RnoINT0134561 @ rn6
Intron Retention
Gene
ENSRNOG00000054560 | Sh2d3c
Description
SH2 domain containing 3C [Source:RGD Symbol;Acc:1307287]
Coordinates
chr3:11763706-11773738:+
Coord C1 exon
chr3:11763706-11763800
Coord A exon
chr3:11763801-11773698
Coord C2 exon
chr3:11773699-11773738
Length
9898 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCTCTTTTCTCTTCCTCCAGGGC
3' ss Score
12.41
Exon sequences
Seq C1 exon
GTTGTTAGACCGAGCCGGATCCTGGGCTTCAGGTTGTGAACACCAGGAGTCATGACTGCAGTGGGCCGAAGGTGCTCTGCGCTGGGGGCCCGAAG
Seq A exon
GTGAGTGACCAAACTGGCTCTAGGGAGGGCAAGCGGACATCAAGAGTGAACCAGTGGGGAGATGCTGGTCCCTGAAGCAGCGGACACACACTATTATGGGTTTAACATCTGGGATTTTTCTTTCTTTTTACTTACTGAGTGAGGCAGGGTCTCATGTAACACAGGCTGTGCTCAAACTTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTGTAATAGGGTCTCTCTATTAGCCTTGTTGTCCTGGAACTCACTAGACTGTTCTTGAACCCAAAGAAATCGGCCTGCCTCCCAGGTGCGGGGATGAAAGGTGAGCAGGGCCATCATGCCTAGCTGTGCTCAAACTCTTGATCATTCTGCATCCACCCGAAAGTTCAGGGATTACAGACCTGAGCCTCCACACCTGGCAACTTCTGGAATTTTCCTTCAGCTGTGACTGTTCCCTGCCTTGTCTCTGCACACACCCAGGATCTCTCTGCGAACCTTCTGACAGATCCTGGAGAGAGAACCCATTTTGTAAAGGTAGAAAAGTCTGCTTGTCTGTTTGACCCAGTTAGTGGAAGTCAAAGTAGGAATTTGACTCTACCTCCTAGGCTTATGCTATCATGCTCTAGAACATCTTTCCCTTGGGCAGGGGCAGGGCTTCTGAGGAAAGGTCTTGAGAAGCCTTTCAAATGTCTAGTCTGACACTCAGCCCAAGCTGTTATGGCGGAGGCTTGTCCCGGCGATGCTGCCTGGACCCGACCAAGAGAAACAGTTGAGATTCTCTACCTCCCATCTCCTGGACTGTTTGAGAGTTCTGGGGTGGGTTCAGCAGGCCAGATCAAGGCCTGTTCTGCTCTAGGACCCAGTGTCTCCACCCCAGCCCCAACCTCCAGGGACTATTGGGGTTTTGTCACAGGAGTCCCTTGGAGTCAGGAGAGCAATGGAGCTATCAGGCTAACTCTGTCCCATGCTAGGCCTCTGGGCCTCCAGGAGCCCACAGGGGTCTCAGATGCTGTCTGAGTAGCCATCCAGTTTAGGCAGAAGGCTAGCTGAGAGTGCCAGTGAGCAGGAAAGGACCCGCCTTCCTGAGTGTCCGTTCTAGTGGATGCCATTCTAGTGGATGTCAGAGTAGCCCAGGGTGGGGAGATGGTGTCCCTCCCCCACCCTGGGAAGGCAGGGTGCACCTGGAGCAGGAGGAAGGAAGGGGAAGAGGTGAGGCTGCAGGGATTTCCTGGTGCCCTGTCTCTGCTGAGATCATGGGGGATGAGGCAGAAGGATACAGGAGGGGCCGGCCTTCAACTGGCCAAGTGGAGCACAGCAGCCTAGCCTGCGTCCTTTGCCCAAGAAACACAGCCCTCTGCCCGGGTGGTGGTGGTGGTGGTGTGGGAGTGAGATAGCAGGGTCCAGAGAACTCCCCTCACCCCCAAGTCAGTGTCACAGAAGAGGAGGCCAGGCCTGGAGATGACCCCACATACCTCACCTACCCACACAGAAGTGTCAACCAGGGTCACTTACCAGCTGTCAAGCGCCCATCAGCCCTGAAAGTGAGTGACTCTGTTGCTCCAGTTCCCCAGTGGTTAGGCCAAGGCTAAAGGGGAGGACTCTCCTGGGGTTATAGGGAGGACTCTTCTGGGATTATAGAGTAGACTGTCCTGGGGACATTGGACATTTGTGAGAAACCAAGTTCAGGCCCTCAGGCCTGAGTAACTCTTTGCTCAAATTTTAACTACCAGGCCATCCGTCCCTCTCTCAAAGAAAATCTCAAAGACTTTTTCTACCACTATTTCAAGTGGCTTTCCACAGTGCCCTGGTATTGGGGCTTCCTTCACAGAAGAGCACACTTAGGGTCACACCATTTAAGCTGAGTTAGCACGTCATTCATTTTAATTTTTTTATACATTTTAAAACTTGTACTTATTATTACATTGGCGTAGGCTCTGTCAGAATATGTGTCTATGTGGAGACCAGAGCCAACTTTGTGGCTCTCTTCTGTGTGTGGGATCCAAGGACCATACTCAAATCAATCAAAGCACAAGCTCTTCACTCTCTGGGCTAATTCACCAGCCTACCATTCATTTTATTACTCCCTAAGGCCATACCAGGCTTCATATTTGTCCTAGGCTCTGAGCACAGAAGGTTGAATCTAATAGAGACCTCATCCCAGAGGCAGAGGGGTCAGACGGCAAACCAGATTGATGAGTTACAGGAGCATGAAGAGAAGATCAAGCAGATTTACAATCAAGTGCGGAGACTGGTCTTGGGGTAAGGGGTTAGTGAGGCAACTTTAGGAAGGTTAGAAAGGAGCGGCACCTTCAATCCCAGCACCCCAGAGGCAGAGGCAGGCGGATCTCTAAATTTGAGTCCCAGAATAGCCAGGACAGAAACTCCCATCTCAAAAAAACTGAAACCAAACCCAGCCAGTTAGAAAGGGAAGATAATTGGATAAAGAAAGAAGGAGCAAATACATTTGCTGTCTGGGGAAAGTGAGCCAAAGTGTGAGAACGGCCCATATGAAGTCTCAGGACTTCCCAGCTCAGGCTGGGAGCATCTTCAGTCGATTTGCTCATCAGCAGAGATCAGAAAGTCTGGAACAGAGGATGGGAGGAGAAAGCAGAGAGCAAATAGGTCCGGGCCCCACTCAGTCTTGTTCAGGAGAGTCTTTTTCCTTGCAGGTATGGTAAAACTTTTTGTTGTTATTTTTTGAGTCGGGCTTATATAGCCCAAGCTGGCCTTGGGTGATCATGACCATCTGACCTTCCTGTATCTACCTCTCAAGTGTTGGGATTTTGGGTGTACACCACCATACCTGGTATTATGGGGTGCCCTAGATGGAACCTAGGACCCCCTGCATGCTAAGCAAGCACTCTACCCACTGAGTGTCTCCTGCCTGTGTCCAGCCTTTTGTCCTCAGCCTCACGTAGCCAGGAGGTTGGGCCCATCTGCTGGGATCTGAACTTAGCTCTGTCCTGCTCTGTAATACCTAATGTTGAATGTCCTTTGCCATCCTCCCAGACAGCCCAAGAAGGCTGCTTAGAAGGACACTGAGGTTGGGGATAAATGACATCCTAAAAGAGAGGTAGGGCACCCTATATTGTCCCAGCCCCAGTGCCGGGCACTGCAAACAGGCCAGGACACCCCCTCCCCTTCCTGATTTCCTTTTGGAATGTTGATTCTGGTTCAAGAATTTCCAAGTCTCCCCAGAGTCCCACGACCCTCTTGGCCCTGAAGAGTGACGTTAGCTGCCGGGCATCTGGTAGCTATTACCCGATTACCCGTGGAGGGGGGAGTCGCTGTGGGCCCAGCATCCACAGCCTCCCTGGGCTCAGGGCGGCTGGTCCATGTCTTCTGAAGGGGCCCAGCTGCTCCTGGCTCTCATTTCCTGTGGAGACTTTCTCACAGTCCGAGAGACCCCAAGATGCCTTGGGCTGTGGGAACCTATCTTAGGAAAGATGAGCTGTTCCCCACACTGACCTCCCACTCAAATGACATTGCTTTCAACCCTCAGGGGACCGTTTTTTTCAGGTTGCTGGACCTGTGTGGAGGGGGGGCGCCAACCAGGCATGGGTCCCTCTGAGCCTCAATTTCTCCTGATGGTGAAGACTAGATAGGATGTCAGCCAGAAGACCTGGATGTGGACCAGTGACGTCCAATGCATGGCAGTTGCTCATGCTATAGAAGGGGAAACTGAGTCCTGTGGAATGAATGGGTCTCATTCAGGGTCACAACTTTCTGCTTCCTGTTTAGGTGCCTTTCAGAATCCCCAAGGATCTTCCCCAAGTGCTTCCCACACCATTTCCTGGTCCCAGTACTGTCTCTCTGCTGTCTGAGTGAAATGCTATTTATCTCCTGTTCTCCTCCCAAGCTTCCTTCTGTTTCCACTTGGGATTGGCTCCTCATTTCCAGGGATGTCACTCCATATGAGGGACACAACAGACACAGACCTCAGACCACATCAGCGGTTCAACGGTCGGTCGTCTGTTCTCTGTGCCTGGGCCAGGCGCCCCACTTCAGCTGGGCTCTCCCTGCTGTACTGTGTTAGCCCTCACAGTCAGCGGAGGCTCTGTCCGCACTCTCCAAGGGCCTCCCTGCAGCTCTTAGCTCTCTCTGGCAGACTCCCAGCCACCTTTACTAATGGCTCCCCACAGCAGGAGGACTCAGGGATGTGGCTGGCCCAGTGGTAGCCTGTACTATGGGGCAGGGCAGCAGGGCAGGGAATTAATCCCAGAGACTCCTGGCAGAGATTCTAGCTCCCATGGCTATTGCTGTCCCAGAAGAGACCCTGCTTCTTCCCCCCATCCCCCAGAATTCTCCACTTAGGCCACTGAAGCTGCAGGCACCCAGCAGAAGGTACCCACTGCCACTCTACATGAGGGATGAGCAAAACTTAGAGAAAGATGGCCAGAGGGATTGTGAGTTCAAGGCCACCCTGAATTACAGAGAGGGAGACTCTGTCTCAAAATCTCAAGACAAGCCAACCATATATAATAGCAAACACCTGTTAAAATCCCACCCAGTACTTAGAAAGTGGGAGCAGGAGGGTGAGGAGTTCAAGGCCAGCTTTGGGTACACAGCAAGTTTGAGACAAGCCTAGATTTCTATTTTGAAAACATAACAAAACTAAACAAAACAGAAACAGGGTCTGTGCAAAGAGAAGCTCTAATACTCCAGGAGAGCGGCATTGGGAGCTGGAGCCCACCCTGGCAAAGGGACCTGGCGCTCACCCTCACGTGAACATCATGGCCTTCCAGGCAGACATGATGCTCCCTCAGAAGATGAGGAAGCCAAGCCTCAGAGACAGGAAAGCAGGTGGCGGAACTGGGCATCTGTCTTCTCAGGCCCTATGACCAGACCCTGAGGCCCAAAGGAAGAAACTCGGAGACAGAGGGGGCAGCCATACCCGGCAGAGGGGTGGGGCAGCCTCCTCCTCCACTTCTCCAGGATCCTTGTGGGAGCTCACTCTTCCTTCCCGTTCAGGCCAGAGGTCCCTGAAGGTGAGGTTCTGCTTCCAACACGCATTAGGAAAATAAAGGATAATGGGTGCTAATTACTACTCATTAATGCAATTAATTAAACAGATCTATGCAATGCATGGTGTCGGTTATCAGAGCAAATCAGTTAATACAGGCAATTACAGGACCGGTTATTTAAGTAATGAATACCAACCACTGCCACATGGACCCGACTTAGCTCGGTCGTCACTGCTGCCTGTTAACTGATATCACCACTAACATTACAGGGGAGGTGCCTTTTAAGTATTATATAGCGTAAGAAATAATGAGTGAATTCTCGGAGCACTTTGATTTCTGGGTTTGATCATTCCAATGAAAGGGAGCGAGTTCTAAAAAGATCTCGAGAGCTGAAGGCTGGGCTGGAGCTCCCCCGGCCCGTGGGTGTCAGGCACACAGGACAGCTCGGCAGAGGGAATGTCAGGTGCAAAGGGCCAGGGGTCGCAGACCTTGGAGTTCTTTGGAAATAGTTTATGGAGGCCGGAAATGGAGGAAGGGTGAGGAGGGAGAGGAGGCGTGTCCAGAGGACGTTCGTGGCTCAGTGGTGGAGTGCTCCTTGTCATATAAGAGGTGCTACAGCTGGGAAGATGGCTCAGTCACTACAGCACTTCTTTCATCGGTGTGGGGACACGAGTCCCCACAGAACAGCCAGAGGCATAGCAGGAGAATCTGCAATCTCTGTTCCTAATGGGAGGTGGGAGACAGAGACAGGAGAGTCCTTAGAAGCTTGCTGGCCAGCGGGCATGGTGAGTGCAGTAGGAAGCCAACACAGGGAGCCCACCCCAATCAAGGTTCGAGTCAAAGATTGACACCCAGCTTGGTGGGAGATTCTCTGATCTCCACATGAGTACAGTGGTATGCATGGGCCTGCATTCACACACATGCACATGCAGACACACACACACGGACACACAGACACACAGATACATACACATGAATACACAGACATACACAGAGACACACACACACGAATACACAGACACATGAATTCACAGACACATGGATTCACAGACACATACATACACACATACCATGCACATATACAAACATACACAGAGACATACACATGAATACACACACACACGAGTACACAGACACACACAGATGAATACAGACACATGAATACACAGACACATACATATACACATACCATACACATACAAACATATACAGAGACACACACATGAATACACAGACACACATGCACACCAACAGATACACAGACAACTACACAGACAGACATACACATAGATACATGCTCACACACCCACACATGAATACACAGACATATGCACATACACACAGGCAGACACACACAGAGAGAGATACACACTCATACACACACACACACACACACACTCAGACACACATACACACTAACACACAGACAAAAAACACCCCAACAGATACAGGCACACATATACGCTAACACACAGACAAAAAACATCCCCACACAGACACACAGACACCCCCACAGACACAGACACCCCCACACAGACACACAGATACTCACACACAGACACAGAGACATAGACACATAGACACATACAACACACCGGATGATTGTTAGATTCCCAACACTGTTGTAAGCCGATGTATGGAGGGAACAGAAAAAGCAAAGCCCAGTGGGGCATGGTGGCCCATGCCTGTAATCTCAGCACTTGGTAAGCAGAAGTGGATGGAACCCTGAGTTCGAGTTCAGCCTGGTCTACAGAGTGAGTTCCAGGGAATCCAAGGCTACACAGAGAGACCCTGTCTCAAAAAACAAAACCAACCAAACAGAGCAGAGACCCTTAGGAGTTGGTGCTGGGGGTACTTACCATCTGGCCTTGGCTGGAGCAGCCCATGTAATGGTGCGTGTGGGCGTGGCCATGAGGAGCCAACCCCAGGAGTCTCTTAGGGACGTGGACTCCCAGGCTGATGAAGCTGGGCCCCTGCTGCCAGACAGTGGGGCACAGGGAAACTGTACGCCAGCTTTCATTTTAACAGGGCTACTAGCAGTTGGTGAGTGTGTCTCAGGGCCATGAAAGGAAGGGGGATGGCCTGTGGTATTCTCAGGCCAGTAATGTCCATAGGTTATCAGTGAACATAGTCCTGTTGTGTACTGGGGTGACAGATCTGTGGCTGGCAAGGGAGGTGAAGGGGTTGGGAGTTCCCTGGCCTGTGGCTCTGCCTTGGACAACCTCCCTGATTCTGACCACCTACATAAGCTGGGCAGCACCCCATCTTTAGGGCTGTATTCCTGCCCCAAAACCTAAGAGGAAGTGGACAGGAAGCAGGAGGAAGCACAGGGTTGATCCCAGTGTGTCCCTGACAATTTGTTCCCAGCAATGGGAGGATTTCCGGGCATGAATGGCCGGATATGTTGGGATGGGACACCTCACCCGGGAAGAGGGGACAGAGCGGACAGGGGAGGGCCTCCTTCCTCCGCCTCACTTACAGTGTCACTGGACAGGGAGCACCGAAAAGGCGTTGGAAGCCTGTGCTTTTGCAGACTGCAGGGAAAGTTAATAACGAAGGAATGTCAGAAGAGGGAGTAGCTACAGGGAGTCTCGGCCTCAGGAACTAGGAGATTCTTCTTTTCCTTCCTTTTTTCCTCTCTCTCTCTCTTTCTCTCTCTCTCGATTCATTCTTTTGTTTTGAGAATTAGGCTCCTGTGTTTGAGCATACATTTCATTCCCATTTTGCAGATGGGAAATCTTGAGGCCATTGTCTGGGAACAAGTTGTTCAGCATAAAAGAAAGACTGCATGGTGGCTGCTGGCTGGCCGGCTTACTATTTATGTACTCTACGAAGCTGCAGTTCCAGTCTCCTCTGCCTGGCACTGCTCTGGGACTGGGGTTCACTGGCAAATGACGGTCCACACCCTCACACGGGGCTCTGTTACTTTTCTTCCCCCGGGGCTGGGGATCGAACCCATGACCTTGCGCTTCCTAGGCAAGTGCTCTACCACTGAGCCAAATCCCCAACCCCTCTGTTACTTTTCAGTTGAGAAATAAAAGTGAAATGATTGCTGGAGTTAGGGATCGGAGACGCTAGCAGGACGGAAGCAGGTGGGAGGCAGAGAGGAAGGCTGAAGGGCTGTTGTAGGTGTGGTGGCCACGGAAGGCTTCTCTGAGGAGGTGACTTTAAACTGAGCCCTGAAGAAAGTGGGGGGAGGAAAAAGCCTTGTGAAAATCTGGGGACGGACAGTTCCGAGTGATTTCCCCCAAGTAAGTGCCAAGGCCCTGTGGCAGGAATAAGCCAATGCAGCTGAGGCAGGAGGGACAGCATGGTTGAGGTAGGCATGGTAGCATGTGCAGTGGGCAGGAAGATGCCACCAGCACACAGAATCATAGAGGTCAGGGAGCTGCGTCCTAGTTTTCTATCAAAGTAACAGCACCCCTTGATTCTCAAGGAGGAGAGAAGTTTGGTTTGGATGATAAGTTACTGCTACGGAGGGGAGCCTAGATTTTATTCTTTAGTAGATGGGACCTGAGGACATGGCTCAGCCGTAGAGTGCTTGCCTAGAGAGTGCAAGGCCTGGCTGGGCTCTCTGGAAAAGAGGGAAAGAATTTTAGACAGGCCTGTGGTTGTTATTGTTTTAGCCTCTCCTGAGGCTGAGGCAGGAGGATTGCTTGAGTATAAGAATTCAGACCGGACAGCAGCATAGTGAGCCTTGGTGGGTAGGGAGAGCTGCGGGAGATTGAGGCTACCAGCTGTACCTGAGTGGCTGTCAGACTGAAGCTGACAGTATGGGGGACTGGACATGGGGAACCAGCAAGAAAGTCATGGGAGAGACGGTGGCCCAGCTGCAGAGACAGACCCTGTCTTCTATTCTGAAGGGAGGATTTCATCCTGGGCAGGGTATGGCCAGTTACCTGGATCAAGGCCTGCTGAGTGGGGTGTAGACTGCTGATGGCTGGATAGAAAGTGAAACTGAGGCTTGGGCTGTCACAGCAGGAGGAGGGAGCTGCCACCAAGAAAGGGAGGACCCAAAGCTGCTTGTGGGCAGCAAACTGGAGAGCCTCTGACTCTGATGTGGAGGGACTGGAGGGGACAGGGGGATGCTGGGTGAGGAATGGGCTTGCATTAAATGAAGGCTTCAGTTCTTCAGGCCATGGCTGGACTGGGTGTGGCAGTGTGCCTCTGTAATCCCAGCATGCAGGCGGAGGCAGGAGGATCAGACATTCAAAGCTACTTTCATCTGTCTAGCACATGGAGTGCAGCCTGGTCTACATGAGACCCTGTCTCAAAACAAATGCAAAAGTGTACACACACACACACACACACACACACACACACACACACACACACACACAGAGGAGGGGGGCAGATGGCTGGGGGGGGGGAGAAGACTCTTTGTTCAGCATCCTGGAAAAGTTGCCACCTCTGGCCTCTCCAGGCTTCATCCCTACCACCCTGAAGGCAGAGAGAAGAGGTGTGCACTGGCTGTAACCAGCAGTAGCCAATATGCTGGCATTGTAGACCAAGGAGAGAAGGGCCACAGGACAGGGGCTGAGCCTCAGTCTAGGCCTTCTAGTGTATAGACTCAGAGGTGGGGATTGTGTGAAGGAGGCAAGGAGAGGAAGCTGACACCAGGAAAACTCGCGTCAGGAGATGGGTGAACACTCATCCTGAGTGCTCCAGACAACTCCATTAGGCAGTGGCTATCTTTGTTCCTGATTTATGGAGCGGAAACCCAGGATCAGAGAGGCGGAGGGTCTTATTCAGGGCTGCACAGCTGGGAGTGGCAGAGTAGCCATAGGTCTGCCAACCATAGCGATAAGAATCCTGGGCTCCTGAGACCAGGTCCAAGTCCCACATCAGCAGGCAGGTGGACACGCAGAGAGCTGAGAAGTCCTGAGAATGCTTACCTCTTTTCTCTTCCTCCAG
Seq C2 exon
GGCTGCTGCAGAACTGGAGGCTGCTGGGGACTATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054560:ENSRNOT00000078366:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.107
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]