RnoINT0134671 @ rn6
Intron Retention
Gene
ENSRNOG00000011752 | Sh3d19
Description
SH3 domain containing 19 [Source:RGD Symbol;Acc:1304885]
Coordinates
chr2:185418401-185420381:+
Coord C1 exon
chr2:185418401-185418531
Coord A exon
chr2:185418532-185420322
Coord C2 exon
chr2:185420323-185420381
Length
1791 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
CATAATTTTGTCTTTGCTAGGTT
3' ss Score
9.38
Exon sequences
Seq C1 exon
AGCAAGCCGATGATCTGAGTCTCACATCTGGAGAGATTGTTTATCTTCTCGAAAAAATAGATGCAGAGTGGTACAGAGGGAAATGTAGGAACCAGACTGGAATTTTTCCTGCCAATTACGTCAAAGTCGTT
Seq A exon
GTAAGTGGGGTTTGTTTATTTTATTTGGCCACACATTCCGGTGCTTTGGTGAGGCTCACAGATAGGAAGGAGAAGCTAGAAGCCTACAGTCTTGAGACAGACTTCTCTGGATCACTTGACAGTCAGACATTTATTTTTTAAATGAGCATTTTCCCACACAGACTAGCTCTGTCAGCATTCAGTTATGGAAGGAGTAAGAGCTCAGCAGGGATCTGTTGCTGCTGACCGATTGGCTAACACAGTCTAGGAGTGGAGGACCCACCAGCTTCAGTGAAGTACACATTGCCGGGCCCAGCCTCCAACGAAACAGTACCAGTTGGTAAATCACTCATCCTTGGAGGGTTCTTAAGCACTTAGGGATATGTGCCTGGAGACATCCAGTGACCATGGTTAGTGCGACCAGACATTATTCTGAAGGGATACTCTTAGGGGGCGTGGCACATCAGTTTGAGAAGACCCAGGCTCTTCTACCTTAGCTACTGGTCCATTGTCTTTCACATTTTCAAGTCAGATTGGAGAAAATTATAGTGAAGCATCAACATTCTATAGCCCCTAATAGATTAACTTGTGGACACACTCCAGTATGTTGAAGACTTTCCTGCTAAGCTGGGGTAGCTGTGAAACAGGGACAAAACAAGACTGTTTTTTGAACACATGTAGTAATAGGAAAAATATGGCTCACTCCCTGATATAACCTGTGGATACTATGAAATATTAATAAAGCAGCTTATTTTGAAGGGAAAAAAACAGTAATTTTCTATTACTTCAGAAACTTTAAAATCTAGGTATTACAGAAAATCTGTATTTTTCAAGTAGAGAGCATCTGAGCCTCTTGGATTATGAAATGTAGGACTTAAACGTTGCCCAGTGCAGATGGGGCCTGGTTCTTTGCAGGCCTCCAGCCACACTCTCTAAATTAATATTAAGAGTAATGTAAGTTTGAACACTCCTCCTCATTTCTCTTCTGCTCAGTGTAGCCGTGCTCTGAAAAGCACAATTACCACACTGAAATCAATCACACCCAGTCGGCCACATTATTGGTATAAATGTTATTCCTAAGCCCACAAGTTTAAAAAATTGTTTTAAAACATCACACTTACAGAATTTATCAAAAAGGGCCCTGATCTAATATAGACCTCACAGCCTTAAGTAGTTTTCAACTGCGTGGTTATGGCCGAGACTTTTATCCCAGCCTAGCTCTCCCGTTTACTAAGCAACCAGACCAAGGAAGTGCCTGGCGTTTAGGAGACATTTAGCACAAATTGCTTTCTTCCTGCCCCGTTTATATGAAGGAGAGAAGTGCCCCCTTAATATGGGGAGAACACACCAATCTGATCAAACGCTTCATTTGGGAATGTCTGATGTCACACGCTCCTCGGATGCAGTGTAGAGAACTCTCGGGGATGGAATGGTGTCATGTGCTCATGGCGACACATGAGGCAAGAGTTCATGGGTTGCTCGAGGAGGACCACATCAAAAGCCATTCTCCCTCCACACCTTTTAGATAGGGTCTCACTGCTGTGGCCCTAACCTCTTTCTCATGATCCTCCTTCCTCAGCCTCCTGTGTGCCAACATCACAGGAGTAAGTAACCACACCCCGCTGAATCTGTGCAGTTTTTCCAAAGCCCCATTTTGGTTATTTTAGTGTTTAGGAACGGCACCTCCAGTAGGTTCAACAGCTACCTTCCCTGTTTAATTTTAATCACTCGTCTTCCCAGTACTTGATGTTAAATTTCATCTTAACCAAATTGTGGGGGGGAAAAGTGTTACCATAATTTTGTCTTTGCTAG
Seq C2 exon
GTTGATATTCCAGAAGGAAGAAGTGGAAAAAGAGAATCATTTTCATCTCACTGTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011752:ENSRNOT00000015802:9
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=0.200
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=PD(80.4=84.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAGCCGATGATCTGAGTC
R:
TTAGCACAGTGAGATGAAAATGATT
Band lengths:
190-1981
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]