RnoINT0133094 @ rn6
Intron Retention
Gene
ENSRNOG00000004812 | Sema6d
Description
semaphorin 6D [Source:RGD Symbol;Acc:1310910]
Coordinates
chr3:116950508-116958050:+
Coord C1 exon
chr3:116950508-116950608
Coord A exon
chr3:116950609-116954350
Coord C2 exon
chr3:116954351-116958050
Length
3742 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
ACTTTGCATGTGTGTTGCAGGTG
3' ss Score
9.6
Exon sequences
Seq C1 exon
GCTGTTAACCGAAGACTTCTTTGCTTTCCATAACCACAGTGCTGGAGGATATGAGCAGGACACCGAGTATGGCAACACGGCCCACCTAGGGGACTGCCACG
Seq A exon
GTAAGACAGACGCCTCCCTTCCCTCTGGCTGCTGCTCCCGTTGACCATGTTTGCACGCAAACATTATTTTACAACCAGCCTTTATAATGACCAGGGACACATACCGCCTAGCATTTAACTTAAAACTTCGCAAAAGCTGAGCTCTTTGGTCATGGGGGTCCATCAGAACAGATTCTGAGTTTTTCTTTTCCTTCGCCATTTGCACTTTTGTAAACAATCAGTCTAGAGAAAGATAGTGTAACTAGTAGCCTTTCAGTTTGTAGTCTTTTCTTTGGACTTCTTTTCTATTACTTGGAGTTCATAAACTTTTTGCTCTCTTTCCATTACTCTTCACTGATGACTTGTTCCTTTGATCCCTTTAGAAAGTTTGCCTACTTCAACTACACCAGATTACAAAATATTTGGCGGTCCAACATCTGGTTAGTTTTTTTTAATTTTTTTGAATTAACAGTCTTTTCTTTCCATCGGTTCAGCATTTTCTGCCCCTCTCCCCCCTCCTTTTGCGCAGTTTGGCAGCCCTCCATTTTTCTGCTTTGACTCATAACCCTCTGAAGGTCCTGAAGGATGAGTTCTTACTCAGCCCCTCCACCCGTGTGTACCATGGAATGGTTCATCATTGACCAAGGCACATCCTTAAGAAAAGTCAAATGGGTTGACATAGACTGCATTTCAGTTGCACGCCAGCCGCCCAGCTTCCTTCTCTCGACCCTTTGCATTGTGAATGCTCCCTCTGGCCATCTATATGCCATGGATGACAGAATTGCATAATTTCCCCCTTCTCTCCCCACCACAAGGAATGAACAATACGCATTTTCCAAAAATGTGTATTTCTAAGTTTTAAAGATCCCCTTTGAATGTCTTGTGGCAATCCCAGGAATCTCTGGACGTTGTGTTCTCAGTGGTGTGAAAGAACCTAGCTTCAGTTGAATGAAGCTGGATTTTGATGTACAAAGATTACAGTGGGGTCTTCATGCACATCTGTCTGTGTTTGTTTACCAGTCTCTCTCTGTAACTATTGGATCAGTCTATACTGTGTCTAAAAGCATATGCTTACATGTTCGTGGAAATCTACTAGGTTAAAGCTCGTAATAGACACAGAAAGGTTCGGTTGCTCTTCCAACCATGCTGTGTCTAGGGTTCACATCAGTTTTATCCCTCAGGGGGGAGAAAAGGATGACCTATCTCATGTGTCCCAACATTCTTATTCAGTGTATAAATACCATTGCTTGTGCATGAGTTACTGCTAACTCTTCGGAAGAAACTCCCCAGGCATTTTGGAGAACACAGCAAGGTTTGTGCTTCACTGGGGACGGAGGCTCTCAGTGCATTGAGAAACCTACAAATGGACAGGGGCCTTGGGGAAGCAGAGTGGCTTCTTAGGCAGAACAGGGTTATCAGGTCCAAGATCAAGTGTTTACTTGGACCTGACCAGGTATTTTCTAAATGTAATTCCATTATAGCTTCTCCAGGGAAGGAAAGGGTATAAAGACCCCAGCCATTCACAAAGGTCCTTTGTATGTTACGAGATACAAATAAGTTAAGCGATCCTAACAGCTAGCTGGAGAGGGCCAGAGTCAGCCGAAGTTGGGGCTTGTGTTACATTTCCACGAGGAGGCTTCGGTAGGAATGTCCACCTTCGTGTCTGTTACTTTGGAAAATCTGCATAATGTGTCTTCATTGTCAACCTCTAGTTTTTATCCTTTTGCAAGAAAAAGACTCAGTCTCGTTCCCTCAAGGGGGCTTTTTGCAAAATTCTAGGACAGGGTTTCTGAGAACATGTACTTGACTTTCAAATGCAAGGAAGCAATCAGGAAAGTCTTCTTGACGCTAGCCATGTTAATGGACATCTGTTTGCCACCACAGACATGGAGGTACCCTCATCTTCTGTTACCACTGTGGCAAGTAGCCCAGAAATTACATCTAAAGTGATTGATACCTGGAGACCTAAACTGACGAGCTCCCGGAAATTTGTAGTTCAAGATGACCCAAACACTTCCGATTTTACTGATACTATATCAGGTATCCCAAAGGGTAAGGCCTGGCCAGGCACTTCATCTCTGACTGCGTGGAAACCTGATCCCTAGCCTGGCTCTCAGAGGTGAAACTGAGTAGAACTGCAGTCCCACTGACCACGGTGACTTTGCTGTCCTGTGGTTTAAGTCTGAGTGCATTCCTGCCCAAGCCGTGGCTCCCGAGACAGCCACTCAGACAATCTAATCTGTAGTGGTTTCGCCTGCAGGTGCTGAGAGCCTGCTGAATATCGGAGGATTTTGAGGGTCACCCTCTCGATGTCCAAGGACAAAAGCTCGCAGATGACAAATACCTGCTACCAAACATTCTACCTAGGAGGCTGTCTCAGCCCCTTCTTGCTTCATCTGCAGATGTAATGTGGAAAGATGCGCAGGGTGACAAGTTGTCCAAACGCCACGAGCGGCCAAGTACAGCATAGCATTTGGCTGTAATGACTACATTTAGCCCACAATAGGTGAAGTTAAAAAGCTGTCTAATCAATTTGCTTAGAAGATTTAATACTCTAGGAAAAAACCTGTCGATGCCTTTGTGTATAAGCTACGGTATCAGGTTTCCAGCCAGTTCTTATGGCACTGCCTTGTCATTTATGATTTACTTCTGTTGATTTTGTTTTGTTTTGTTTAGTTCTTATGGCACTGCCTTGTCATTTATGATTTACTTCTGTTGATTTTGTTTTGTTTTGTTTATATTTTCATTGCAAATGATTTTACAATCATTATTTCTGTTTTGATTTCTTCAATAATACCATTTCTTTGTTCTTTTCTCTTCTGGTTCTTCACAATACCCATTAAGTTTCCACAGTCTTGACAACTGATTGAAACCAACTAATATTCAAGGGCCTTATCACTAACTTAATGCCAGAGAACCTTCCCAATCCCTCTGACTCACTTATTCTGGGAGAGCCGTGTGTATAGCATGTAGCAGACTTGAATACCTCTTCACCTAACATGTCTCTAGTTGATTGTCAGATGTCTGTGGTTGCATTAAATTTTCCAATAATTACAAACTAACTCACTCTTCACTTTCTAGGTCTAACCTAAGTATTTCTCAAATGCCTCCAGATAATTTAAGGATAGTCTTAAACTAATATGTAGCTCATTACTTTCTTATGCTGTCCAGTTTTCTTACATAAGTAGATACTTCATGGGTATTTCATTCCAAGATGAAATTTCAAAACAGAACGTGAAAACCAACGCACAGGCGCATACTCGAACTTAACATTGACCAAGTACTCTCTTTTAGTTCATGACCAGTTACGTCTATGTCCTAGTTAACACAACCGTATTAGCATAGCAATTGGGCGTGATGTGTGTTTCTGTTAATTCGGACGTTTCCTTAACCCCAGCAGCAACTCTTTAATCCCAGTTTAAGAATTAGGTGAGCCTCCTAAGGTACACGTTGTTTTCTGAGCTGTTCTAACTCTGCTTTTTAGATAGAAACTCTTAAAATCCCTAACAACTGCTTGAGAGACTGAGTGAAAGGAGAGAGAAGTATATACCAAGGACTTGGAGGGTGGGGTGGGCAAACATATATGTTTCTGGAAATTTTATTGTGAATTCAGAGGGTGGGATACTGTGAAAGTTTGGTATGTACTCGCTCCTGTAAGCTAGGCATGTGGGAAGTTAGAAGGAAGTGTTGACGCAGTATTAGCCGTTCTATAGCTCATGTTGTTAAGAGCACTCCGTTCAAAGACTTTGCATGTGTGTTGCAG
Seq C2 exon
GTGTACGGTGGGAAGTCCAGTCTGGAGATTCCAACCAGATGGTCCACATGAATGTCCTCATCACCTGCGTGTTTGCAGCTTTTGTCTTGGGCGCGTTCATCGCAGGAGTGGCTGTGTACTGCTATCGTGACATGTTTGTTCGGAAGAACAGAAAGATCCATAAAGATGCAGAATCGGCCCAGTCATGCACAGATTCCAGTGGAAGCTTTGCCAAGCTGAATGGTCTCTTTGACAGCCCCGTCAAGGAGTACCAGCAGAACATCGATTCACCCAAACTGTACAGCAACCTGCTGACCAGTCGGAAGGAGCTGCCTCCCAACACGGATCCAAAGTCCATGGCCATGGACCATCGAGGCCAGCCTCCAGAGCTGGCTGCTCTCCCCACGCCAGAGTCTACACCTGTACTCCACCAGAAGACCCTGCAGGCCATGAAGAGCCACTCCGATAAGGCCCATGGCCATGGTGCTTCAAGGAAGGAACACCCCCAGTTTTTTCCTTCTAGTCCTCCACCCCATTCCCCGTTAAGTCACGGGCATATTCCCAGTGCCATCGTTCTTCCAAACGCCACTCATGACTACAACACATCCTTCTCAAACTCTAACGCTCACAAAGCCGAAAAGAAGCTTCAGAACGTTGATCACCCTCTCACAAAGTCATCCAGTAAGAGGGAACACCGGCGCTCTGTGGACTCCAGAAACACCCTCAATGATCTCTTGAAGCATCTCAATGACCCAAACAGTAACGCCAAAGCCATCATGGGAGAAATCCACATGGCCCATCAGACCCTCATGCTGGACCCAGTGGGACCAATGTCTGAGGTCCCACCCAAGGTTCCTAACCGGGAGGCATCCCTATACTCCCCCCCCTCAACACTCCCCAGAAATAGTCCAACCAAGAGAGTAGATGTCCCCACCACTCCTGGGGTCCCAATGACTTCTCTGGAAAGACAAAGGGGTTATCACAAAAACTCCTCCCAGAGGCACTCTATATCTGCCGTGCCTAAAAACTTAAACTCACCAAACGGTGTTTTGTTATCTAGACAGCCGAGTATGAACCGTGGAGGATATATGCCCACCCCAACAGGGGCGAAGGTGGACTATATTCAGGGGACACCGGTGAGTGTCCATCTGCAGCCCTCCCTCTCCAGACAGAGCAGCTACACCAGTAATGGTACCCTACCCAGGACGGGACTAAAGAGGACACCATCCTTAAAACCTGATGTGCCACCAAAGCCTTCCTTTGTTCCTCAAACCACATCTGTCAGACCACTGAACAAATACACTTACTAGGCCTCAAGTGTGCTATTCCTGTGTGGCTTTATCCTGTCCCTGCTGTTTCGAGGAAGCTGTGAGGGTACCTTAAGACGAGATACCTGCTTGTGTTTTAAGAGAAACAAGTAGCCAAAGAAACTCTGTAACTTTGGTAACACCAGAACTTGCCACATGTAGCTACTACAGCAAGGCTTCTGTGTACTTGCGGGAAAGGAAGGGAGGTCCTGCTCATTCCACGTCTTTTGTTTGAAGCCGAAGGGCTGTGTAGCCCGGAAGGGCTCCCTTCGCCAGTGTGAAGAACTGACACAGTGCTCAGAAGACCTGAGCCAACACTTGAAATGGGTTCAGTGTAGACTGCCGTTCAGCGTGGTCTTCCCATTAAATGTGAACATTTCAATATGTATGCATTCACCTTGCCTCTTGCACAAATGTCAAAATGGAAAGATGGGAATGTCTCAAAACAAAACGAGCTTGGAGATTGCCAAGCAGTTTGCTGAAAATTCAATCTTTGGCCCAAACTGTAGCATTTTTTTTTCTGAGTGTGGCACTGTTTTTTTTTTTTTAATGCCACCAACAAACTGTTTAGAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATATTTAGGTGCCCATAGCATCTTTTCTACTTTGGAGTGGTTTACAGTAAGCATGGCTGAACAAGAACTAAAGTCCTCCCACACCAGTCCATTGAGTTTGCCTCCCTTAAGAAATAGTCAAGGCTTCTTTGACTGTCAAGTGATGAACATAACCTATGTGATACCCAATGTCAGAACATTTAAGTGTTCTAAGTAATTTTGTGCTGCTATCCATCAGAACGTCTATTCCAGTCTTGCCAGCTTAAGAAGTTAGAGGAATGAAGAGGTATCCTTGATGTATCTACCAGTATTCAGTAGTAACATTTACCTGTCCACTGTGAATTAAAGCCTGAGGCACGCTACTCATCCTTGGACACACTTAGAAGCATTTATTTTGATTGTGTTATTTTATTTTCCATATAGAAAAACTTTTCCTCTCTTAAATCCTCTTACCCCCAACCCCCAAGGGGCAAGAGAAGGCCAAAACTAGGACAAAAGAAAGAGACAGATAGCAAAGACAGACAATTGGCTTAGCATGGAGGGTCTATAAAGCTCTCCGTGGTCCTGTCCTCCCTCTGTGTTGTGTTCTGTGAGGATTTTCTCCTGAGTCATGCAGGCAATGACAGTGAACTGTAAATACCACATGTGAGTTTACCTGGATCTGTGCATTTTGTGCCTTATTCACGAGAGTGGTAGAAGTCCCGCGGTATGCTGAGTGTTTCCGCTACAGAGCGTCATTTCCCATGTGCCACTTGTAAGTGTTTTGCAGCCAGCACCTGAAGATTTCTTACAGTCATAAAGCAACCTAGAGCGACTTGTTGTTGAACAACGCCGCCCCCCTCCCTCCAGGATCAGAAGCAGCACCCACCCTTTGCCATGACAAACATTCCACCCCTGCTGTTCTGATAATGTGAAGTCAGATGAGGGTTCCCAGGGAACGTGGCACCTGTGGAAACCATGTCGAGTCATTTCTATGTAGCTTGGCAGAGCCCACTGACGGCTGAAGGTGTGTTACCTACTGATAGCTTTGGTTAACTCACTGCTCGTCCACCCAGTCATTTACCCAACCTAATCTAGAAATTTCCACAGCCAAGGAAGGCCCCTGACCCAATCGGGCAAAGTCCAGGCGATATCTTGGGACAGTGACGACGGTATGCATTACCTGGGGGAGGACGGGGTACAAAACACCAGATCATTTTTATACAGGATGTAGAATACTGATGCAGTTGATCTTTTCCTTCAAGAACATGCTTTTCTATTGGGAAAAAAAAATGATTCCCTGTGATCTCTTGTAAGCTCTAAAGCTGAAACACTTCAGCTTTGCAACTAAAAATATTACAGTTTAATAATCAATTAAACCAACCCACAATAAGCACTACACATCTGCCACCCACCACCTTGTTCGCATTCTCCTTACCAATATTAATCCCAGCGTGGTAACTCTGTGTGACGCCCCTCCCCTGATAACATTTTGTAACATTGTGCTGCCTTAGAGTTTGTACTGTGAGTTCTATCAGTATTTATGTTGAAATTTCTAACATGGATTCTAGTCTCTATTCTGTTAATTTAATTTTAAATGCTTTATCCATTTGTGCAAAGGTAAACACAGATTGTATCTTTTTTAATGGTACGGCATAAAAAAAAAATAACCCTGAAGTGAAGTGGCTCTATACTGTTTTATAGAGTCCTTTAACGTGTATAGATATCTTGTAAACTTGTATTGTGGATGTGTAAATAATATGTACTTTGGGTTTTTAACACCGCATGTAAAGTCAAAATAAAATATCCAAGTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004812:ENSRNOT00000066101:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.788
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(44.7=100)
A:
NA
C2:
PF0143720=PSI=PD(7.9=1.4)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]