RnoINT0144529 @ rn6
Intron Retention
Gene
ENSRNOG00000060817 | Stam
Description
signal transducing adaptor molecule [Source:RGD Symbol;Acc:1564499]
Coordinates
chr17:81233845-81235438:+
Coord C1 exon
chr17:81233845-81233940
Coord A exon
chr17:81233941-81235291
Coord C2 exon
chr17:81235292-81235438
Length
1351 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTTTCTTTCTCGTTCCTTAGGGC
3' ss Score
12.38
Exon sequences
Seq C1 exon
CTTCTAGGAGCATGTGTATCAAACTGTGGCAAAATTTTTCACTTAGAAGTGTGTTCAAGGGATTTCGCTAGCGAAGTAAGCAATGTGTTAAATAAG
Seq A exon
GTAAGGAACCTTATGTCCAGATACAAGGGCGTCTTCGTTCTTTCTTTGTGGTTTTTATTGTTAAATTCTTCCCATGTTAAATTCCAAAGATCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCCTAGATTATAAGAACTGTGTTTACTTGAAAAGACTACATGAAATTTTACATTGGTTCTTCTTCTGCAAGCCACATTGTAGTAGGTTTAGGATTTTTATATTTTCATTTGATAAGAAAAGATACATTCCTGGTTAGAATTACCCCAAGATATTTTATATTATTTGTGACTTGCGAAGAGTGTTGTTTCCCTATTTTCTTCCTCAGCCCGTTTATCATTTGTATAAAGGAAGACTACTGATTTGTTTGAGTTAATTTTTTAACTGGCCACTTTGCTGAAGTTGTTATCAGCTGTAGAAATTCTCTGGTAGAATTTTGGGGTTGCTTATGTATACTATCATGTCATCTGCCAATTTTGACAACTTCTTTGCCAATTTGTATCTCCTTGATCTCCTTTGCTTATTTGTCTTATTGCTCTGGGTAGAACTTCGAGTACTATATTGAGTAGGAAGGGAGACAGTGGGCAGCCTTGTCTTGTTCCTGATTATAGTGGAATTGCTTCAAGTCTCTCCATTATTTAATGAAATACCAGTCTACTTTAGGTCTTTTCTTCTTCTTTATTATTATTATTATTTATCATTTTTGTATCCACAAAGGCATTTCCCTAATGTAGACTCCTTCAGAGGGAACTGCTAGAATTTAAGGTCCTATTAAGTCTTTGTCTTACGTGATCAGGGATACTGTGTGACTGGCCATCACTGGGTTTTCCTCCTGTATTACCATTCTCTTGGGCCAGACCTTTAGGTGGAGTTCCCCCCTAATGTGGTGGCAGAGACGTTCTTTCTGGGTACTGCCCCCAAGCCAAGACTGGGCTGGTTGTGATTCTAAACTAAGAAGCACTCAGTTTCAGGGATATTAGCTCATGTTAGCGATTTATATTTGCTTTGCAGTTTTTTAAAAATATAAATAGCAATAGAAATACATAATTATTTTTTGTTGTACTGATGTATAAAGCATGTAAAATTGTAAATCATACTGAAAAGTCCTGTCATTCTGATCTCCAAAATAATTATTACACATTTAATGTATCAGTTAAGTGATATATAGGCAATAATATTTTTCTTTTTTATGGTAAGAAAGTAATCTTAATTAATTTATAGATGTTTTATTTTCACGTGTATAGTCTGTTGCAATACAAAAGAAATATATTTCAAAACTGTACCAGAAAACTGGTGCTTTATCATTATTTTTTCTTTCTCGTTCCTTAG
Seq C2 exon
GGCCATCCTAAAGTATGTGAAAAATTAAAGGCTCTTATGGTTGAATGGACAGATGAATTTAAGAATGACCCACAGCTAAGTCTGATATCGGCAATGATTAAGAACCTCAAGGAACAGGGTGTAACATTCCCAGCCATCGGCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060817:ENSRNOT00000077368:4
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=0.020
Domain overlap (PFAM):
C1:
PF0079014=VHS=FE(23.0=100)
A:
NA
C2:
PF0079014=VHS=PD(28.9=79.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCATGTGTATCAAACTGTGGC
R:
GCCGATGGCTGGGAATGTTAC
Band lengths:
230-1581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]