RnoINT0146331 @ rn6
Intron Retention
Gene
ENSRNOG00000033110 | Svep1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:RGD Symbol;Acc:1588987]
Coordinates
chr5:75194112-75197514:-
Coord C1 exon
chr5:75197339-75197514
Coord A exon
chr5:75194237-75197338
Coord C2 exon
chr5:75194112-75194236
Length
3102 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
CCCCTTCTCTTTCTCTCTAGGTG
3' ss Score
14.84
Exon sequences
Seq C1 exon
CTGGGTTCTTTATGTGAATGGAAAGGAAAAGATCACCAACTGCCCCTCTGTAAATGATGGCATTTGGCATCATATTGCAATCACATGGACAAGCACTGGTGGAGCCTGGAGGGTCTATATAGACGGGGAGCTATCTGACAGTGGTACTGGCCTCTCTGTTGGCAAAGCCATACCTG
Seq A exon
GTATGTTTTGTGAAATGGGTTCATGTATATGAGACTCTAGAGGTGGTCATGCTTACACGGACGTGGCATTGGCCAACCTGGTTGTCACTGCTTCCAGACGAAGACCCACAGTGATGTCTTTCCCTTACCACTCGTCAGTTATCTAGACTGTAAGATACCAAATGCTTTTCCCTGGGTGAGCTACAGGACTGTAAGAGAGAAGCCTTGGGGATCTTGGTTTGACCCAGAAGCAAGCTAGGCTAGGAGCATTTGCTAAGCTGTGTTCTAAGCAAGCCATTAGCTGCTGGTATCCTGTTTGCTTGCTGGCTTGCTGACTTGCTTACAACCTTTTAGGAGGCTTTCAGTTTTGTTTTGGGACAAACTATATCAACTGAGTCTCTGGGCACATTTTCCAGCTTTTGCGTCCCATGTCAAGTAGAACTCAACGTTTCCTCTAAAGTCAATCTAAATACCCATGGAAGACCTATGTGGATGTCATTATCTTCGCTTTCCTCATGTTTCCAGTACATAAGAATAGTGTCTGGGTAAAATCAAATTCAACAAAAATATCTTAAAATATTAAAAATGAACTAGTATCTTCCAGAAGCAAGTTATATTGAACCAAGATAGGCCGATATAATCCTATAACGAGTTACATCCGCATGAAAATGTGATGAGGTTGCCTTTTCAGAGCCTCAAGGCAGATATTGAATTTATGTTTTAGAAAATGTCCTTTTGTTTTACTTTGTAATACTAAAATATTATAGAAACGGCACCAAAATTTGTGACTATGGAGAATGTATACCAAGAACTCACTCCTTAAGTTGGGCACCCATAGACAAAAGTCCATAAGATTTCTGCCCTCCACAAGGTGTCAGTGTGGAGCAGGAGTAAGATATTTAGGTCCATTATCACAGGTAATTTCTAACTGAGGTAATCACTGAGGAGGAATGGGATACAGTTCCCTGACAGTCCACAGCCAAAGAGCTGTGTAGGGTAAATATTGGTGGAGACAAGGGAGATGTCTTTCCTGAGTTCTAAGGCTAAGCCAAGCATTGACCAGTGAACAGATCAGATGTTAAAAGAATTAAATAAAGATCAATGGAAGTATCTGGAACACTCATAGAAAAATAAAAATGCTATGCACTGCACAAGGCTGTAGAAAGAGGTAATGGCCAGTCATACAAAGTCTCATAGGACAGGTTAACAATGGAGGTTTTCATCCTAAGGTCAATGGAATATCACTGATGGCCTTAGGATGGGATAGCGATCGTGGTCAGAAGGGAGCAATCGAGTTTGTGTTGGGAAAAAAAAACCTAAATAACAAAAATGTTTCTAACCAGAGAGGACAGTCCCCAGCAATGGTAGAGGATTAATAGCAGGAGAATCTGGACCTCTTGGTCTGTCTCTACTGAGAGGGAAAGTCATGTTTCAAGTGGCAAACAGGAGACAACCACTGTTCCTTCAGCAATACTGATGTGACAGAGAGATGGCTCTTGCACACCCACTGGGACATGAACCCCCACATCCTCTTAGGACCAAGTCAGTCAAGAGAGCAGCCTGGGTACTGAGCAGACAGGACAGCCTCAATGGCAGCTAGCTATAGAAACAGGGACGAGTGGTGTTATTGTGAGGGAAGAGGAGAATAGGAAAGCCTCAGGGTTTGATGAATACAGGCAGCAAAGACAGTGTGCATGGGTATGAATTAGGGAGATTAACCCCGAAGAACCAGAAATCGTCAACCAGAAACAGTAGAGAGGTTGTTTATGCTGATATTACCTGGAGCTGGATACAGAAGCTGCTTTGGAAAACCATGTGGTTGGACACAACTTAGTGATGAGGGTTTGCCTATCATATGAGAGGCCCTAGGTTCAATTCCCAGTACTGATCCTTTAATTGTGTGATTATTTTTACAAGATTAGTACAGTAGTTGTCAAGGCTTTGGTGAGACCACTCTACTCTCAATAAATTTAAAATATTTTGTCCTGAGTCAGGGTATGGTGGGAAATGCCTGGAATTGTAGCTCTTGGGAAGAAGGGGCAGGAGGATCAGAAGTTCAAGGCCACCTTTAGCTACATAGTAAGTTTGAAACCAGCCTGGGATGTGTGAGACAATGTCTCAAAGTAAACAAAATTAAACTTAAAAAAAAAAACTCACTCTAACAATATACGCCTCCCTGTGAAATATATTTGAACAGAAGGCCACCACAGAACCCGCAACCTCCTTGTAATACTGTTTATGCCTAATTACCCTCTCTGGATGGTTGGAAGAAGAGAGACTCCCAAAGTCAGACTGCTGTGCTTACAACTCACAACTGTCCGCTGTACATTCTCTCGCGGCTGTCCTGCTTGTAGAGAGTATACACAGGTGGAGCGGGCTTGGCCTATTGCAAACTCTAGCACACAGGCTGCTGGGGAGACCCAAGGGCTGTAGAGAGTCCCTCGTAACCCCAGGCCCACACACCATGTAGTTGTATTCCTTCTGGCATTCTACAACTCTGCCCAGAAACTTTGTATCTTTTATCTGCATAAAACTAACCCTTAGTCAAACATGTCTTCAGAATCCCTCCATCCACCCCCCCCCCAGGAGTGTTAGTCTGTGTACTCCTACTTTTTTTAACTTAGTGTCCTATACTGGGATACATTTCGCATGCACTTCTTCCCTTAGCATCACAACCCCACCCCATGTGGAAGAGCTGTCTGCTCTGCTGGGACCGTTCCCAGCCTGATCGTGTAGGCACCACGTCAGCAGGAGCTGCGTAAATGCCTGCAGCATTCAACAAGCCTGCCTTGAAGGCTGCAGCAGAGATAGCTAGACAAAGGGGAGGAGAAAGGCATCCCCTGTGGAAGAAACTCTAAGACCAGAGGCAGGGAGCCATGGGAACTTTCCACTGGAGCCTGGCGGGCTCACCCTCCTTCTGCCTTTAACTCTCCACATAAACTTAATTTCACTCTGTCCCTGCTGCTAAGCCATGCAATAAAGTTCCCTAGTTCAGCCTTCAACGACACTTTCATACATCTGTATTAGCTGCACTTTTATTAAATTAGCATTTGGGGGATAACAAACCACTGGGGTAGTTTCCACCTCTTTATTCACTCCCTCCCCCCTTCTCTTTCTCTCTAG
Seq C2 exon
GTGGTGGTGCATTAGTTCTTGGGCAAGAGCAAGACAAAAAAGGAGAGGGATTCAACCCGGCTGAGTCTTTTGTGGGCTCCATAAGCCAGCTCAACCTCTGGGACTATGTCCTGTCTCCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033110:ENSRNOT00000047200:27
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=0.024
Domain overlap (PFAM):
C1:
PF0035412=Pentaxin=FE(30.6=100)
A:
NA
C2:
PF0035412=Pentaxin=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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]