RnoINT0134564 @ rn6
Intron Retention
Gene
ENSRNOG00000054560 | Sh2d3c
Description
SH2 domain containing 3C [Source:RGD Symbol;Acc:1307287]
Coordinates
chr3:11773699-11782877:+
Coord C1 exon
chr3:11773699-11773738
Coord A exon
chr3:11773739-11782748
Coord C2 exon
chr3:11782749-11782877
Length
9010 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
ACCTCGCTGTCCCCATGCAGTTC
3' ss Score
8.5
Exon sequences
Seq C1 exon
GGCTGCTGCAGAACTGGAGGCTGCTGGGGACTATGTGAAG
Seq A exon
GTAGGAGAGACAGGCTGGGGTCGGCCATGGTATGATAGAGCACTCGGGGCATGTTATGAAGCAGACTTCCTCCTGGGAGAAGATCGGAGGTGGAGGCAGCCCCTGGGGACAGCCATCATTCTGAGCACCTATTCCAGTGCCTCCTGACACTCTGCTAGCCCCAAACCACCAACTGGACAGGGTCCCAAGGGTGTCCTCATGCAGTGGCCACCATAGTGAGATCCCAGTCAGTCTGGGCATCTGTTGAGGGCCGGGACTGGGAGGTCAAAGCAGGAGTGACTCAGATCTTTAGCAGAGACTCAGCACAACTCACAGACAAGAGCCGGGGGCTGGGGCTGGGATATGTCTCAGTGGGTGGAGTGCTTGCTTAGTATACAGAAGGCCTTGGGGGGTCAGCCCCCAGCTCCACTTAAACTGAGTGTGGTCCTCTGTGCCTGTAATCCCAGTGCTCAGGGGAAGAAGGATAAATTCAAGGTCATCCTCATTTACAGGTGAGATTTGAGGCCAGTGTACCTTGTTCTAGGATTGTTTAAGTTGTGTGTGTGAGTGCATGCTTGCATGTGTGTCTTTGTGTGTCTGTGGAAGTCAGAGGCAGACCTCGGAGTTGCGCCTGTCTGTGGTGGGTCTCACTGATTAGGGTCCACCGGCAGGCCCACAAGCTCCCAGGATCTTTCTGTGTTCACCCCCAAAGCCGAGGTTTCAAAGTAACACACGCCATCACACCTGACATTTTATTTTATTTTATTTTTAAAGATTTATTTTATTTATATGAATACACTGTAGCTGTCTTCAGACACACCAGAAAGAGGGATGGTTGTGAGCCATCATGTGTTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCATTTTATTTTATTTTTAATATGGCTGCTGGAGATTGAACTCCAGTCCTCAAGTTTGTGTGCCAAGCACTTACAGAGTGAGCCAGCCACACAATATAGGGTTTGTTGTTGTTGTTTGCTCAGCAACTTGGGTGGGTGAGGCAGGAGGATGGCAAATGCCTGGCCAACTTAGACTACAGTTAAGATCCTGTTTTAACAAGAAAACACTGGTTTTGAAGTAATAGCAATAACAACAAGGCTAAGTACATTTTAAAAGCCAATCGTCTGCAAACCATGCTGCTGTTTGTCTGTTTGTCTGTCTGTCCATTCATCCGTCTGTCTGTCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCGTCCATCTATCCACCCACCCATCCATCCACCTATCCATCCATCCATCCATCCATCCATCCGTCCGTCCATCTGTCCATCCATCCATCCATCTACTTGAGGTGCATGTTGGAGTCAGAGGACAAGACAACCTGTGGTTCTCTTCTTCCCCCATGTAGGGTCGGGGGTTGAGCTAGGTCTTCAGGCATGGCAGCAGGGGCCTTTGTTTACTCACCCATCTCCTGAAGCCTTTGTGGTTGTTCTTTAGAGAAGGCAAACTCACTATTTGGTTTCCCACTGCAGACTAGAAATGTATGAGTTCATCATAGTTGCAAGAACTCTTGTGGGGCAGAGCTGGTACCAAGTTCCAAGCCTGAGGATCAGACTCAAGACAGCGGCCATTGGCCTTCCCCAGTCAGAGGCTCCACCTGAGTGAGCCAGCCCTAGGTGAGCGGCAAATACTGCAGAAGGCAAGGAAGAGTGTCAGGCCTCCATGCAAAGGGCTCTCAGGCCAGGCAGGGAACCAGAGAAGAATTACACAGTTTGGGCACATTTTGTAATCCAATAGAACTAGGACTTTTTATTTATTTACTTATTTGCTTGCTTGCTTATTTATTTAGCCCAGGCTGGTCTGAAATTGACTATATAAAACTATTGGTCTGGGGGGGGGGAATTAGAGGAAGGATTGAAAGAGTTGAAGGATCTTGCAACCCCATAAAAACAACAATGCCAACCAACCAGAGCTTCCAGGGACTAAACCTCTACCCAAAGACTATACATGGACTGACCCGGGGCTCCAACTGCATAGGTAGCAGAGAATAGCCTTGTTGGGACACCAGTGGAAGGGGAAGCCCTTGGTCCTGCCAAGGTTGGACCCCCCAGTGCAGAGGAATATAGGGGCAGTAAGGGGGATGTATGGGGGGAATACCCGTATGCAGGAGGGGGAGGGGAGGGGATGGGGGATTATGGACAGGAAACTTGGAAGGGGAATAACATTTGAAATGTAAGTAAAGAAATATATCTAATAAAAAATTTAAAAATTGTATTAAGAAGACGGGATAAAAAGAAAAAGCAATTGGTCTCATGTGCTCACTTCAGCAGCACATCCTCTAAAATTGGAATGATACAGAAAAGATTAGCATGGCCCCTGTGCAAGGATGACACACAAGTTTGTAAAGCATTCCATATTTAAAAAGAAAAAAACAACTGGTCTCAAACACTGGCCTCTAACTCCTCAGTGCTGGGATTACAGATGTATGTTAACAGCATGCACACATGCACAGGGTGGTCTCAGTCTTGCTGTGTAGCCAAAGATTATATTGAACTTTTTTTTTTTTTGCTTTATTTTCTTTCGTTTTTGTTTTCTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTTTGCTCTGTAGACCAGGCTGGCCCTGAACTCTGAGATCCACCTGCTTCTGCCCCCCCTGAGTGTTGGGATGAAAGGCATGGGTCACCACCTCCACCTCCTTGAATTCCTTGTCTTTCTCCTTCACTTCCAGTGGGCTGGGATTTCAGCCGTTCATAACCCTGCTTGGTTTACGTGGTGCTGGGCACCCTACCCAAGGCTTCCTGCTGGCAAGGATAACATTGTACTCACAAAGCCACATCCCCTGCTCTAGGTTTTGGTCTCAAGTCTGGGAATGGTCAAGTCTTTGAATGGCTTGCTTCTCTGAGACTTAGCATTTGCTCATGTGAAACAGGGGACTTTGGGGGCCCAAGGAGACTGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCTTTCTGACAGGCAGCATGAACCTTCAGAGGAGTCAAGGCTCCCTCAATTGTTTATGGAGTTAAGATATAAGGGGTTGGGGATTTAGCTCAGCGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAAAAAAAAAAAAAAAAGAACCAAAAAAAAAAAAAAAAAGATATAGATTTCAGGGCTGTGGATGTAGCTGGGGAAACAACTGTTTCCAAACTCCACTCCTGCCCTGAAGTGTTCCTTTCTGAAGAGCGCCCAGAACTCCAAAGTCCCCCAAACAATGATAGGGATCCTGGACTCTCAGGATTTCAAAATACCAAGGACAGAAAGTTTCAATCACGGTTTTCAGAGCTTCCAGTGTAGCTACAGAAAATAATCATCTGGGGTCCAGAGATGTGGACTCACCTGCTTGAGGTCACACAGGCTGAGGGAAGAGTCTGGAGACCAGATCTATGTAGATGATGATGGTGGTGGTGATGATGATGGTGGTGGTGATGATGATGATGATGGTGGTGGTGGTGATGATGATGACAACGATGGTGATGTGATTAGTCTCATGTCTCCCAGACTGGCCTTGAGTTTACCATGTAGCCAAAGATGATCTTGAACTTGTAACATTCCTGGTTTCACCTTCTGAGTGTTGAGATTACAGGTGTGAGCCACCACGTCTTGTTTAAGTGCTGGGGCATGTACATGCTGGACAAGCAAACATTCTACCAACTAAAGGGGTCCAGATTTTGATTCCTTGTGGGCTGGCATTGGATTCAGTGCATAACCCTCAGGGCAAGCAGTCTAAGAGGCCCAAGTCCAGGTTTTGTGATACCCAGTTAGGACACAGTAGGGGGTCTTTACTGGATTATTATCGGTACCAGGAAACTTTTGTTGTTGTTGGGCTTGGTGACACGCACAAAGTTCGACACAGGTCTTCACCGTGTATTCCAGTCATCTCCAAACAAGCCAGTCGGGGTTTAAAGAGAAGGGCCCAGGGTGGGAAGCCCCACAAGTTAGAGAGGCAGGTGAGCGGCGCTTGGCGCTTTAACAGCCTTTGGAGTGTGGCACAGTCAGAATCAGCCAGCCAGTCTAACCCTGCCATTCTCAATTAGAGATGAGAAACCCAAAGCCACAAAGGATTGGGTTAGACATGGGGATTTGTGTAGCTTTAGATCGAATTGAATTCAGAGTCCCTGCCGGCTCCGGGTCCGGAGAGGTGCGAGAGTAGGGAAAAGCAGGAGGCTCTCCGCACCGGCCCGGGGTCCCTACTCCACCCCATTGCCCTGGGTGGCATCCCTCTTAGCAGGTCCTGGGGAACCCGCACAGGGGAATGGGGTGGTAGTGGAGGGAGGAACAATGGTCCCCTCCCCTCCCTCTCTTCCCTCCCCTCCCTCCCCAGCTGGCTGGAGGGTGGGGTCTCCCCGCCCCGCCTCCCTGCTCCTCCCCCGACCAGGCGATGAGGTAATCGCGCCGCTGAGAGGCACGCGCAGCCGGTGCCCAGCCCGGTCGGTCCCCGCGCCCCTGCCCCTTCGGCCGTCACCCCCGGTACGCTCGGGGGACCCGGGTCTCTCGGCCGCACCATGACCGAGCGTTGTAGCCTGTGGAGTGCGCTGTCCGCCGCCGCCTGCTGCTTCTACCGTGGCTCGCTGGTACAGGTGCAGGTGAGGGGGCGGCGAGGGTACCCGGGTCACTGCGCCCCGCCGCTGAGGTGGGGACCGCAGTCCAAGAGCATGCCCGCAGGGTCGTGCAGTCCGGACCGCCAGTGACGAGAGGGGGCGGGGTCGCCCTAGCTTACCTCGGGGTACCCAGGGCGCTCCACGGGGCGCGGGTGCAGGGTGACATTCCTTGGACTCTGGACTGACTGCAGGAGACGTGGGAGCGAGTTGGAGCTGGGACTAGGACTGGGAGGTGGAGTCCCTCCTGTCAGTTCTGGGGTCCTTGCTGCTGACCCCGGGCCACCTGGCTCCCTATTGTACCAGGACCTCAAGGCTGGGAGCTAGAGGCTGAGTGAGGGGCAGAATGCTGCAGGGCACGCTGCGGACACCACGGTGTCGCCACCTTCTTGCCATCTGGGTGAGCTCAGGGTACTGGGGTGCAGGTCTCCCAGTCCAGCTGGCGCAGCAGCGGAGGTGCGCGCAGCGGCGATGCGAGGGTTAAACGGAAAGAGGTGGAGGGGAGGACCCGGACCCCGCCTCTCTGCGGAGCATCCTCTGGGGTAGCCGTGTCTGGGGTTGGGATACCTAAGGGAGCCAGGGGAGTGGTGGAAAGCCAGCTGGTGGCAAGAGATTGAGACCCTGACAGAGGTTCTCCGCACTCTTTCCCCTCGAGCATCCTGGGAGATGCGGGGCGCCTCACCTCTGAGCTCCCCCAACCTCACACACACACTTGCTCCGAGCCCGCCTGAATGACGGCCCCGCCGGCGGCGGAGCGCAGCATCCCCGCACGGGCCAATCAGGCGTGCGCAGGCCGGGAGGCGGTGAGATCATCTCTGACCAATCGCAGTGCTCTGAGCGCAGGGATGCTGCATTCGCACCTACTCCCCCCCACCCTCCCGCAACTCTTGGGAGCCAAGGACCCTGAGGCCCAGGGTGAGGAAGAGGTCACTGGAGTCCTAGGGCTTCTTACCCCAAATGAGTGAGAGGACCATTGGTCCTTTCAACCCTAGCTCTGATGCTCTGACCTAAGCTCTGCTTAGGGCTGCAAATGCAGTGCCAGTTTCCAGCATCCTTTACAGATGCAGCTACTCAGACCCAGCCAGGAGAAGTGACTGGTCCAAGGTCACATACACTGTATTCTGTCTTGGGGCCACATTCTTTAGTATACAGTCTGTCCTTACTTTGCTCCAGAACTGGGAGGAGGGGAGTTTCAGTGTGTGCCCTTAAGAGCAGGGAGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTAAGGCTGGGTACAGGTTCCATTTCCACGTACCTCTCACCTTTCTTTCCCAGAATCCTGTGTGTGTGATTCGAGGGAGAAGCCTGGGCTGGTGTTTACACTGTAGAGGAAAATGGGACTGGCTAACGACCCTAAGAAACGAGGGAGTCTGAAAAGGCACAAATCTTGGCTTTGCCAAGACCACTCTGCCCTACCATGGCATTGATTTTTGCTGTGTTATGGGCAGAGGCCTTGCAGCATCCAATCCCAGTCCCTGCCTTACCCTTGTGCAGTCAGACCACACCATCTGTGTCTGTCTCCAGAACTCTGAAGGCTTCTCAGAGCCCACACTGTCACAGACCTTACACTCATTCCTGGTTGCTAGGCCAGTGCCTTGGCTGCTCTGCCATTGACTGAAGGCCTTAGCGGACTCCACACTGCAGTGCTCTGAAGTTTCTGGGTGATGTCCCAGCTCTCCAAGTAGTGTCACAGCCCTGTCCCACTTGCTACACTGTCCATAGACCCGAATCTGTCCATAGGGCCCCACCTTGGCCTTAGCTCTTACCTTCTCATCCATCCTCCTCTTTTCCCGGTTTCTGACCAGGCAGGGGGACACTGCATCTCTGAAGATGTAGATACCTGGAATTGAGTGTGGGGGTCTGCATGGGCTCTCCTAGGGCAGTAGCCTATCCTGATTCCCTTGGGCTCCAACCCCAGCTTAAAACCCAAGGTGAAACTGGCTCATGTTGAATGAATGAAGTTGGAAAGTCTATGGAAAGTCTGGCCATCCTGGGAGCTGGAATCACGCCGGTTGGAAAACAGTGGAGATGAGGGTAGAACCCGTGTGGAATGTGAGTCTTAGATATGGGAAAGTCCTGAGGAGTGGCTTGCCAGACTCCGGGAGTACCCAGGAGAGACTGTTTTCTTATCTTACCTGTCTATACACTTCTGACCAGTGTGTCTTGGAGCAGCCATCTTTAGGGAGATGTGTAGCTGTGAGGCGAGGCAGATCCTGGAGTCCCACACAGAAAAGAGTTAAGTCGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAGAACCAAAAAAAAAAAAAAGAAAAAGAAAAGAGTTAAGTCACAGACTGCTCACATGAGGCGGGCTTGCCTCTATGATGGGGGTGTGCCTGGCAATGGGACCCTCCTCTGTCAATAGGATGTCTGGGATTGGTAATCTCTAAACCCAGGACTGCCTGCCATGGGGAGCCGGGAAGGCAGATCCCTGGGCATTAACTTCAGTGAGTGACCTTCAACATCACTGTAGGGCTCCAGTTTACAGTCTGGCAGGATCACTTGAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGGGGGTGTCTGGAGGATTGTAGTGGGCACTGAAGGTGCCTGTGAGTCCCACATCCCTGCTTATGGCTGCCTTCAGGCCCTTCTTCTGCAATTCATATTCCCAAATGTAGACTCATCTTTTCAGCTAGTTGGCTCAGGCATTGGGTGCCTCTCAGACTGACCTGTAAATGGCCTTTCTTTAAGACAGCCCTACTATCTCTAGAGGGTTTTTTTTTAATCAAGGTATCCTCCTGGAAGTCTCTAGACCCTCAGCTTTCACAGACATAATCCCTTGGCCAAGAGCAGGGACTCTTTGCCGCTGTCCAGCACCCTGGTGCTGATGTAGCCGCTCGGCCTGGCCCCTTTGGCTATCTCTTAGCCTGCGGCTTCCTGGAGAACAGGCTTCAGTGCATCCTCTCCTTGCCTAGGTATATTCTGGCAGAATAATCTGAGGTATTACTCTAGCTGACATGGGTGACCCACAAGTGAGGGACCTCCAGCAGGGTCAATGTTTTAGCGTTGTTGACAAGCCCAGGATTAAAGATGACACGGGGCAGGATGAGTTGGGAAGAAGAGAGACAGGGCTGTGGAACCCAGACGCCAACCTCGCTGTCCCCATGCAG
Seq C2 exon
TTCTCCAAGGAGAAGTACATTCTCGACTCCTCGCCAGAGAAGCTGCACAAGGAGCTGGAGGAAGAGCTGAAGCTCAGCAGTACAGACCTCCGCAGCCATGCCTGGTATCATGGACGTATCCCTCGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054560:ENSRNOT00000078366:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.081
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001719=SH2=PU(9.9=18.6)
Main Inclusion Isoform:
NA
Other Inclusion 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]