RnoINT0070919 @ rn6
Intron Retention
Gene
ENSRNOG00000011015 | Hivep2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:RGD Symbol;Acc:61988]
Coordinates
chr1:8317831-8322220:+
Coord C1 exon
chr1:8317831-8317985
Coord A exon
chr1:8317986-8322044
Coord C2 exon
chr1:8322045-8322220
Length
4059 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
TTTGCTTCTTCTTCAAATAGGTA
3' ss Score
10.16
Exon sequences
Seq C1 exon
ATGAAACCTGATGCACCCTTCTTGTTTGGCAACAAACTAGAAAGGAAATTAGGGGGAAATGTCTTAAAGGAAAGAGGGAAAGGAGAGATTCACGGAGATAAAGATCTTGGATCCAAACAAACCGAGCCAATCCGAATTAAGATCTTTGAAGGGGG
Seq A exon
GTAAGGAAAACATAAAGTGTTGGGTTGGTTGTAAGTTGTCATGAATGGTCCCTGAATGGTTGACTAGAAAATAGTGTGTGATCTTGCAGATGCTTACAGGAAATTCCTTTTGCAGTCAAATCGAAGAGTGCTTGCTGGAGAAGGCTAGCAATTACAGGTCCCTTCTAGGACCTGCCCTCAGTGAGCTCGGTCCCATTGTGCATGGAGTCTCTGCCTTCAGTTCTCATTTCTCTAAATCTGTATGAAATCTACATTGGCAGCCTCATGGCGTTTCTCATGTCCCTTCGTCCTACACTACTTCATGAGTTACTACGTAGACATATCTATGTTCTGTGTTGACCTGAGTGGAACCATGTATAATTCTGAATATTTCTAAGAAATAGTTTCTGTGAACTTCAGACTTTCATGGGATTCTGACACTTCCACCACCCATGATCCTTTGGCTCTTGAAGTCAAGGTATCTCATTTAGCTCACTGTGTTCTCTATCCACTGGTGTATAATGACCTCTTCTCAAGTGTTCTAAGCCAAGGGAGCTCAAGTAGTAAGGGCCAATAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACATATATGATATATATATTCGATATATGTATCAAATAATAGATATGTGTAAAAATAACATGTATAATATATAATTTTATATATATATAATTAAAAGAATATAAGTGTATGTGATAGCTAGTTTGTTGTTTCAATAGAAATACATTAGTTGCTATAATCCATGGAAGAGGTCTAGCTCAATGGTTTTATGATTTTAGTTAAATTTAACTACACTAATTATATTTGGGGGATTATGTAATTTAGTCCTATCTCTCCAACCTACTAATAAATCACGTAGTTTCATGAGCATACTTTTATTCCAGTGGTATTTGAAGGATAAAATGTCATTTTGACCATAAAAATGTTAACTGGTGATGACACACAGTTCCTCATAGCTCTACCCATTTGGAGTTGGTTATCATGGCTGAACTGCCCTTGGAGTTTTGCTTCTTTCAGGGATCGAATCTTTTCACCACACTTGCGTGTGTGCATGAATTTTGCATCGATGCTTTTTGACATCTGTCCTATCATTACACAAATGAAAAGAATGTAGATTTTTGTCTCTCCCTAGAGACAGGTTTCTCAGGTCTCCATGACCCAGTCACCATATTTTTATGCAACAGCTGTCTTCAAAGTAGTGCATATGAACTTGCGTATATGTTCATATGTACTAGTGTATATGGCTTACAGTGGCCATCAGGATTACTGTATGTTTTGAGGAGTCCATCTCCGCTATCAAAGAACATAAATTGGGGGAGGTGGGCACTTCTGGGACCCTTTTCCACTGTGTTTTGATAATCCAGGAAAATCATATTTTTTATTTTTCTGTTTCTAACCCAGTCATTTTTTTTTAATCTCTGAACTAATTCTCTACCAATTTCTGGTAACCAGGTATTCATTCCAAACAGCATGTTCTCACCTCTTAAGTTAATTGATTGCAAGTGGTAACAACAATGACCTGAATTACTGACTAGATTATCCAGGTTATCTAGTTGATAGGGATAATAAATATTTCTTTAAATTAGTGTTTTTCAAAATCCATTGTGTATCAGGTAGAATTATTCGTCTTCAGAAGTGTTATAGAGTAAATAGGCTATCTGAAGACATTCTCCTCATATACAGATTTATGTAGAATTTTACTTTATTTCATTCTTTATAAGAGTTAATCACCTAAGACAAAGCAAAGTTCCGATGTAGAAGTTCTAGCACCTTTTAAGTACAGCTGCTTCTTCATCTTCAGCTAGTCAGTACCACAGAACCTCAATTCAAGATAGCAAATGGTCCTGATAGAGTCTTCAATCTCCCTCTCGATTTCCCAAACCAGGTCTCCATCCTGTACACTGCCCTCAGCATTCTTACTTTTCAAGCTCCTGCAGAACATCCCATTACAACTCTTAACATCCAATGGCTCTTCTAATCCAAAATTCCAAAGTCCTTCTACGATCTACCCCACAGCATGGTCAGGTCCGTCACGGCCATTGTCCACTCTGTTGGCACTAACTGGCCTTGGTTAGGGTTTCTATTGCTGCAACAAAACACCATGACCAAAGAGCGAATTGCTGAGGGAATTGGTTATTCGGCTTTCACTTCCACATTCCCATTCATTACCTAAGCAAATCAGGAAAGGAACTCAAACAGGGCTGGAACCCAGAGACTGAAGCCAATGCAGAGGCCATGGAAGGGTACTGCTTACTGGCTTGTTCCTCATGGCTTGCTCAACCTGTTTTTTTTTTTTTTTAGAACTCAGGACAATCAGCCCAGGGATGACCCCATCCAAAATGGGCTGGGCTCTCTCTTCCATTGACCACTAATTTTTTTGTTTAAATGCCTTATGGCTAAATCTTGTGGAACTTTCTCTATGCCAATTCATTCCCTCTTTTCAGATAACTCTAGCTTGTATCAAGTTTACACACAAAACCAGCCAGTACAACCCCAATACAGATAAAGCTAGAGTATCCTTTTCTGAAAAATATTGGCTTTCTGTAACATCATCATATCCCTTTAAGCAGTTTCATACTTGTTAGGAACAGAGAGCAAAATTGAATGTAGAAGAATGGTTTTTTGTGCCTCGAGGATGTGCTGTGATTCATTGTAAAATGCACATGTGAGAAGAAAACAAGTTGTAAGGCCAAGCCATAGTTGAAATGTTTTTGAAAGGGTAAAGGGCATGCGAAAGTGATAATGCCCACATTCCCCTTTGATTAGTGCTTACCGAAATGCCAAGCATGCTAAGATGACACTTTATTCATAGCAGAGTTGGTATTCCAATATATGGATGGACGTTTCATCTTGAAAAGCCTTATACAAATTGGGTAATTGAATTTGAATTTGATTTTGTACCTGTTGGAGTATTAGCTAGAGCAAGATGGGTATGGTCAAAAGCCTCTTCAAATGGGGAAAAACAAAACAAGACAAAACAAACAAACAAACAAACAAAAAACAACCCCAAACAACTCTAGGTCAAATACCACCCAGGAATTTCACAACAAACAAAGAATTTTGTGTGTTAGCCTACCTTTGGAAGCTATACGAAGAACTTTCAGAAGTGCTTTCTTGCCACAGTGACTTGGGATCTAAAATTCTAGCCCCGCTGTGGTGTGAGGGATCATACCATTTATTGAGTTGTGCAGTACAGGTCTACTGCTTGATAATTTAAATCTATGAGATTTCTCATGGGCTGTCACCTTCTAATCAAGATAGATTGCAGAGCATTTGGCTAGGTATCTCCTCTTCTGTCAGAGACATTCTTCAACTCAAGTTCATGACTGGAGACGGCCTCAAATACACTTACAGACCAACCCTTCAGGAAACAAATGCTAATTTTATCCCACAGTCTCCAGTTCTCATTACGCAACAAGGCTTTCAAGAAGCCAGTTGAAATTTAGACTTTCCATGAGTACAGATTCATGATCCTGGGAAGAGCAGATCAAATCTGTAGACAACAGTTGGTGAGCAGAGCCGAGCCTGGGTTAAGTTGAAATTTCGGAGGCACACATGTGCCAGGCTTGCAAAAATAGTGTGGAAACTTGCAAGAGAGATTTCTATTCTCAGTTAGAATTATTTCTGCAAATGTAGAGGAGTGTTTCCATACGTATAATATAGATGATGTCATGTTAACAGATTATGCATAAAGCATCGTTATTCTAATAGGTTGGTATGCATTCAGTGATGTTCCTTGTTGGGAAGCTATATTATGCCCAAAAGTGGGAGATCCAGGTCTGTATCTCTTTGAGCTTATGTAAATCTGTTGGAACATTTGTATATTCCATCAGTAAATCTGTAATTCCATATAGAATAAAACTTTGCTTACAGCAATAATTCCATTACACAATTGTCTCAACTGTTCGCTGTATAAACTTCTCAGGGTTCATAGAAGTCAGGGTGAATAATTGGAAAAGACCCTCTTACAATTGAAGACAGGCAATGACTAGCTTTTGGTTTGATAAGAGTATTTAAAATCAGTGCGGTTTGCTTCTTCTTCAAATAG
Seq C2 exon
GTACAAATCCAATGAAGATTATGTGTATGTCAGAGGACGTGGACGGGGAAAGTACATTTGTGAAGAGTGTGGAATTCGCTGTAAGAAGCCAAGCATGCTGAAAAAACATATACGCACTCATACTGATGTTCGGCCTTATGTATGCAAGTTATGTAATTTTGCCTTCAAGACGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011015:ENSRNOT00000015131:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=43.3)
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]