 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001271 | PLG
Description
Bos taurus plasminogen (PLG), mRNA. [Source:RefSeq mRNA;Acc:NM_173951]
Coordinates
chr9:98047062-98048978:-
Coord C1 exon
chr9:98048858-98048978
Coord A exon
chr9:98047181-98048857
Coord C2 exon
chr9:98047062-98047180
Length
1677 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
AGTCCTTCTTGCACCTTCAGATT
3' ss Score
8.92
Exon sequences
Seq C1 exon
ATAAATGTATGCATTGCAGTGGAGAAAACTATGAGGGCAAGATTGCCAAGACCATGTCTGGACGTGACTGCCAGGCTTGGGACTCTCAGAGCCCACATGCCCACGGATACATTCCTTCCAA
Seq A exon
GTAAGTCTCCCTGGCAGTGAAATTGGATGTTTAAGCCTCTGCAATGCTATGGGTAATTTAATATTATCTAGGTTTTTTAGCATTCCTCAAAAAGTGAACACACCCAGTGTTTTTGAATTTCAAAGTTTGCATTTTCCTACGTGACTGCAAAAGAAGTACACATTCTTTTTTTAAATTTATTTATTTTTATTGAAGGAGAATTGCTTTGTAGAATTTTGCTGTTTTCTGTCAAACCTCAACATGAATCAGCCATAGATATACATATATCCCCTCCCTTAGAAGTATACATTCTTACTAGTTAAAATGTGGTCCATGGAAGGGTGCTGTTACCTAAGCGTTTGTTAGAAATGCAGAATCTCATCCCCACTGAGTCTGCATTTGCACTGTAACCAGATTCCTGGCTAATTTGTAGGTTAAATGTAAGAAATATAGATATATGCATCCATACACACACAATATATACATCTCACCTGTGTGCTTTCCAAATATTGCCCTTCTCTTTGTATTCCTTTCTTTTTCTTCATGCTGATGAGATTCAAAGCTTCCTACCCTGTGATCTGTAGGTGGGCTTTAGGGCTTTGTGAATCCCTTAATATTTTATGTGTGTTTATACCGGTGTATTTTTATGGGATGGAGGATCCCTAACTTTCACTAGCTACTCAAAGGGGGTCATGAATCTATAGTAGAAAAAAGAGTCCCTGATCTAGAAAGTAATGGTGGGGATAAATTTCTGCATCTCCTATTTCATATTAATTGTACTTAAAACACCTCCCTCTCTATAGCTGCTTCTGGTCATTCTCTTCATTTTTTGATGACTACAGGATTATAATGGGGGTTGTAAAAACTTACAGGAAAAGAGACTAAGTCACAGATTCCAGTGTGGAAAACAGCTCCCCTGTGTGTCTGTACCTCCTGCTTCAAATAGCTGTCTTAAATCACCGCTGCTGTTATTTTCTTTTCCCTACTGTATTCCAAAGAAGAAACACAGTGAAGGCCTTCAGCCTCAGAATTGGTTAAATTTACTTCCCAGAAACTGGAAGAAGATTGCCTAAGCCATTGCAGGTTGCTCTGCCCATCCTGACAAAGCATTTACAGTCTCAGGAAGGGACATGAAATGAGCCCGGAGGGACACGAGGTGTGGCGTTCATCTCACAGGCTCCATCACTCGGTCCCTGCTGCGGGGGTGCTCCCTGGCCTGCACACAGGGACATAGCTTATCTGTCCCCGTTTCTACAAGTTTAAAGATTAGCAGGCTCAGAACCGGGTAGACTAGAAGGACCATTCCTTTAACCTATGAAGACACCAACTTCTAGGCTGCACTGTTTACTAAAGAACTATCTCTAGCCAGTGAGTACTTTGTGTTTTAAAAATTGCTATTAATTGCTGCTGACTCATTGAAGTTGGCTGACATAAGTTTTCCAGATGGCCCAAATGACAAAGTTGATCCTGTTCCATGATTGTGGCACATGTAGACTGTTAGAAAATCAATCCTTGGAACACTCAGCTAATCTTTCTTATGAGATGGTCATCACACCGAGGATAACCTTCATCCGGTCCCCTCCTTGGGTGCCTGACTGTGTCTAGCACACAGCGGTGCTCAGTATTTGCTCATTTGAAATGATTCTCATCTGTGAAGGTAAATGTTCGGTGCTGTTAAAGTCCTTCTTGCACCTTCAG
Seq C2 exon
ATTTCCAAGCAAGAATCTGAAGATGAACTACTGCCGTAATCCTGATGGGGAGCCCCGCCCATGGTGTTTCACCACCGACCCCCAAAAGCGCTGGGAATTCTGTGACATCCCGAGATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001271:ENSBTAT00000053284:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(48.7=92.7)
A:
NA
C2:
PF0005113=Kringle=PD(50.0=95.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAAATGTATGCATTGCAGTGGAGA
R:
CATCTCGGGATGTCACAGAATTCC
Band lengths:
238-1915
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]