BtaINT0113938 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001271 | PLG
Description
Bos taurus plasminogen (PLG), mRNA. [Source:RefSeq mRNA;Acc:NM_173951]
Coordinates
chr9:98050961-98053295:-
Coord C1 exon
chr9:98053181-98053295
Coord A exon
chr9:98051101-98053180
Coord C2 exon
chr9:98050961-98051100
Length
2080 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
CTCTTTTCCATCCTCTGCAGGTT
3' ss Score
11.81
Exon sequences
Seq C1 exon
TCTACCTTTTGGAGTGCAAGACCGGAAATGGGCAGACCTACAGAGGGACCACAGCCGAAACAAAAAGTGGGGTCACCTGCCAAAAATGGAGCGCCACTTCTCCACACGTGCCCAA
Seq A exon
GTAAGACTTTCTCTTTTGTCTCCGTGTTCACCTCTTATCCTCAGAACGATTCCGTTACTTCTGACTCAAATCAGAACATGTGACTAGACCAGCAGGCATGGGGAGAATCTTACTGATGCTGGTACAGAGCTGCTCAATAATTGATGGCATAAAAGCAGAAAACGGCTGCTGTCCATTCATTCTTGTGTATATGCTTTTTTTTTTGGAAGATTTAAAACAATAAAAAAAGAACAATAAATTCTAGAACATGAATTCTAGGCTGAGACTGAGAAAATAAAAAGATGATGATGTTTACAATTCAATCAGTCTAAACCAAATGTGTTCACATCAACATTGCAAAAAACAGATTAGCTTGCAACTTGCCTATTATTTATTTTAATGTCATTTTTTATACTTTGCCCAATATGGTGTTCAGTTCAGTTCAGTCACTCAGTCATGTCCGACTCTTTGCGACCCCATGAATCGCAGCACGCCAGCCCTCCCTGTCCATCACCAACTCCCTGAGTTCACCCAAACTCATGTGTATCGAGTCGGTGATGCTATCCAGCCATCTCATCCTCTATTGTCCCCTTCTTCTCCTGCTCTCAATCCCTCCCAGCATCAGGGTCTTTTCCAATGAGTCAACTCTTCGCATGAGGTGGCCAAAGTATTGGAGTTTCAGCTTCAGCATCAGTCCTTCCAATAAACACCCAGGACTGGTCTCCTTTAGGATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGGCTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTCGGCGCTCAGCTTTCTTCACAGTCCAACTCTCACATCCATACATGACCACTGGAAAAACCATATTAGGTGGTATTAAATTCTCATTAACAATGCTTATCAAGTGGGAATTTAGTGTCTATGATCCTCCCCACTCCCAAATTGTCTTTAGCCATCCTTATGAGTTGGGCTTCACTGGTGGCTCAGTGGTAAAGAATCCACCTGCCAATGCAGGAAACATGGGTTCAATCCCAGGGTCAAGAAGATCCCCTGGAGAAAGAAACAGCAACCCACTCCATTATTCTTATCTGAAAAATCCCATGAACAGAAGAACCTGGTGGGCTACAGTCCATGGTGTCGCACAACTGAGAGACCAAGCAACAACAATAACAAGATGAAGTCTCATATTCCCAGCACACTAAGGCTTATTGAGATTAAAAAGATAAACCAAATGGCCAAGTCATAGAACGGCAAGGGTCTGAGAGAGAATCTTGGTCATCTATACCCCAACCGGCGAGGAAACTGAAGTCCCAAGAGCACCAAATCTACCAAAAACAGGTACACAGAAGAACCAGAAACAAAATCTGCCACTTTAGATTCAAAGTCTTAGGTTTTTAACCCAATTTCTTATTGCAACACAGCAGCTCATCTCTGAAAATGAGCTTCACTCTATCCTCCCACTCGCCCATTAATTCTAGACATACCTCAGAAAGGATGTGGAGTTTGGCATCAGACAGATCTGACTTTAAACTCTTGAGATGCTATTTATTAACTGCTCAAGCTTAGGTGAGATTTGATCTGTTTCACATGGCTGTGCCTCAGTTTTCTGATCTGGGAAGTGGGAATATAATAACACTTTCCTGATGGGCATTTTTATTGACTACATTAGAGAATGTATAGAGAGACTTTAGCATAATGCTTCATGCAGAGTTCACACAGACAAAATGGTATCAACTGTATTATTTTTACAGAGAGAAGGGCACCTGATAAAAGTAGGTGTTTGGCATGTCTCATGAATTTGGCAGGCTTTGAGGGCTTTAAATTTCTACTGTGCATAAGACACTTTGACTCTACTTCTAAGACTTGGCTGTTCACACAGTAATAACAGTGATATTAGCTACTCTACTGAACAGGCTATCAATAGAGACTCTGAAAACTGGATACAAATGCTATTGGACACAGCCGAAATATAGTTGGATGACACAATCTCAAACCACAGTTGGGAAGGGCGGGGGGGGGTCTTATCCTGCCCTGCTGATAACATGTTGATTTTTAAAATATAGTCAAAGTGACTCTTTTCCATCCTCTGCAG
Seq C2 exon
GTTTTCGCCTGAAAAATTTCCTCTAGCGGGACTGGAGGAGAACTATTGCAGGAATCCAGACAATGATGAGAATGGGCCCTGGTGTTACACCACAGATCCAGACAAGAGATATGACTACTGTGACATTCCCGAATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001271:ENSBTAT00000053284:4
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=0.021
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PD(1.3=2.6),PF0005113=Kringle=PU(41.8=84.6)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=93.8)
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:
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]