RnoINT0144545 @ rn6
Intron Retention
Gene
ENSRNOG00000027447 | Stam2
Description
signal transducing adaptor molecule 2 [Source:RGD Symbol;Acc:1311497]
Coordinates
chr3:38243427-38249226:-
Coord C1 exon
chr3:38249040-38249226
Coord A exon
chr3:38243522-38249039
Coord C2 exon
chr3:38243427-38243521
Length
5518 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTTTTCCGTGCTGTTTTCAGTGA
3' ss Score
10.03
Exon sequences
Seq C1 exon
CTATTGAGTTATCGTTGCAAGAGCAGAAGCAGCAGTACCCGGAGACGAAGGCTCTGTGTCCACCCGCAGAGAGCCAGTTGAGTAATAAGGTTGCACGGAGAGTTAGAGCTCTATACGACTTTGAGGCCGTTGAGGACAACGAGCTCACCTTTAAACACGGCGAGATTATTACTGTTTTGGATGACAG
Seq A exon
GTAGGTTCTATGCTTTTCTGTGCATCTGTGTGTACTAGTCTGAAAATACTCAGTATCCCTAGATGAGGATAAGGAATACTCGTGATTTTTACTTTTAGTCAAATAATACAATATTCTCTTATTATTTTCTTGAAAATCAGACAAGGCAGTGAGACCCCGTGGTCAAAGCAATCAAAAGCCATGCTAATAGAAATGCTATTGCAGAACTCCCTCACCATTCCTTTACATTTACAATCCAAAGAAGCAAAACAGATTGATCTGTTTTGAGCCTAATTCTCCTCCTCCTTCTCTTCTTCCTCCTCCTCCTCCCCCCCCCTTTTTTTTTTTTGGCTTGTTTATTTTTGGAGACAAGGCCTTTAAGGCCTTCTGTCTCAATTTCCCAAATGTTGAAGTTACAGAGAATTGGGATTTCTGCATGAACTTTATTATACTTTTAAAAGAAGCGGAAGTGGTCTGTGAGCTGGCTCAGTGGATCACAACTCTTGCCTTTACGTGTGAGGGCCTGAGTCCAGTCCTTGGGACCCACATGTGGTAGGAGAGCACTGTCTTTTGCAAGTTCTCTTCTGCCTTCCACACACACATACACGAAATAGATAAGTGAACATAATCCTTTTTTTAAGTCGATGAACCTTTGCAGTAGTGAGGCCAGGCGGCTTTCTGCTGTGAGCAAAGATGGCGAGTGTACCTGCTTTCCTAGACTAGTGAGGTACATGGAAGTAGTTTTAATTTTTTAAGTATATTTATTTGTGTGCACACATGCATGTATGATCGTGTGTATGCCCACACAACCACCATGTGATGTGGAAGTCAGAGGACAACTTGCAAGAGTCACCTTCTACCCCAGAACCCCATGTGGGTTCTGGAGGCCAGACACAAACAGTCAGGCATCACCATAACCTGCTGTGCCATCTTGCTGGCCCTAGTCTAGCCTATTTTTAAGTGGCTACATACATATGGTTTTGCTTTGCTGCTGTATTTATAGAGAAGATGTTATGTAATAGACTATTTATAATAAAAAAAATGAATGAGGACACAGTTCTGTTTTTGTGAGACTTAAGTAAGGGAGTTAAAATGATGGGGTAGACAGTGATATATGCAAGACAGAGCATGACGATACCATGAAAGAGGCTGTCTCAGGCCACGGAGAACCAGTTTACATTTGGTATAGACACTGGCTTGCCCAAGGGAGGGTTGCTTCGTTTCAGATGAATCTTGATGGAGTGTTTTTCATTCCATGTTTTTCACTGCTAAGGACTGAACTCTGGCCTTGTACACTCAGGGCAGAGCTTTGACTCTCAGTTATGTCCCTAACCCCTTGGGTTGACTTTGAAAAAAAAATTGTAAGAAACTGAAAGGAGTCTAAGCACTAAACAGAAAAATAAGAAAGAAGCTTTAAGGAAAGGCTAGGATAGCATCAGCACAGAATTTATTGCTTCTTTGCCTGTAGTAGCTGTGGTTTCCTCGTAGGATGGTCTTACCCATCAAGGGCATCACTTTCCTTCTGCCACTGTCATTACAAGAGTCGTCAGGGAGTTGTTCTGGTTAGACCTCACAGCTGAAGAGAAAGGCTCAAGAGTTCCTTGGTTCTGAGACTTACACTTACTTGTGGGGAGGGTGCACATGTGTGCTGTGTCATGTGTGTGACGGTTAGAGGACACCGTACAGTTCTTTCCTTCCGCCATTGGGTCCTAGGGGTCAGTCTCAGATCTCCAGGCCCAGGAAGTGGTTTTAGCTGAGTTGTGTTGCCAGCCCAAGACCTAAAACCAGATAGGAGAACCTCAATCTCCTTTCAAATCTCAGAATACAAAAGGTAGGTTGTTTGTTTTATTTTCTCATAGCATTCCATAATAAATGCAGAGAAATGCCAGTTTTATTCTAACAGCCTAATTTCCTTTCATCTTGTCAAGTCAGCTTCTCTTCAGGAGTCACCTGCTGAGCTGTGTTTCTCTCTGCTGTAGCCAAGCACCCATGTGACAGACACAAGTGAGGAGGCTGTGTTTTCACCGAGAGTCCTTGCTTGTGTAGAAAGTAGTGTACAGAATATCTCTGGGCTACTGATGCCTCCTTCTCTGATCTAAGAATTTAGGTGGTGGGTAGCTCGCTTATATCATTGTGGAACTCAGTAAATGAAATGCTTCAGAGGCACAGAGACAGCTTCGTCATTAATCCCAGGATTCCTCCTTTGAGGACAGCGTAGTGTAAGAGTTTGAACCTCGCACGAAAAGGCTTTGGATACAGTTCCTAGTCCTACCAAGAAGAAAAAGAAAACCAAAAGCATCTTTAAGAATCACAGTTTGTCACATGAAATTTCTAGAAAGTAGATAAAAAGGGTTCTTCCCGGATAACTATGACTGTCCTTTTTTGGAAGTCCAAGAGAATAAGTGGTATTGATAAACAGCTAAGTTGGATTTATTAGATAAAACTTAATGACAAAAATCAGTGGTAGGTTTGAAAATGTAGTAGGAAGATGTCATTCTTTACTGCAGCTGTGAGGACTTTGAGAACCTGTGTTTGGCCCACTGGATCAACATGGCAGCTCACAACTGTAACTCCAGTTTCAGGGGTGCAGTGCCTCTTCTGAGCTGTCAGGTGCCTGCATGTGGTGCCATGTGCACGCTCAAGCCCACATACTTAGGTATAAAGTAAAATCACTAACGCCATCTGGTAATGAATAACCTGCAAGGGTATGCAAGGCCTTTATGGAGACTCTATAAAATTCCTGGAAAGGTAAGAGATAAAAGTATACATTATATTTATAAACATACAAATAGAGTGATAAACCTTCATATTGTAAAGATTTAGGTTTTCTCATATCACATAAATGAACTGCATTTCCAATTAAACTCCTTTTAAAATTCTTTTTCCCAAAGAATTTGAAAAAAGTTGGAGACGTGATGTGTCCAGAGAGTGGTTAACCAGCCAGCATGAGGGGCGTGGACTCTTCCCGATGTATTGTACATAGCAGTCACTTCCTAGGCAGATGAGAAGCAATCTAAGCCTTAGGAATTGCTGGCCTCTGCAGTCTTTTTCTCTTGGCAGCATGATTGACTGCAAGTAACGGAATCTACAGAGAGCTAAACGGCAGCTGACGAATTCCTCTAGACTGTTGGAATAGAGTGAGACACCGAGATAGGCTCAGGACAGACACAGCTTGCAGTGTGACTGTTAGGGGAGCAGATGTTAGGGGTTTTTTTTTTTGTTTTTGTTTTTTAATTTATTTTTTACTCAATCACTTTGCATCCTGCTCACGGGCCACTTCCTGGTCACCCCCTCACACAGTCCTTACCCCTATTCCCCTCCTTCCCTCTCCTCTGAGTGGGTGGGACCCCCAGCTATCCCCCCACCCTGTTAAATCAAGTCTGTGAGGCTAGGAGCATCCTTTAGTGAACTCTTAGTAATTTTTGCTGCACTGATTTGTTCTTCATACAATAAAATGAAGTTTGTTCCACACAGCACTTACAGTTTGATTCCACATGATTTAGTGACCTAAGCATGGCAGATGGACAAAAATGCAATCTGAATTATTAGACAAGTCTCTGGGGAGGGGGTAGATAGTAATTTAGGGCAGAGAAAGCTAGATAAATGTGAGACATGGAGAAAAGGTTACTTAATTGCCCTGAAAGCAGGGGTGGTCTTAATTCAGTTGCCATTCTAAGTTCATAAAGAACTAAAATCCATGAAGAAAATACCTATGGTCCAGTAGGAAAAACTAAACAGGCAAAGATAAGAACAAGCAGTTTAGGACTGGAGAGATGGGTCAGTGGTTAAGAGCACTGACTGTGGGTTGGGGATTTAGCTCAGTGGTAGAGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAAAAGAAAAAAAAAAAAGTCAAAACATTGCTTTATTTTGGGCTGGAGAGATGGCTCAGCGGTTAAGAGCACCCACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTTACAACCATCTGTAAAGAGATCCGATGCCCTCTTCTGGTGTATCTGAAGACAGCTACAGTGTACTTATATATAATAAATGAATAAATCTTTTAAAAAAAAAAAAAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCATATGGTAGCTCACAACCATCTGTAATGGGATCAGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCATAAAATAAATTAATAAATCTTTAAAACAAGCAATTTAAAAAGTGAATTCCAGTATAGCAAGGCTACATGGAGAAACCCTGTCTCAAAAAAAGAAAAAAAAAAGAGAGAGAAAGAAAGAAAGGAGAAAAGAAAAAGAGAAAAAGCAGTTTGTGGAAGAGACCTGGAGAATCCCCGTGAGCATGATGAAGCATGCCTTGCCTTCTTTCTAGAATCAGATGTCGGCACGGACAATTACCACGTGTGGGAAAATGACTGCCCCACATGCTCCTTGGGGAAGGAGTGTGAGGTACCAGTCTTTCTAAGGAACATTGGCAATATCTGTAAAACCAAGCATGCCTGAGCCAGCACGTAGTTTTGTCTGTGTGTCCACCCTTCTCCCTACCCCCATCCCTTAATATTTTCGGAGACAGTTTCATTGTTTTGGCCTTTTTATCCAGACTGGTCTTGAACTCCATGGCTCATACAGTTCTTTCCAAGTACGAAGAGCTATAGGCATCAGAACACACCTAGCTTGCAGGTCAGTCTTGAACAAACCTAGAACAGTAGTTGCGCAGGTCAGTCTTGAACAAACCTAGAACAGTAGTTGCGTATCAGCTTTCTAATCCAGAGTGATTACTAGTCAGTCTTGTTTGTTTTTCCAAGACAGAGTTTCTGTGTGTAACCCTGGCTGTCCTGGAGTTCACTCTGTAGACCAGGCTGGCCTTAAACTCAGAGCTCCATCTGCTTCTACCTCCCAAAGGCATCTCCCACTGCCTCCCTGTGCTCTTCAGTCTATAAAGTTGAGAGACTGGGAATGACCTGGAATGAGCTGTAGAAGTCCATCTTCACAGAAATGATTAAACTAAGTGCATGTGCACTTGTGACAGAACTTTAAACGAGACGAGTAGCGCTGGAAGTATTAACCATGAAACTAAACGGCTCTCCCTGGAGCGACACACGTCTCCACACAAGTGTCAGCTCAGCTGTCTTTACGTGTGAAGGGATGGGAAGTAGATAGGGAAGGAGCTGCCTCGAGTGTGGTGCTGGGCGTGTGGAGGGTGGATTTGGGCTTAGCCACTGATAATTGCTTCGAAGCGATGGTATGGGGATATAGATTTTCTTAGGTTTATACATTTTTAACTGTCTTTTCATTAATTTGAGAAAAAAGTGTTTCTGGTTCTCCGATGCTAGGATTACAGGTTTGTCCCACTGTGTCTGGCTAAGAAAAACAGCTTTTAAGTATGGCTAGATGGGAACAAAATGTGAAAGTCCAGTCGCCATGTTGAGTTTCTCTTGTTGGGGTGCAGAATAGCCAGTGACCTTTTCCGTGCTGTTTTCAG
Seq C2 exon
TGATGCCAACTGGTGGGAAGGAGAAAATCACAGAGGAGCAGGACTCTTCCCCTCCAGCTTCGTAACGACTGATTTAAGCACCGAGGTTGAGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027447:ENSRNOT00000037857:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.206 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0280915=UIM=PD(44.4=12.7),PF0001823=SH3_1=PU(58.7=42.9)
A:
NA
C2:
PF0001823=SH3_1=PD(39.1=54.5)
Main Inclusion 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:
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]