RnoINT0070920 @ rn6
Intron Retention
Gene
ENSRNOG00000011015 | Hivep2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:RGD Symbol;Acc:61988]
Coordinates
chr1:8322045-8324751:+
Coord C1 exon
chr1:8322045-8322220
Coord A exon
chr1:8322221-8324649
Coord C2 exon
chr1:8324650-8324751
Length
2429 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CCCTTGTTTGCATTTTCTAGGAA
3' ss Score
10.26
Exon sequences
Seq C1 exon
GTACAAATCCAATGAAGATTATGTGTATGTCAGAGGACGTGGACGGGGAAAGTACATTTGTGAAGAGTGTGGAATTCGCTGTAAGAAGCCAAGCATGCTGAAAAAACATATACGCACTCATACTGATGTTCGGCCTTATGTATGCAAGTTATGTAATTTTGCCTTCAAGACGAAAG
Seq A exon
GTATGGGCTTGACTTTTGTTGCTGTTGTTGTTGGGAGAGGAAAGGTTTCAGGAAAACTTCCGGCTACTTAGGATTCTGAATCCTACTTTGTAACTCACTTTCACCAAGCATAGAGAGTGTTTTGTTTGTGAAAATATGACCCCCTGAGATATATTTCCTCCTTCCTGTCCAGGATCAAAGGATGTATGTGAGACTCTGAGACTCCTTTTATGACTAATTAAGAGCTGCAGACTGAGGGCCAGGCAGGTTGTCTCTGAAGGAAGTGGCTTAGAAGTGTCTGGATAGCTATTACTTCATGTTGGAAATTTATGTGGGCTAGGTAATATTTGTACTAATATTGAAATTCTGCAGGGAGGCGATACATGAATGGCAGTGGATAAGCAAGGGAAGTTACTGGGAGGAAAAGATGTGGCCATGGTCACTTTCAAGATTATAAATAATGTAAGGACCCACAGACTCCCTGGTGGGCCCCTCCATCCACAGCTGCATTAATTATACATAGAGATTTGATAGCTTCTGCTCTCTGTATTTATCAGCATGGAGACAAGTCTTACTCTCAGACCTCAAGAGTTAATCTCATCCAGCTAGGACCTGCCTTGAGATAGCCTGTTACTTGCAAATGTGTGTTTTAATAGACTGATTTAGACAGAAATGTTTCACTCAAGATTGCTCGACTTGTATTTCTATTATTCTGTACTACGGTGAAAATCCTCATGGTCCATGTCAGATCTGTCTAAGGGAGCTTGTAGACTGCCCCTCTTCAACCCCCACTTCATTTCCAGTGTTTTAACGTTCAATTTCAACATCAAGTAGTCTGCCCTGATATCAACAATGAAATACAGGTGTGAATTATGATAATCTGGTAGGGAGATATATAATTATCTCAGTTGTAGCCCACAATCTTAAATTGTGATCTTTTGACGGAAGTATTAATGTTTGGTGTTTTCTAATATCTGTTTATTTGGAGAGTATTTATGTGTCTTCGGTGCCTCATTTGTAGTGCAATAAGGAGAGGGAACGTAAGCATCTGAACATCAAAGGAAGTAAGCATGCTGCTCTCTAAATACCCTTCTCCCTTATGGTGATCCAGCTTGCTCAGAAGTCCCCAGGAGGGAAGAAAATGTAAAAATTTGGTCTTAGGACACACCACAAGCCCACCAATCACTATAAAGTTGTCAAAACAGTGCTCTAGGTAAATGGTTAAATCCGATTCTGAACCATCGTGAGGACTCCACCAGGAAAGAGCATCCTTCCGATCATTAATGGAATCCTTTCCCCTTGCCTGTACCAAGCTCCCACTATTTTCTCCTGCCCTTGCTTTGGCCTGCTACCTCAGATGCTCATGGCTTCCACAAATCAAGGTGGGATTGTTTCCAATTCCAACTTCTATCTAGAAATCTACTCTGAAGATTACAAACTTACTCAGAAAAAGGGAGCCCAAGTGAGTTCCTCTTTGGAGTATGAAAAATATATATATATATATTTCATATATACAGTGTATGTGGAAGCAACACAAACGTTCAGACACAATTTACTCTGTGTCTATGATGGATTGATTCTAGGAGCTCCCACACATGCTCATCCTCTGTATAAAGTGCTGTATTATGGGCACACCTTCTCATAATTTCCAGGTTACTTGAATACTTTATTCAATGTAATTGCTATGTATTTTTAAAAATCACATTGATTATGCAATATTCAAAAAAGAAGATTAAAGTTTTTCAATACAGACAATATATTCTTCCAGTTTTGATCTTTGGGCGGTTGAGACTAGTAATATAGAAGTCATGGATACAGAGGGCTGGATGTAACCTTGTTTAGCATCTACACCCATGTACATACCATGCATACATAAACAACGGAAACACATGGGTTTCATGAATTCATAGAAAATTAGTAACGTTTAATTCACATACACCCTTAAGAGTTAACATATCAAAAATCTCTTTGAGCTCTTTCAAAAATTATAGATGTTTTGATAAGAGCAATAAAAGTGTAGAAATATCTGTGTTGGATGTATAAAAATAATATGTAGAATTCCTAGATACAATCAACAAATTGATCATAATATGAGATAGTTGTTTTTGAAAGAATAGTTCATTGTGATGTAGTTATTTAATTAGTACTAAGTATAGCTGTATCAGAGAGAGAAAAAAAACAATGCTTTTATCAGGCTGAATTTCTGGGAGCATGTACTGGAAAATAAAAGTGCATACCTGTGTGTTGCTCCTACACTGTCTAGATGACAACAGACCATAACAGTCATTTCATAAGAACAAATGAATATACTCTAGGCCCCTGAATTGATCCCTGAGTTTCCTGTGGTAAGTTCTATAGTATAAAAAGTGCATATGCCCATCCCACACGTTTTACCTCAGTCATTACAGTTTGATAGTTAATTCTCTTGTTCCCTTGTTTGCATTTTCTAG
Seq C2 exon
GAAACCTAACGAAACACATGAAATCTAAGGCCCACATGAAAAAGTGTCTGGAGCTGGGCGTCTCGATGACATCAGTAGATGAGACAGAAACAGAAGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011015:ENSRNOT00000015131:4
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=0.400
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=43.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]