BtaINT0058357 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010517 | EVPL
Description
Bos taurus envoplakin (EVPL), mRNA. [Source:RefSeq mRNA;Acc:NM_001205676]
Coordinates
chr19:56270239-56274684:+
Coord C1 exon
chr19:56270239-56270331
Coord A exon
chr19:56270332-56271243
Coord C2 exon
chr19:56271244-56274684
Length
912 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TCTCCCCTCTTCCTCTGCAGAAA
3' ss Score
13.09
Exon sequences
Seq C1 exon
GAGAAGAACCTGACGAAGGCCTACACTGAGGTGGCAGCTGCCCACCAGCAGCAACTGCACCAGCTGGAATTTGCCAGAAAGATTCTGGAGAAG
Seq A exon
GTATGGGGGTGATGCCCACCCTAGGCAGCCTGGGCGGGTGGTTGACCGGGCAGACTTTCCTACCTGCTCACACTCAGCCCCGGGACAGGCTCAGCGGCCTGAGGGAGGTGCGGCTCTCTGCCTCCCCCAGCAGCCCTTCCAGGCTGGTTTCCATCTCAGAGTTAGTACCAGGAGATGTCACTCAGTGTAGTCACAGCTTAGCCCCTGGGCAGCACCCCGGTGGGGACAGGAGAAAATCCCGCAGTCTTCAGCCTCAGAACCCAGCCCTCATGGGCAAGAGGCCACCTAGGTCTCCATCCCTGGGAGACCAGAAGCTGGGAGCTCTCCACGACTCTTGGTGAGTGGCCAAGGAACTGGCCAGCCTCCTCCCACCCAGAGGTGTATCCCAGGATGCCCCAGAGGAGCACAGGCCCATTTCTGGGAGCCTGGGAGGAAGGGGAGCAGGGAAAGGTTGGGAAGGGAGGACCTTCTTACTTTCACATTCTCGTGCAAATGCAGCCTAAACACTGCCTTACATCCTAGCACACTGGGCATTGATGAAGCCTCTTAAAAATCCTACCTTCGAACACCTCAGATCTCAGTTCCACCTCCCAGGACCTACTGGGAAGTCTCAGAAAGCAGGGAAGGGTCCTGAACTCAGGAGGGTGGGGTGTTGTTGTTCAGTTGTTCAGTCGCTTAATATCGGACTCTTGGTGACCCTACGGACTGCAGCATGCCAGATTTCTCTGTCCTTCACCATCTCCTGGAGTTGGCTCAAATTCGTGTCCATTGAATTGCTGATGCCATCCAGCCATCTCATCTTCTATCGCCCCGTCTCCTCCTGCCCTCAATCTTTCCCAGCGTCAGGGTCTTTGGGCAGGGGCTTATCCCTTTCCTCCCTTTACCCCAGGACTCTCCCCTCTTCCTCTGCAG
Seq C2 exon
AAAGAGCTCAATGAGGACATCCAGGTGACACCTAACGCCCAGCAGGGGTCTGAGAGCCCAGCCCGGGGGGGCAGGAAGTCAGAGGCCCTGAGGTCCCAGCTAGAGGAGGAGAGGAAGCGGGTGGCCCAGGTACAACGTGAGCTGGAGGAGCAGAGGAGCCAGTTGCTGCAGCTGAAGACCCAGCGGCCCGTGGAGAAACTGGAGGAGAAGGAAGTGGTGGAGTTCTACCGGGATCCCCAGCTGGAGAGCAACCTGTCCAGGGTGAAGTCCCAGGTGGAGGACGAGGGCAAGAAGCAGGCTGGCCTGCAGGCAGACCTGGAGGCAGTGGCCCAGAAGGTCATGCAGCTGGAGAGCCAGAGGAAGGCCACGGAACCTCACCTGCTGACCAAGGAGGTCACCCAGATCGAGAGGGACCCCGGCCTGGACAGCCAGGCAGCCCAGCTCAAGAGTGAGCTCCAGCTCCTGCAAGAGGAGAACACCGCCGTCTTGGCCCAGCTGGAGGCACTGAAGGCAGAGCTGCTGGCCCTTGAGCAGAAGGAGGTGAACGTGAAAGAGACAGTCGTGGTGAAAGAAGTGGTCAAGGTGGAGAAGGACCTGGAGATGCTCCAGGCAGCCCAGGCCCTGAGGCTGAAGATTCAGGAGGATGTGGCCCAGCGGAAAGGGGCGGAGGATGCCGTGGCCAAGCTGCAGGCTCGAGTCGTGGAGCTGGAGGCAGCAATCCGCACTGTGGAGCCCAAGGTGATTGTGAAGGAGGTGAAGAAGGTGGAACAGGACCCCAGGCTCCTCCAGGAGGCATCCAGGCTGAGGAGCCTCCTGGAGGTGCAGAGGAGTGAAAACGAGGTGCTGGCCAGGGAGCTGAAGGAGCTGCACAGCAAGCACAGCGCGGCGGAGAAGCAGAAGCCCCGGGTGGATCTGCAGGAGCGCGTACAGGAGACCTTCCGGGTGGACCCGGAGACAGAGCGGGAGATCGCACAGCTCCGGGCTGAGCTGCAGGAGACTGGCCGCAAGAGGAATGGCACGGAGCAGGAGGTGGAGCGACTGCTCTCTGAGCTGGTGGTGCTGCGGGCCCAGAAGCCCACCGTGGAGTACAAGGAGGTGACGCAGGAGCTGGTGCGGCACGAGAAGAACCCCGAGCTGCTGCGGGAGATCGACCGCCTGAAGGCCCAGCTCAATGAGCTGGTCAACGGCAGTGGACGGGCCCAGGAGCAGCTCATCCGGCTGCAGGGGGAGCGCGACGAGTGGCGGCGCGAACGCTCCAAGGTCGAGACCAAGACGGTGAACAAGGAGGTGGTGCGCCGTGAGAAGGACCCCGTCCTGGAGCAGGAAGCCCAGCGGCTGCGCCAGGAGGTGCGGGAGGCCACTCAGAAGCGGCGGGCGGCCGAGGACGCCGTCCACCAGCTGCAGAACAAGTACCTGCTGCTGGAGAGGCGGCGGCCTGAGGAGAGGGTGGTGGTGCAGGAGGTGGTGGTCACCCAGAAGGACCCGAAGCTCCATGAGGAGCACAGCCGGCTGAGCCAGAGCTTGGATGAGGAGGCCGGCCGGCGGCGGCAGCTGGAACGGGAGGTGCAGCAGCTGCAGGCCGCCGTGCAGGAGGACGAGGGCCGACTCAGCTTCCGGGAGGACCGTAGTAAGAAGCTGGCTGTGGAGAGGGAGCTGCGGCAGCTGACCCTGAAGCTCCAGGAGCTGGAGAAGCGGCCTCCGGCAGTGCAGGAGAAGATCATCATGGAGGAGGTAGTCCAGCTGGAGAAGGACCCGGACCTGGAGAAGTCCACGGCGGCCCTCCGGCAAGACCTGGCCCAGGAGAAGACCCAGGCGACCGAGGTGCATCGGGAGTGCAAGAACCTTCAGGTGCAGATCGACGTGCTCCAGAAGACGAAGCTGCAGGAGAAGACCATCTACAAGGAAGTGATCAGGGTGGAGAAGGACCCCGTGCTGGAGGGAGAGCGTGCCCGGGTGTGGGAGGCGCTCAACCGGGAGCGCGCGGCCCGGGAGAGCCGGGAGGAGGAGGTGAGGCGCCTGCGGGAGCGGGTGGAGCGGGCCGAGGCGCTGGGGAGGACCTGGGCTCGGGAGGAGGCCGAGCTCCAGAAGACCCGGGACCGGGCAAGCCAGGAGTGCAGGCAGCTGCAGCAGGAGCTGCGGGAGCTGGAAAGGCAGAAGCAGCAGCGGGTGCTGCACCTGCAGGAGGAGTCCAAGCTGCTCAGCCAGAAGACGGAGAGCGAGCGGCAGAGGGCAGCCCAGCGGGGCCAGGAACTCTCGCAGCTCGAGTCGGCCATCCTCCGCGAGAAGGACCGGATCTATGAGAAGGAGCGGACCCTGCGGGACCTCCACACCCAGGTGAGCCGGGAGGAGCTCAACCAGGAGACCCAGACACGAGAGACCAACATCTCCACCAAGATCTCCATCCTGGAGCCCGAGACGGGGAAGGACATGTCCCCATACGAGGCCTACAAGAGGGGCGTCATTGACCGAAGCCAGTACCTCCAGCTGCAGGATCTCGAGTGTGACTGGGAGGAGGTCACCACCTCGGGCCCCCACGGGGAGGAGTCTGTGCTCCTGGACCGCAAGAGCGGGAAACAGTACTCCATCGAGGCCGCCCTGCGCAGCCGGCGCATCTCCAAAGAGGAGTACCATCTCTACAAGGATGGCCAGCTCCCCATCAGCGAATTCGCTCTGCTCGTGGCCGGGGAGACCAAGCCCTGCCCCTCCCTCTCCATCGGCGCCATCATCTCCAAGTCCCCGCTGGCCTCCCCGGCCTCCCAGAGCACCAGTCTCTTCTCCCCCAGCTTCTCTCTCGGGCTTAGCGAGGACAGCTTCCCCATCGCCGGTGTCTATGACACGACCACAGACAACAAGTGCACCATCAAGACGGCCGTGGCCAAGAACATGCTGGACCCCATCACCGGGCAGAAGCTGCTGGAGGCTCAGGCGGCCACGGGGGGCATTGTGGACCTCCTGAGCCGGGAGCGCTACTCCGTGCACAAGGCGGTGGAGCGGGGGCTGATCGAGAGCGGCTCAACCCAGAGGCTGCTCAACGCACAGAAGGCCTTCACGGGCATTGAGGACCCCGTGACCAAGAAGAGGCTGTCGGTGGGCGAGGCCGTCCAGAAGGGCTGGATGCCCCAGGAAAGCGTGCTCCCACACCTGCGGGTGCAGCACCTGACCGGGGGGCTCATCGACCCCAAGAAGACCGGCCGCATCCCCGTGGCTCAGGCTGTGCTCTCTGGCATGATCAGCGAGGAGCTGGCCCAGCTCCTGCAAGACGAGGCCAGTTACGAGAAGGACTTGACAGATCCCATTTCCAAGGAGCGACTGAGCTACAGGGAGGCCATGGGGCGTTGCCGGAAGGACCCCCTGAGCGGCCTGCTGCTCCTCCCAGCCTCGCTAGAGGGGTACCGCTGCTACCGCTCGGCCTCCCCCACTGTCCCGCGCTCCCTGCGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010517:ENSBTAT00000013898:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.289
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0068115=Plectin=WD(100=3.7),PF0068115=Plectin=WD(100=3.1),PF0068115=Plectin=WD(100=3.9),PF0068115=Plectin=WD(100=3.4),PF0068115=Plectin=WD(100=3.8)
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:
TGACGAAGGCCTACACTGAGG
R:
CCTGGACAGGTTGCTCTCCAG
Band lengths:
344-1256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]