RnoINT0141903 @ rn6
Intron Retention
Gene
ENSRNOG00000005472 | Sp4
Description
Sp4 transcription factor [Source:RGD Symbol;Acc:3741]
Coordinates
chr6:146193107-146195284:-
Coord C1 exon
chr6:146195175-146195284
Coord A exon
chr6:146194665-146195174
Coord C2 exon
chr6:146193107-146194664
Length
510 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCCCCTCCCATTTTGGGTAGGAC
3' ss Score
7.43
Exon sequences
Seq C1 exon
ATCAGAAGAAGGAGGAGGAGGAGGAGGCGGCAGCGGCAATGGCTACAGAAGGAGGGAAAACCTCTGAGCCAGAGAATAACAATAAAAAACCCAAAACCTCAGGCTCCCAG
Seq A exon
GTAAAAGCAAACGTTAAAAGAAAATTCAACACAAAGCTTTAGGGAAGAGAGGGAGTTATGCCCTTTAAATACCCAGAAGTAAAGAACAGAATGAAAATGTTTATTCATTCAAAGCATCTTTCTGAGTGAGGAACTTAAATCGTAAATTCATGAAGATTTCGCATAGTTGAGGCTATAACGAACGGTGTTTATATTACATCAGGAATTCAGACTGTTAGAAAACGGTGTCTATTTTCCCAAGGGCATTTGGAGTTTAGAAGAATAACACTTTAAGAAAGTTTACCAGAAAATTCCTTTTTATTTAAACTTTATGTAACAGAACTTGCCTCTTTATTCGTATAGCTTCTACCACCTGCTTTTGTTCATATTTCCTTTTTAATTCTGCTGCCTATTAAGTGTGTTCTGATACTTAGAGCTCTCAAAATAAATAACCCCCTCCCGACTGCTGTCTTCCACTAAATCCGCCCACTTTTTTCCCCTCCCTCTCCTTTCCCCTCCCATTTTGGGTAG
Seq C2 exon
GACTCTCAGCCCTCTCCTCTGGCTTTACTGGCAGCTACTTGCAGCAAAATAGGGACTCCTGGTGAAAATCAAGCAACTGGACAACAGCAGATTATTATAGATCCAAGCCAAGGATTGGTGCAACTTCAGAATCAACCACAGCAGCTAGAACTGGTGACAACGCAGCTTGCTGGAAACGCTTGGCAACTTGTTGCCTCCACTCCTCCTGCTTCAAAAGAAAATAACGTTTCTCAGCCAGCTTCTAGTTCATCTAGTTCTTCCAGCAGTAATAACGGGAGTTCCTCTCCTACAAAAACTAAATCAGGTAATCCTTCCACCCCTAATCAATTTCAAGTCATACAAGTACAGAATCCAAGTGGTAGTGTACAGTACCAAGTGATCCCCCAACTTCAGACGGTGGAAGGTCAGCAAATTCAAATCAATCCAACTAGTAGTTCATCTCTACAGGATTTGCAGGGTCAAATTCAACTCATTTCTGCAGGTAATAATCAAGCTATCCTCACGGCTGCTAACAGGACAGCTTCTGGGAATATCCTTGCTCAAAACCTGGCAAATCAGACAGTTCCGGTACAAATTAGACCTGGTGTTTCAATACCATTGCAATTGCAGACCCTTCCTGGTACTCAGGCTCAAGTTGTAACAACCCTACCAATTAACATTGGAGGAGTGACTTTAGCTTTGCCAGTAATAAATAACGTGACTGCTGGAGGAGGGACTGGACAAGTTGGCCAGCCTACTACTACTACTACTGATAGTGGGACTTCCAATGGAAATCAGTTAGTGTCTACGCCCACCACCAGCACTGCTCCCGCCAGTACTATGCCTGAATCACCCTCTTCCTCTACTACCTGCACAACTACTGCATCAACATCTCTGACGAGCAGTGACACATTAGTGAGCTCAGCAGATACGGGCCAGTATGCAAGCACATCAGCCAGTAGTTCTGAACGCACCATTGAAGAACCACAGACACCTGCTGCTACTGAGTCTGAGGCCCAGAGCTCCAGTCAGCTTCAGTCCAATGGGATACAGAATGCACAGGATCAGTCAAATTCTCTTCAGCAAGTACAGATTGTAGGCCAGCCTATCCTGCAGCAAATCCAGATCCAGCAGCCTCAGCAGCAGATTATTCAAGCTATCCCGCCACAGTCATTTCAACTCCAGTCAGGGCAGACAATTCAGACCATCCAGCAGCAGCCTTTGCAGAACGTTCAACTTCAAGCAGTAAACCCGACTCAGGTGCTTATCAGGGCTCCAACTTTAACACCTTCAGGGCAAATCAGCTGGCAAACTGTCCAGGTCCAGAATATTCAGAGTCTTTCAAATTTGCAAGTTCAGAACGCTGGGTTATCCCAGCAGTTAACCATCACCCCAGTGTCTTCAAGCGGTGGCACAACTCTTGCTCAGATTGCTCCTGTGGCTGTTGCTGGTGCCCCAATAACATTGAATACTGCCCAGCTTGCATCAGTGCCTAACCTTCAGACAGTGAGCGTTGCCAACCTGGGTGCTGCGGGTGTTCAAGTTCAGGGAGTTCCAGTAACAATCACTAGTGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005472:ENSRNOT00000007625:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.525
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGAAGGAGGAGGAGGAGGAGG
R:
AGAAGCTGGCTGAGAAACGTT
Band lengths:
347-857
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]