DreINT0156925 @ danRer10
Intron Retention
Gene
ENSDARG00000002127 | stam
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 [Source:ZFIN;Acc:ZDB-GENE-031118-123]
Coordinates
chr2:31460069-31462299:+
Coord C1 exon
chr2:31460069-31460215
Coord A exon
chr2:31460216-31462208
Coord C2 exon
chr2:31462209-31462299
Length
1993 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATC
5' ss Score
4.28
3' ss Seq
AAGTTTAATTTTTTGATTAGGCA
3' ss Score
3.4
Exon sequences
Seq C1 exon
GGTCACCCAAAAGTATGTGAGAAGCTAAAGGCTTTGATGGTGGAATGGGCCGAGGATTTCCGCAACGACCCTCAGCTCAGCCTGATCTCTGCAATGATTAAGAACCTCCGAGAGCAGGGCGTCATCTTCCCTGCCGTGGGCTCTCAG
Seq A exon
GTGATCTTGCTCCCTGAAAATGCAGATCTGCCAAATCACAGGATTCTCTTAAATGCCGGAGTCACTTATTGTAGATGTACCAGAGAAATAAACGTGTCAGGAATGCACCAAAAATACATGGTTGTTTTAACCTTTGCATCTCGCTGAAGTTGAAACTTTTAGTTTTTTACCTCTTCATTCTTAAATCCCAATACCAGATTTTTAGTCTGTGCTATTTTAGTTAGTGAAAACCCACTAGACATTATATAGTGCACATCCCAACCAATAACATGTATAGTGGGTACAGTAAGTATTCAGTTCCTCTTAAATCTTTCACTTGTTATATTGCAGCCATTTGCTAAAATCATTAAGTTCTATTTGTTCCTCATTAATGTACACACAGCACCCCATATTGACCGAAACACACAGAATTGTTGACATTTTTGTAGACTTATTTAAAAAAAAAAAGTTATCACGTGGTCCTAAGTATTCAGACCCCTTGCTCAGTATTTAGTAGAAGCACCCTCTTGATCTAATACAGCCGTGAGTCTTTTTGACATAGATGCAACAAGTTTTGAATAAAACAAGGATCCTCTGCCATTCCTCCTCGCAGATTCTCCCCAGTTCTGTCAGGTTGGATGGTAAACGTTGGTGAACAGCCATTTTTAGGTCTCTCCAGAAATGCTCAATTGGGTTTAAGTCAGGGCTCTAGTTTGGCCATTCAAGAACAATCATGGAGTTGTTGTGAAGCCAGTCCTTTATTATTTTAGCTGTGTGCTTAAGGTCATTGCCCACTCTAAGGTTCTGAGCACACAGCATGATGCTGCCACCACACTGGTTCACTGTTGGGACTGTATTGGACCGATGATGAACAGTTCCAAGTTTTCTCCACACAGACCGCTTAGAATTAAGGCCAAAAAGTTCTACCTTGTCCTCATCAGACCAGAGAATCTTATTTCTAATCTTGGAGTCCTTCAGGCAGTTTTTTAGCCAACTGCATACAGGCTTTCAAGTCTCAGGCCACTCTGCCATAAAGCCCCAACTGCTGGAGGCCTGCGATGATGGTTGACTTTCTACAATCTCCCAAATGCATCTGTGGAGCTCAGCCACAGTGATCTTGGGTTCTTCTTTACCTCTTTCTCCAAGGCTCTTCTCCTCGATAGCTCAGTTTGGCCAGACGGCCAGCTCTAGGAAGGGTTCTGGTCGTCCCAGACATCTTCCATTTAAGGATTATGGAGGCCACTGTCCTCTTAGGAACGTTAATCCAGCAGAACTTTTTTTGGAACCCTGGCCAGATCTCTGCCTTGCCACAATTCTGCCTCTGAGCTCTTCAGGCAGTTCCTTTGACCTCATGATTCTCATTTGCTCTGACATGCACTGTGAGCTGTAAGGTCTTATATAGACAGGTGTGTGTCTTTACCTAATGAAGTTAAATCAGTCTAATCAAACACAGCTTGGCTCAAATGAAGGTGTAGAACCATCTCAAGGATGATCAGAAGAGATGGACAGCACCTGAGTTAAATATATGAGTTTCACAGCAAAGGTTCTGAATACATATGTGTTTTTCTGTCAATATGGGCTGCTGTGTGTACATTTGAGGGGGAAAAAAAACTTTTAGCAAATGGCTGCAATATAACAGAGTGAAAAAAATTAAAGCGTTCTGAAAATTTACTGTATCCCCTGTAAATTATTGTTTATATTTTACTATCGGCTTTGTTTTTTATTATTTATAGTATTTGTAACATTTAATATTATAGTAACATGCAAGTCATGGTCTCCAGAGCATTAGCCAATAGTTTTTTTTTTTAATTTTTTTTTTTAGCTTTTATAAAAAGTTATTGTAATTGAATTTATTAAAAGACCACTAATATGATCTAAAACATGCTCAATTTTTGTAACATTGTTTCATTATGTCAGTTTTTTTGTGTAATTATTAAGATTTAAAGCAGGCGATATGTGTATTATAATGTTAATGTAATAAGATGAGTAATGAGAAGTTTAATTTTTTGATTAG
Seq C2 exon
GCAGCAGAGCAAGCTAAAGCCAGTCCCGCATTGGTAGCTAAAGATCCTGCAACATCAACAAACAAGAAGGAAGAAGAAGACCTTGCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002127:ENSDART00000141170:5
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=0.742
Domain overlap (PFAM):
C1:
PF0079014=VHS=PD(28.7=79.6),PF136461=HEAT_2=PD(19.3=42.9)
A:
NA
C2:
PF0280915=UIM=PU(50.0=29.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCACCCAAAAGTATGTGAGA
R:
CTTTAGCAAGGTCTTCTTCTTCCT
Band lengths:
238-2231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]