RnoINT0141898 @ rn6
Intron Retention
Gene
ENSRNOG00000010492 | Sp2
Description
Sp2 transcription factor [Source:RGD Symbol;Acc:1592078]
Coordinates
chr10:84891821-84893433:-
Coord C1 exon
chr10:84893240-84893433
Coord A exon
chr10:84892175-84893239
Coord C2 exon
chr10:84891821-84892174
Length
1065 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CAGTTACTTCTTCTTCTCAGGGG
3' ss Score
6.38
Exon sequences
Seq C1 exon
GTCTGGGGAGCAGGGCAAGAAGAAGCATGTGTGTCACATCCCGGACTGTGGAAAGACTTTCCGGAAGACGTCCTTGCTTCGGGCCCATGTCCGCCTGCACACTGGCGAGCGACCCTTTGTCTGCAACTGGTTCTTCTGTGGAAAGAGGTTCACACGGAGTGACGAACTCCAGCGGCATGCTCGCACACACACAG
Seq A exon
GTCAGTTCCCCCATGCCCCGTCTGGCACCCTTGCTCGTTTGGGAGCTTCTACACTGTCCACACTACCCAACCCCGAAACAGAACCCCCAAGCAGTGAAGTGCGCCCGGTGCCGTGCTAGCATTTTCCGGTAGGTTAGTCCCAGTAAGGCCTTGGGGGTTACCTCGTGACATCCACTTTGCTGAGGCTTGGGCAAGTGGCTAGTGGTGATGCGCCAGTTTGGCTTAGGACTTGAGGTCCTTCTGGCTCAGCCTCTCTACGGCACGGTAAACTAAGCCCCCAAGCTTGCCTCCCCTCTTGGCCTGCCCCTCTTTGCTTTGGAGAGGGGGCAATAATAAGATTTAGCTAAGTGCTCCGGGCTGCCCTGGCAGCAGTCCTGCCTCAGACTTCCAGCTGTTGGGATTACAGTATGAATCACCACACCCAGCTTCTTTTAAAGCATTTTGCCCTGTAGCCTAGGTTCACCTTAACTCATGGCACTTCTCCTATCTCCTAAATGCTGAGATTACAGGCCTGCTCCAACATGCCTGGCCTACTGAAACCTGCCTCGATGGCACCCTAAGTTTGCTATGAAGGTTGCTGTCACTATTACGTGCTCTAATGCACACTACAGAAAGTGCCACACCATAGAAGACCACTCTATAGAAGGTGCCTTAAAGTTGTCCTGGGCATGCCCAGTGGTCCACAGGGCTCACCTTGCTGAGCAGACACAGGGTGGGTCACTGTGGTCCAGTCAGTGGGTGCTCAGGACTGAGATGTCTTCCTGCAAGAGGAAGGTGTTGATCAAGGTTTAAAGTCCACCGGACAGTCTAGAATGGAGCAGGTACACAGACTCAAGGACAGCAGCCTGGGCAAGGACCGAGGAACAGGCTGGAGCGAGGTAGATTAGGTAGGGTAGATGGGGCAGAGAGGTGTGGCCAGTAGACAGCAGGAGGGGCTGTTAGCAGAGTGTGGAGACAAGGCTGAGGTGGGTTCCCAGGGGCTCTCACGGTCTGGGGCTTTTCCTTTCTCAGCCTGGGGCAGGGACGCTGCATCTCTCTTTGGTAACAGTTACTTCTTCTTCTCAG
Seq C2 exon
GGGACAAGCGCTTTGAGTGTGCCCAATGTCAGAAGCGCTTCATGAGGAGTGACCACCTCACCAAGCATTACAAGACCCACCTAGGCACGAAGGGCTTGTAAGGCCAACTGAGGCAGGAGGCCCTGAAGATGGAAACCATCCCCCCATCTGATTGGCCCTGGGTCCGTGATGGACAGGTGCCACAATTGCCCTGGGCAGCCCTCACCCCACTCCTGTTCTGTGGCTGTGTCCCCACAGGGAGGGACTCTATTCCTGTGTTCTTCTCCTTCCAAAGGCTCTGCCCTTCTTACCATGAGCTCCTGGCCTACCCAGGCTATGGACACAGGCCATGCCCAATGAGACGTTCTAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010492:ENSRNOT00000068083:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=42.4),PF134651=zf-H2C2_2=PU(41.7=15.2)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(54.2=38.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCGGACTGTGGAAAGACTT
R:
ATTGTGGCACCTGTCCATCAC
Band lengths:
342-1407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]