BtaINT0058364 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010517 | EVPL
Description
Bos taurus envoplakin (EVPL), mRNA. [Source:RefSeq mRNA;Acc:NM_001205676]
Coordinates
chr19:56262401-56263939:+
Coord C1 exon
chr19:56262401-56262496
Coord A exon
chr19:56262497-56263813
Coord C2 exon
chr19:56263814-56263939
Length
1317 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TGACCACCCACCGACCTCAGTTC
3' ss Score
4.16
Exon sequences
Seq C1 exon
GCCCACCAGGAGGCCCTAAAGGTGGAGTGGCAGAACTTCCTGAACCTTTGCATCTGCCAGGAGAGCCAGCTGCAGCACGTGGAGGACTACCGCAGG
Seq A exon
GTGAGCCGGGCGGGGCTGGGCAGGGCCGGGCGGGAAGGCACGATGCGCATCTCGGGGGCCAAGGCACCTCATAAAAACGACAGAGGTGCATCGTTGTGACTGGGTCCCAGAGGAAAACAATGTCACCCACGAATTCGCGACAGGGTGACGTCACTCCTGGGGGTGTGAATGTTTGTTCTTGAAAGTGAAAAAAAAAGAACTTTTTTTTTTCATAAAAAATAAATCACAAATATGCATATGTAAATGATATACAGAATATCTGTGATATTAACATTTCATGTCAATGATGGGGAAAGTAAGGACAAAAAAAGGGAAAAGTTACTCAAAGGTACGTCTCTGGTGCCCCAGCAGTTAAGACTCTGCACTCCCAATGCAGGGGGCCCGGGGTTGACTTTCTGATCAGGGAACTATGTCTCATGCAAGTAAGAGTTCTAACGCTGCAACTAAAGATCCCACACGTACAACTAAGACCCACACAGCCAGATAAGTAAATTAATTAAAAAAAAAAAAATTTTTTTTAAAGCTCCTTAGAAGGTTCAATAATGAAACAAGGGTTGAGAAACATTGATATAACAGACTATAATAGACAACAGTCCTGTCTATAAAAAGACAATTTTTGGTTGTTTTGAAAACAAAAAAAATTAAAAATATATATCCACAATGGGGACTTTTTTTTTTTGGCTGTACCACACAGCTTGTGAGATCATAGTTCCCCAACAGGGATTGAACCCAGGTCCATGGCAGTGAAAGTGCTGAGACCTAAGCACTGGGCCGCCAGGGAATGCCCAGTGGGACTTTTTTTGGGGTTTTTTTGGTAGTTTCCAAGTAAAATGGTTTATAGACTTTGAGGAAAAAAGAAGCCAAAAGTTTTCCCTTTTTTCTTTTTTATTAAGGACATTTTCCTATATATCCACTATACGTTAGCACATCCACTGAGGAGAATCCCGTGGTGTCACCCAACTGTGGGCTGTCTCTTTAAAGCACACGCGTAGCTTCTGCTCAGAGACGCCCTGGGCACCCACCCCTGGATCCCAGCCAGGACTCCAGGTGCTGGAGCGAGTCCTCCAGGAGGGGCACTGCCCGTCATCTGTGCAGGAAGGACAAAAAACAACGTGTTTTACGACACTAAAAGAAATTAAGTTCAGTGACCCCCAAATACCTGATTTGCCGAGCGCTTCAGTTGGAAGGTCCCACTGCCTGGGTAGAAAGGCCGACGGCGAGTGGCACTTTGGGTTCAGCCAGTTTGGGTTTAGCTGGTTTGCAGGGTGGTGGGCAGTGAGTGCCCCAGCTCCGCCCCTGACCACCCACCGACCTCAG
Seq C2 exon
TTCCAGGAAGAGGCGGATTCTGTCAGCCAGACCCTGGCAAAGCTCAACTCCAGCCTGGACAGCCAGTACAGCCCTGCCCCGGAGGGCCCACCTGGTGCTCTAATGGAGATGCTGCGGCAGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010517:ENSBTAT00000013898:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.738
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(23.8=78.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACCAGGAGGCCCTAAAG
R:
TGCCGCAGCATCTCCATTAGA
Band lengths:
214-1531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]