RnoINT0070916 @ rn6
Intron Retention
Gene
ENSRNOG00000014460 | Hivep1
Description
human immunodeficiency virus type I enhancer binding protein 1 [Source:RGD Symbol;Acc:727847]
Coordinates
chr17:22278798-22282016:-
Coord C1 exon
chr17:22281511-22282016
Coord A exon
chr17:22279926-22281510
Coord C2 exon
chr17:22278798-22279925
Length
1585 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
CACTGTCTCTTGTCTTTTAGGAT
3' ss Score
12.29
Exon sequences
Seq C1 exon
ACGAAAAGCAAAGATTCGGTTGCGAGCGGTCTGGCTTTGATCTTGAAGAATCTGATGGCCCAGATGAGGATGATAATGACAACGAAGAGGATGATGACGATAGCCAGGCAGAGTCCGGCCTCTCAGCAGCACCGTCAGTCACAGCGAGCCCACAGCATCTCCCATCCAGAAGCGGCCTTCAGGATCCTGGGAGTGTAGAGGAGGACCTTAGAGTTTCCAGCTGCTTCTCAGGGGTACACACTGACCCAATGGACATTCTGCCTAGAGCATTACTCACCAAGATGACTGTTCTGAGCACGGTGCAGATTGACCCTAACAGGACAGACTTAACAGCAAAGGCCAGGCAGAATACTGGGAAAGATGAGCTTGAACTGGCTCCTCCTGTAGACACTCCCATCTCCCCAGAAGTTACCCCCAGGTCTCCCGGCCATCAGATGTCTGTGCATTACTCTGAATCTGATGCTCTGAGAAGCCCTGCAGCTGGAAACACTGTTGCTTCAATACAG
Seq A exon
GTAGATGAGTGTGTGGGAGTAGGGGTGGGGAATTCTCTGTTTTTTGTTTTCTCTTCTTATTCTATAAGGAAAACCTAATAGATTAAAGAAAATCATTTATGACCATATGAGTGTGTACCTTTTTGTTGTTAATTGATGACAGAATTCATTTATGTCTGTTAAAGCCTTGTAAATTATCTTGACAAAACTCCACATAGTATATTATAACCTGTGGTGCTGCTTTAAAAAATATACTTCTTTATTAATTGTGGAGTTTTTTTAAATCACAATATAACATGTATTTACCAGTTTTAAACCCACATCCTGAGACGTAAGGACCCAGTGGTTGACTCTTGTGTTTCCACTAATGTGGATATGATGAGCTCATAGCACATTTTCCAGATTTTGTGCTTTGCTAGTAGGAGTCATAACAAATTTAGTGGGACACAAAAATGATTCAAGATTTCATGTTGTTTGCATGAGCAAACTGATAGAATATCTTAGGAAAGTTTCCTTCCGGGGGAGCTCAGTGCCAGACACCCAGCTCCGGAGAAGTTTGAGAAGTTTACTGTATGCTTTTCCATGGCTGGCTCCTAACCAACAAATAATTTTGTCTCTCTCTCTCTCTGACAATTCTTTCCCTTCCCCTGTGTGTTGAACAAGGCGGTAGGGCTTATTTCCTAATGGGAAAAGATGTTTCCCACTGGAGAAAAATAAAAGTTTAGAATTTTTTTTTCTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTAAGCTAAATCTCCAACCCCCAAAGGTTTAGAATTTTACATACTAAATCTAAACTTAATTTTTCTGTTAAGTATAGAAATTAAATTATAATGTGAACTAATACAGCTCCCTAACATATATAGAAATGTATGTATATGCAAGGAAAAAGCCAGTATGTAGATAAAAGTCATGGATGAAAGGGAGGACAGGTAAGATTCATCCTCCCCAGCATTTTAAAAATCGTGTTCACCTGTGTCCTAAGCTGCCGAATGCATCTTAGATATGGAAGCCACATAACTACCAATGCCTGAAAATGTAGCCGTCAGTAGACAGCTTACGAATGAGTTAGCAATTAATGGACAACTGCAGACCTTTGTCTTAGTAACAGCTCTTCATTTCAGAAGTGAATAATATCTTGGTTAATTTTTTCCCAGTTGAGTTGGCACAGCTAATTAATATGGTATTTCTCAACGTCTCCTTGTCTCTAAAAGAAAGAGGTGAAGCTGGTGCCCAAAAAATATCATCAACATAAAAATAGTCATGTTCATCTATCAGTATAAAGTAATGCCTAGAAAACTGGTTTGCGGATTGCAAAACACTATATCATTTTTTTCCTAGTATTGGTAATAGGAAAGAAATTTAAAATGAAGCTATTTTTGTTATTGAAAATTTCTTTTTAAAAAAATCAAAGCAATTTTTTTAGCAAGCCAACAACTGTCAAATACAAATATACCTGGGAGCACACTGAGAACAGATTGAACACGAGTACCTTATGGTTATGGAGGAGCCTCTGCTGTTAGGCTCACTGTCTCTTGTCTTTTAG
Seq C2 exon
GATTCACCATCTGTGGGACTGCCTCCTGCTACTATAGCCCAGCTCAACCCTCAGCCAGCAGCCAGGATTTCTTCCTCAGTCTCACCTCACCCTGAGAGTCAAGAACCGAAGCAGCAAATAACCTTGCAACCGTCTCCAGGCTTGCCTTCCCCTCAGACACATTTGTTCAGCCATCTCCCCTTGCATTCCCAGCAGCAATCAAGGACCCCATACAACATGGTTCCCGTAGGGGGTATCCATGTGGTGCCGGCCGGTCTCACCTACTCCACTTTTGTACCCATTCAGGCCGGGCCAATGCAACTGACCATCCCTGCTGTGAGCGTTATTCACAGAACCGTGGGCACCCCTGTGGATACCATCACTGAAGTTTCTGGCGCTACTAATCGCCCTACCGGAGTGGCTGAATTGAGCAGTGTTGTGCCATGTATTCCCATCGGCCAAATCCACGTGCCAGGCCTGCAGAACCTAAGTCCCCCAGCCTTGCAGTCGCTCTCGTCCCTGGGAATGGAAACAGTCAATATCGTGGGCCTGGCCAACGCTACCGTGGGTCCGCAGGTGCACCCCCCAGGCCTGGCCCTCAACGCAGTAGGGCTCCAGGTTCTGGCCAACGCTCCTGCACAGAGCAGTCCCGCCACACAGACACACATTCCAGGTCTCCAAATCCTCAACATCGCCTTGCCCACCCTGATCCCCTCTGTTGGCCCCGTGGCTGTGGGCACCGCGGGGACTCCAGAAACTGCCACTTCCAACAGCAAAACAGTGGAGCCGCAGACGCCCGCAGGCCAGGGACACAGTGCCGAGCCTCCACAGAGGTTGCCCGAAGGCCCTCAGGAAACCCCACAAACAGTGCCCGGTCCCTCAGTTGACCATGCAAGGCCTGACGGCTCAAGCAAAATGGACACCAAGAAGGTGGCTTCTGCGAGTCACGTGTTGCCTGGGCGTTCCTCTGCGCAGGCGCAGCCGGCACCCATACCGGAAGCTTTACAGAAGATTGTAGCTTCAGGCCCAACATCACTTCCCACAGACAGACCGGCTCCCAGGCCCCCAGTGCCCCACAGGCAGCCCATTGTGCACTTCAGCGACGTGAGCAGCGATGATGATGAGGACAGACTTGTCATAGCAACCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014460:ENSRNOT00000019389:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.959 A=NA C2=0.661
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAAGTTACCCCCAGGTCT
R:
ACCACATGGATACCCCCTACG
Band lengths:
350-1935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]