RnoINT0141907 @ rn6
Intron Retention
Gene
ENSRNOG00000054086 | Sp5
Description
Sp5 transcription factor [Source:RGD Symbol;Acc:1308499]
Coordinates
chr3:56766475-56769277:+
Coord C1 exon
chr3:56766475-56766862
Coord A exon
chr3:56766863-56767544
Coord C2 exon
chr3:56767545-56769277
Length
682 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
CCTCGCCGCCGCCCATGCAGGAC
3' ss Score
7.71
Exon sequences
Seq C1 exon
AATCAGTTCTTTTATCCAGACCAACAAACACACCATAGGAGCTTTGTGGATTCAAAGGATTTGCTTTCGCTTCTGAAAGAGCCGCTATTCTTTGATGATTGGGTAGCGGCAAACTTCAAAGCCATAAATCTTTCCTCTGACTGGCTGGCGGCCCAGCAAAGCCCTTATCAAATTCTTGGAGGTGATCCTGAAGCGCTCAGACCGCGAGCGGGGCGAGCAAGCGGGGCGCGGGTGGGGAGGACTCGGAGGCACGCTGGGCGGCCGTTCGTCCTCGGGTGTCCATGCCTCGGCGGCGGCCGCGTCCCGCTCCACAGCGAGCGGCCTTCAAGCAGTAGCCATGGCCGCTGTGGCTGTCCTCCGGAACGACTCACTGCAGGCCTTCCTCCAG
Seq A exon
GTCAGGGCCGGGCCGGAGCGGGCGGGAGCAGGTGGGAATGGCGTAGTCGGGTCTAGGCGGTTACTTTGAGAACCTTAAATCTCAAAAGGACGATCTTGCTTAAGAGTACGACTGAATCGGACCTAGGCGCACTCACGCCAACTTGATACCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCCGTCCGTCCGTCCGTCCTTCGCGGGTTTGTGGATGTCAGAATGGCAGGAAATTAAGTTCACCTTGCTGGGTTCTCCTGCTGACTTCAGGCTAGGACCGACTACGAAGGAACGCAGTAGTTACTAGGAAAAGAGCTTATAAAATACTAGCGTAGACGAGCCCACAGCCCCACTGTGGTTGTTTCTAGGTGTTCTTAACCAGTCTGGTCCCTCTGCCTCTTTTGCACTTCCCTTAAAGGATGCTTAGCATCTCTTTGAACCAAGTAGTTTAGCGGGAAGAGACGGCGCTCCAGGGGTTCAGGTAGCACTGGCGCTGAAAGTTTCCTGGGACCGCTGGGTGCGCGCGCGGGATGCTGTGAGGTCTGGGGGAGGGACGGCCCGGCAGAGGAGGGGCCGGAGTATAATAGTGGGGGTGGCGGCCCTGCCCAGAGTCCGCGCTTAGAACGCTAACCTTTTGTCTCTTCCGCCCTCCCTCGCCGCCGCCCATGCAG
Seq C2 exon
GACCGCACCCCCAGCGCCTCCCCGGACCTGGGCAAGCACTCGCCCCTGGCACTGCTGGCCGCCACCTGTAGCCGGATCGGCCAGCCGGGCGCTGCGGCGGCACCCGACTTCCTTCAGGTGCCCTATGACCCAGCTCTGGGTTCACCCTCCAGGCTTTTCCACCCGTGGACTGCCGACATGCCCGCGCACTCGCCAGGAGCCCTGCCGCCCCCACACCCCAGCCTGGGGCTGACGCCACAGAAAACACACCTGCAGCCATCCTTCGGGGCAGCTCACGAGCTCCCGCTCACTCCCCCCGCGGATCCGTCCTACCCTTACGAGTTCTCGCCCGTCAAGATGCTGCCCTCGAGCATGGCGGCTCTGCCAGCCAGCTGCGCGCCGGCATACGTGCCCTACGCTGCCCAAGCCGCGTTGCCCCCGGGCTACTCCAACCTGCTACCCCCGCCGCCACCACCGCCTCCACCGCCCACCTGCCGCCAGTTGTCCCCCGCCCCGGCCCCGGACGACCTCCCCTGGTGGAGCATCCCGCAATCGGGTGCTGGGCCGGGGAGCTCCGGGGTTCCAGGGACCAGCCTCTCCAGCGCCTGTGCCGGGCCTCCCCACGCTCCCCGCTTTCCCGCCTCGGCTGCGGCTGCTGCAGCAGCGGCTGCTGCCCTGCAACGGGGCCTAGTGTTGGGCCCGTCGGACTTTGCACAGTACCAGAGCCAGATCGCCGCGCTGCTGCAGACCAAGGCCCCCCTGGCGGCCACGGCCAGGAGGTGCCGCCGCTGCCGCTGCCCCAACTGCCAGGCAGCTGGCGGTGCCCCCGAGGCGGAGCCGGGCAAAAAGAAGCAACACGTGTGCCACGTGCCAGGCTGCGGCAAGGTGTACGGCAAGACGTCGCACCTGAAGGCGCACCTGCGCTGGCACACGGGCGAGCGTCCCTTCGTGTGCAATTGGCTCTTCTGCGGCAAGAGCTTCACGCGCTCCGACGAGCTGCAGCGGCACCTCCGGACTCACACGGGCGAGAAGCGCTTCGCCTGTCCCGAGTGCGGCAAACGCTTCATGCGAAGCGACCACCTCGCCAAGCACGTGAAGACGCACCAAAATAAGAAGCTCAAAGTCGCCGAGGCCGGGGTGAAGCGGGAGAACCCGCGGGACCTATGAGCGCACCGGGGCACTTCCGAGGCCACTCCCACCCAAGACATCCGTCCCAGCACCATTGCAGGCACGCTCGGGTACTTGCCATCGAGGTAGCTGACAGAGAGGAAACTTTAAAAATGAACTTTTTATTGTCCTCCTCCCGAAGCGAAGTCCTGCCGCCCGGCCCTAGAGCGGAGGGCAGGGCAGGCAGGGCTGGAAACTAGGTCATAGTTGAGAACCCCGACTTACCCCAGGAGGATTCCAAAGTCGGAGCCATCCCTGCCTGGGAGACTTACATTAGGGGATTCTACCCAGGGCTGGCTTTGCTTGTGGGAGCCGCTGCTGAAATTAAAAACAAAACAAACAAAAACCAGAAGGACCTTCAGAGATTTAAAAACAGGGCTTAAGTTTTCGCTAGGCCCGATTCGGACTTTGTACAGGTTATTTAATAATAGCTTTGTCAAAGAGTAATTATAATTATAACGTTAATAAATGTTTCTGTTCTCAGCTCCACGCAGAGCTACAGCATGGTCATGGTACGTTTCTGTAAAGCGATCAGCAGTTGCAGCGTGAAAATAAATACGTCAGGGTCTCCTCGGGAAGACCCCCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054086:ENSRNOT00000078819:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.396
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=6.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCACTGCAGGCCTTCCTC
R:
TCGTAAGGGTAGGACGGATCC
Band lengths:
344-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]