GgaINT1029636 @ galGal4
Intron Retention
Gene
ENSGALG00000015624 | VCAN
Description
versican core protein precursor [Source:RefSeq peptide;Acc:NP_990118]
Coordinates
chrZ:62474981-62477268:-
Coord C1 exon
chrZ:62477086-62477268
Coord A exon
chrZ:62476588-62477085
Coord C2 exon
chrZ:62474981-62476587
Length
498 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
TTTCCCCCTTTTCATTGCAGCGT
3' ss Score
11.63
Exon sequences
Seq C1 exon
TTGCCTGTGGTCAACCTCCTGTTGTAGAAAATGCAAAGACCTTTGGGAAGATGAAACCTCGTTATGAGATTAATTCCCTTATTAGATATCACTGCAAAGATGGTTTCATCCAACGTCATATTCCAACCATACGTTGCCAAGGGAATGGAAGATGGGATATGCCTAAAATTACATGCATGAATC
Seq A exon
GTAAGTTCTTTGAAAATGAGTCAGTGTTGGACTGGGATCAATAGACTTATTTATGTAAACATGATCATCTATAATTATAAGTAATGATAAGTAACAAGCATGTCTTTCAAGGGAAGTGAAGGAGATATAAACAAAAGTCTCGTATTACAGATGATGGCAGCAGTGCAACTCCCTCTGTAGAAAAATGAACGGGATTCAAGAACTAATATGAATGTTCCTTTTCTGTTCTTACAGAAGCCATTAAGATTCTTTAAATTAAATGGCAGGACTCTTACAAAGGCCCTGAAATTAATAGGTTACTAACAATAACTTCTATAGGTGTGTTCTAACTTTGTATAAGAAACGATACATAAATCTCCTGTCCGTAACACGGTTATACTAGTTAATCATTTGTTAGCCCTCTAATTAACCGAGAATAAATAGAAAGGGGTGTAAAGACAAATGATAAATGCTTGAGTTATTTTGATTTCCTTTTATTTTTCCCCCTTTTCATTGCAG
Seq C2 exon
CGTCCACATACCAAAGGACTTATTCTAAGAAATACTACTATAAACATTCTTCATCAGGAAAGGGAACATCATTAAATTCCTCAAAACACTACCATCGCTGGATCAGGACGTGGCAGGACTCAAGGCGCTGAGTGCTAAATGGTGAATGGGGATTTCCACCATTTCAGCCAAAGTTCTAACTTTCTGTGCCTTTTCTATCACTTGTAGGAGTATTATGAAATTGTTTTGAAACTACGGACTCCGGTATTCACAATGCATTTTGCAAAAATATTGTGTTTATCAGAAAATTTAAGAAAGTATATAGAGGTAAAGTGCTTATGGGGATAAAAAGAAACCATTTCCAGCCTATAATGATCATTAGTTTTCTATATGCCATCAGTGTGGACCATTTTATGATACTTACCAGCCTTTTGCAATATTTAAACAGCTGATTTTAGCACCAATGAAAATGTAAATAAGATGATTTTAATGTTGTTTAATTGTTTTTTGTTTTTAAAATCCTGTATATAAAATGAAAAGTCACACTAAGTTTGGGCATATTTATGGTTAGAATGGCCTCAGAGGTCTTCGGTCATTTATGACATTGTTTTTATGTTTACCTAGGCTGGAAATGGTTGGAATAACTTTACTGACTGAAATTTGCTATTAACAGGTGAAGATAAACACAAAAGTTACATGATTTTTTTTTTAAATGCAAACTGTGCCAGTTATCACTCAAGGTACAGTGTGTGTCCATGTGATGCAAAATTTAGAGCACATAAGTGGGGATATAGCATGAACTAGGGACTGCAATGTGGAACTTTTTTTCTGCTCTCCATTCCAGCCTCATCATTCGTGAGAAAGGACTGCATGGAGGACTTGTATATGACAAGGAGGGCCTGTAAAAATCCAAGTGCTAATACATTAACTTTATCAACCAGGGCCACCCTTTTTGAAAGAAAGAAAAACGAAAAAAAGAAGAAAAAAAATGACTTTCACAACATTAACTACAAGGTCTATATTACAGGTCTCTGCATTCTAAAATGGAGATAGACCTAGCGTTTGGGGGATCAATTTTTGTAAAAAACAAACAAAATCAAAAAAGTAAATAATTTTGTATATATAACCATTTTTTAATCTTTTTATAAAGTAATGAATGTTTGTGTATGAATGCTGCAGCTGTGAAGCGTACATAAATAAATGAAGTAAGCCATACTGATTTAATTTATTGGATGTTATTTTACCCATGCAAAGAAGATTAAAAGAGCTCGCCAGAGCAGTATTAGCCCCTGAGCTCCACTTTTGGAACCATCGTTTGCTATTTCCTTAGAGAACAAAATTCCTGCTAAACAGGATCATTTGTTTGCGGTTAGGTGGGTGAGATCTGCGTGACTTGCGGAAGAATCAGGATCTTGGCTTTCTAGAAAGAAGTGTGTGCACAAAGAGATTATAGGTTGTAATTGGTGCAGTGTGTGCGTAGGAGTTTTTCTGTTATGATTTCTTACCCTGGTCAGTGTGACAGCTGACCTGGATGTGTACAGTAAGTGTAGAAGGTAATGTTTGAAAGGACCTCTCCACATAAAGGACTGTGTCTGATTATTTCTGGGAAGTTCCCTGCACAACTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015624:ENSGALT00000025190:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(20.0=78.3)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
TTGCCTGTGGTCAACCTCCT
R:
GGTGGAAATCCCCATTCACCA
Band lengths:
343-841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]