RnoINT0070922 @ rn6
Intron Retention
Gene
ENSRNOG00000011015 | Hivep2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:RGD Symbol;Acc:61988]
Coordinates
chr1:8325481-8333885:+
Coord C1 exon
chr1:8325481-8326376
Coord A exon
chr1:8326377-8331414
Coord C2 exon
chr1:8331415-8333885
Length
5038 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TGCTCTGTTTTCCTGTGTAGAAT
3' ss Score
10.8
Exon sequences
Seq C1 exon
AAAATATGGAAGATTTGCACAAAACATCTGAGAAGCACAGCATGTCCGGCATTTCAACTGACCACCAGTTCTCAGATGCTGAGGAATCTGACGGAGAGGATGGAGACGATAATGATGAAGATGATGAAGACGATGATGACTTTGATGACCAAGGAGATTTGACACCCAAAACAAGGTCAAGAAGCACCAGTCCTCAGCCTCCTCGGTTCTCCTCCTTGCCTGTCAATGTTGGCGCTGTAGCCCACGGCGTCCCCTCAGATAGCTCTCTGGGACATTCGTCATTGATCAGCTATTTGGTTACTCTACCCAGTATTCAGGTCACTCAGCTCATGACACCCAGTGACTCTTGTGAAGACACCCAGATGACAGAATATCAGAGGCTGTTCCAGAGCAAAAGCACAGACTCCGAACCCGACAAAGACAGGTTAGACATCCCAAGCTCCATGGACGAAGAGGCCATGTTGTCTTCAGAGCCGAGCTCCTCCCCAAGGGACTTCTCCCCCTCAAGCTACCGGTCCTCACCAGGATATGATTCTTCACCCTGTCGAGATAATTCGCCAAAGAGGTATCTGATACCCAAAGGAGATTTGTCACCCAGAAGACATTTATCACCTAGAAGAGATCTATCACCTATGAGGCATCTGTCACCAAGAAAAGAAGCTGCATTGAGGAGAGAGATGTCCCAAGGGGATGCTTCACCAAGGAGGCATTTGTCCCCACGGAGACCATTGTCTCCTGGAAAAGACATTACAACAAGAAGGGACCTCTCTCCCAGAAGAGAGAGAAGATATATGACTACCATTAGAGCACCATCTCCCAGAAGGGCTTTATACCATAACCCACCATTACCAATGGGGCAGTATCTGCAAACAGAGCCAATTGTATTGGGGCCTCCT
Seq A exon
GTAAGTATAACCTGAGCCCTCTTCACCAATGCTGCAGAACGTGGGTACCTCCTATAGCATAGTTATGAGGCATTTATTATAATGTGGGTGTCTCTCTAGAGGAGGCATGAACCTATTAATTCAAATAGCAGGGAGACGTTTTTATCACACACCGTGTTAGTGACATGGCTGTGGCATTATTCCAAGTATAAAATTGTATCAAAGCAGGAGTGAACTTCCAGCTAGGAACAGGTGAAGCCTGCCAAATGTTTTGTAAGCTTAACTAATTATAGACATGAGCCAAAACCCTTAGGTGTGAAGCCCCAGGTATGGCATGCTTACGTAGACAAACATGAAGACGGGTAAATTGTTAGTGACATGTACGCTTGAGCAGGTGAGGACTCTGATCCAGGCTTTGTCCTTGACTTCCACAATCATTTTTATAATATACTCATTACATTGTCCAATGTGTGTACATGTGCAAATGGTCAGGACCTGAGAAATGGCGGTGTGACACTCAAGTAGCTCGTAAGGTAAAGGCATAAGGTTTCTGCATTTTTTTCCCTGTTATTGTTGCTGTTAGCACCTGGTATAGATGTTGAGGGAGAATGCAGGCCAGAGCATGAGCCGTCAGAAAGCAGGGGAGAATATTCTGAGGTTTCCACCTTCTGCTTTTATTATAAAGGAAGGTGACAGCAGTTGTGGCCATGGGCCACACTGAAGCCACAGGTTTAGTGAAAGCCACCAAAAGTACCTCATTGCACATTAGCCCAGTGGATCTCTTTCCATTGGGGTAGGATTGTCAAAAGGCAGGCAGAGAGCACAGGGCCATGATGCCTTCTGAGTTTCTTTGCTTTAAAAGTGGTTTTCGTTTCCAGATCTTTCTCCCTGCCTGCACCCTCTTTATTTTCCATCTGGTGAAGCATGGTCTTTCTGGGGCACTGCTAACTCCTAGCCCTGTCTGCCCCAGCCCTGGTAGCCAGTCCCCTCCCTCTCACTGCCTACTGCTATCTTGATTTATGACCTCACAAGACCTTTCTCAAACGTCAGGCAAGCTCCCAGCATTCCTTGCTGTATCCTCATCCTCCTCCTTTTCTTTTTCTTTTTCTTCCATAAACCATATATAAAGTTTATTTTGATGTTGCAATCCTGCAGAGACATGCCCTGATGTCCAGACATGACTGATTTCAAGCTAATAAATTAGCAAGCTAGGAAAAAGCACCACATCTCTGCAAACTTCTGTATCTTGTGCTGCCCGAGTCCCTATACAGCAAATAAGAAAGCTGGGAATCCCTCTGGTGTGTCCTTAAATGATTCCTCTAATAGAGACACTATATAATGAATAGAAACCTGGAAATCCCTCTGGGATTTCCTCATAGAGACACGGTGATGCTGGCCCGATGCGCTAAACTAGTCCTGTAAGCCTTTGAGTCAGCCTTTGTCCAAGTAGACTGGCCTGTATGAGTCAATGGAACTTATTCAGGTAACCATGTCATGAAAACAGAGCCATTGATTTAATATGCTGTCAAACTCAGGCAAAAGAATTAACTAACTAATCAATTAATTAATTAAAGAAGTTAAACGGAATAAAAGAATTCACTTATTTTGGATCTCTGATTCACTACGAAGTTAATCAAGAAATTTAGTGCCAAACGGAAAAAAATTAGTTTCACCACTTACTGAATTTTTCCTAATTGTGTGGTTTTTATTTTATTTTATTTTGTCCTTTTAAAAAGTCTCTAGACACCTCACAGAATTCATCCATCATCCCCAACAAATCCTTTGGCTTGCTACCCGGTCCAGTTATCTTTAAACAAAAAAAAAAAAAAAAAAAAAAAATGCCACCTTCTGTCTGTTCTCTGCCTACAACAGAGTCAGGACCCAAGCGGGAGCTCTGTCCTGAATTGTCATCTTATATTGACTGATCGTCTTTGAAAGGGCAGGGAGAACTGCATCTTGAATGAGACCTTCCTGGTCAGAGAAAAATAGACCTGAGTTGCTGACAGGTGTCCCTCCTGACTGCTCTGTCCGATGAAGACTTCCCTCTCTCTAATAATGTACCAAAGGGATATGACCAACCATAGCCCCTTTTCACAGAAATCCTTTTGTCATTTTGCAAACCTTGATAGAAGCATCCAAGGGCAATGACTGTGGTGAGAAGGGACCCTGGTACCCAGGATGACATAATAAACCAAGATACAATTGGTTTAGTCTCAACTTAGAGCCAGATTTAGAGACGTCTCAACTTAGAGACGATTTAGACGGAGAAACACACGCCACTAGGATTCCTCCCCTAACACCTTCTGGTTCCCTTTAAGATAGATAATAGAATTTAAAAGTGCATGCACTTCATTCCATCCATCACCACTTTTGAGGACTGGAACATGGCTCGAAGGGGGAATAATATTACAGTTACAACCCTATTTTCTTATGCATATCCGTTTCGGTGTGTAGATGAAGAAGGTCTCCAGTAAAGCACTCAGTGCTCAATGCTCTCCCTTGTCCATGCGATCTTGGGTAGGTTGTCTTGCATCGTGGACACTTGGGTAAGGAAGCCTCAGGCAGACATAGACCTTGCATAGGTATTGTCTGTCCCTAAAGGCAGGTGTGGCACAGCTGTAAGCCGTGCGGGAGCTGTCAGCACATTGAGGGAAGCTTCTCCAGTTCTCACGTAAGGACTTCTGCTCAGGTGCCTGTGGCTGGTGTCTCAGCTACATCAACTACTTCTCTCTCTTTCCCTGTCAGCTACTTCCCTGCTCCCAGCTGCCTCGATGAAGCCAGGCTCTCCTACCTTCTTCCCCAGCTCCCAGAAGCCCTATCACACCGTTGACAAGATGATTAGCATAATAGTTCTAGTGCCTGGAATACATGCATGTACAAAACTGTGTATCATATGTGCATGCAAACATTGTGTGTACATAAGCCTCACACAATTCAACAGTGAAATTTGTATTCTTTTTTTTTCTGATTAGAATGTGGGCACTGTATTATGATAAAGCTCAAGTCACTAAGCAATAGGAGAGCGTGTAGTAGAGACCAAAGCAGAGCAATACAAAGGTTTGCAGGAGTTTATTTGCAGGCTGGAAGACTTTGGTAGACAGGAGGAATGTGTGTGGAAATGTCTGGCACCTCGGTTAGCTATGCGTGTGACTAATCATAGAAATTCTACTTCTGCATTTGCTTTCGTAGGGGGCAACTTCATTTCTGATCAGTGATGATCTGAATGGGAAATGTTTATTGAGAGCACAAGATTTTGTCTTAGTAGCTTTAGGACACATGGAGCGTGTCCTAGCTTTAGAGGCTAACTTGTCACTCCACTGTCAGCCCAGAGTTAAGACAAAAGTTGAGTAGCTTTGTGCAATGGCACATCTCTCCTAGTGTCTTCTGCTGACCCCTTCCCTGAGAAAACTTAGACTATCTGTACTCTGGTGAGGTACATGTAGAGTGGATCGAACACAGAGCAGACAAAAGTCAAATGGAAAAAATACCCAAGTCACGTTTTATTTAAACCTTAAATATGTGATAACCATGGTTTACAAAGAATTCATTTTCTTCCAGGATTGCTACCAAATGCATTAGGGTTCCTCTGCCTTAACTGTTGTTTGATGAAGACTTGATCTTCTCTAAAACAAGAGTTAATGGAGAGAGTCTGTCTATACGTAGCACTTAGAGGATTCTTCTTGAGTCCTGAAATGGTCGTCTATTCTAGCTTGTGAGGTCCCAGTGATTCCAGGGGCGCTGATTGGACCATTTCATCTGTGTGGTAGAGCAAATCATTTGTGTGCAGCCTGGATAAGATGTAGCTCGGACCACCACAAATTCCAAGCATGGTAGACAGTAGCAGACATATGCATAATTTACAGTTCCTGAGCCAGGCTCAAATCTAAACGGAACTGGCGGTAAGATTTGGCCCTTGAATCTGAGAGCCAAAGCATCCTTGAGATGAATTACAACCATTTTTAAGATCACTTTCCTAGATTATTATCTTAGACAAGTTTTAATCTACCTTGAATTCTCATATAAATAAATTATTAATGAATCCTAGCAATTAAAATTCTGACTGATTCACTAGAACCAGATAATCTGGCAATCTAAGCTATGTTCTACAAAAACAAGAATAGCAAAATAAAGTCATCATTTCAGGATGAAAACCATGAAATTCGGAATTATGGCTCCAAATTTTAAATACCTTTACTTCATTAATTTCCAAGAAGACATTCATGTTATAAGTAACACCAACAGAGAAATTGAGCGATAATCATCTTTGATTCCCAGCTATGAAATTGAATATGAATGATTAACTGTTGAACACACATGATATTAATGAGTCCTTGCTTCCTTTCAAGCATTGCCATTTCTATAAGATTTAGCCTGGAGCTGGGACTTGAAGAACTCTGCATTTTCTATAGGGTCTCTTCTTAGTCGGGATGTATTCCTATAGGCCAATACCTTGTATACCAAGACCTCTCCTGTGCAGGGGTATCTTCTACTAGATTAGTACTCGGCACAAAGGGACTTAAATAGGGATGTTTTCTTGTAGGCCAAGCTTTTCAAAGCAAAGGAATAGTTATGTAGTTTCTCAAAACCACCCCGCCTTCCTTTGTTTTGTAAAAGTCTATTGCCAACTTATTATTTCTGCCATGCCTCAGGAATTTCTTCAATGCAGCCTACTGCATCAATAGTTGATAATCCTATTTCCTTTGAGTTTAAGTCCCATCAATATTTACTAGTCATCCTTTGTTTTGTTTTGTTATTTTCTTTGTTTGTTAGTTGTTTTTCTGGTGAGTCAATTTTCTGTACTTGTTCTTATGAAGAAATAGCCATCATGTGACTTTATGCCTAGTGGGAAATACACTGGTTGCTTTAGCATTTTGCTTTTAAAAAACAAAAGCCACTGTCCAACGGGTGAACACCTTCATTAAAGAACTAGAAAAGGATAGCTAAGGAAGCTATTCAGTTTTGAGAAATTCTTTCTAGGTGCCAGGCATCCTGAGGGAGGGTGGAAAAAAGAGGGAGAGGGGGAGCAGATCTGAACTCTGTGCTCTGTTTTCCTGTGTAG
Seq C2 exon
AATCTAAGAAGAGGATTACCTCAGGTTCCTTACTTCAGTCTCTATGGAGACCAAGAAGGTGCTTATGAACATCACGGCTCCAGCCTTTTCCCTGAGGGTCCTACTGACTATGTCTTCAGTCATCTTCCCCTCCATTCTCAGCAGCAAGTGCGAGCTCCTATCCCCATGGTGCCAGTTGGTGGGATCCAAATGGTTCACTCCTTGCCGCCAGCCATTTCCGGTTTACATCCTCCACCCACATTGCCTCTGCCCACAGAGGGCTCTGAGGAGAAGAAAGGAGCACCCGGGGAGGCCCTCACCAAGGATCCCTACACCCTTTCCAGGCGGCATGAGAAACAAGCCCCTCACGTTTTGCAGTCATCTGGTCTACCTAGTTCTCCCTCCTCCCCACGGCTATTGATGAAACAGAGTACTTCAGAAGACAGCCTAAATTCCACAGAGAGAGAACAGGAGGAAAACATACAGACTTGTACAAAAGCCATCGCCTCACTCCGGATTGCAACAGAAGAGGCAGCTCTGCTTGGGGCTGATCAGCCCACATGGGTGCAGGAGTCCCCGCAGAAACCCTTGGAGAGTGCACACATCAGCATTAGACACTTTAGCGGGCCTGAGCCAGGTCAGCTCTGTACCTCAGCCGCCCACCCTGACTTACACGATGGTGAAAAGGACACTTTTGGTACATCACAGACTGCAGTAGCCCACCCCACGTTTTACAGCAAGGGCAGTGTGGATGAGAAGCAGGTGGACTTTCAGAGCAGCAAGGAATTATCTTTAAGCACAGAGGAAGGCAATGAGCCCTCATCGGAAAAGAATCGACTCCATTGATCTGCAATGCATGGACACATTCATTTCCACATTTCCCCCTCCCCCCTTTTGTTTTTGTTTTTCTAGGGATAGAAATAAACGAGTTGATAGCATGCCTGTCCTAAGTTACAGTAGTTGGCTATTATAAATACTTTTGTTATTTTGAAGACAATTAGGGAAATTAACAAGTCATCTTGAGCCTGACCAAAACAAAATTTGAAATTAACCTATTGGGTCTGGTAACTTTGAAAAAAATTGTACAGATGTTTGTGCCTTTTCTTTACTTTGCTTATATTCTTATAAGCATTTTTTTAGCGGTAATTTGTACATATTTTAGAATTTGTGTATCTGCTTTGTAATAAATGTAATCTCTTTCCTCTTTTGGACACTTGGATCTTAACGACGTAAAGCAAAGCAGCATCTATATATATTGTGAGGTTGCACTAAAACATATTTTTATATGATAAAACTGAACAGCTTTTATGTACAGCTCTCATTCTGTAATACTAATATTTATTTTGTTTCATAAACTGTACATTTTTTTCTTAATGTTGTGGATTGCTTTTCTATGTGAAGCATGGGTTCCCTGTTGCGTAACTAGAACAGAAATGTCCATTGTAAGCAAGATATTTAAACTAGAATATCTTATTCTGCACTTATGCATAAGTTACAAAAAAAAGATAAAGAACGTATCAGTCGGTTCTTAACCTGTAAATTCTTTTTGTCTCTTGTTTGCCGGATTGACAATAACTTAAGAGCTGATTGTGATTTTTAAATGGATAGTACCGTAAAGCATTAAAGTAAACAATGTGCTATTGTGAGTTTTTTTCAAAGCTTTATAAATCAGTTATAAATAATATTAAAAGTATTTGGTCTTATGTGAACATGTTGATCTATATACTCACCTTAAAAAATATGGGAAAAACATTCCGCCCCCATGTAAATATGTACAAGTGCATCACTGGTACAGTTTTGTGTTACTCGGTTGGACACGAGGTTGCCACAGACCTATGCTAGAGTGTCTTTAAAATTAAAGTGAGAAAGCACATGGACTGTGTAGAGCTTGGTTATCGGCCGGCCCGGTGGCTTGGTAGGCAGTGCTGTGCGCTGCCTGTGGAGAAGACCTGGGCTTAAAAATCTTGGTTCTTGCTGCACAGGATGGTGACTGGAACTAAGGCTGCACGGAGGGTTCGCACTTGGACTCGAGGGTTGGGTGTGGAAGTGGGGAAGAGGGATGGAGACCTGCTCCCCAGCTCTTCCCATCAGCCTGTCCATAATGGTTACAGGGTTACCATCAGCATTAGGAAATGTCACCTTACCCTTTGAATAGGGAAAGAGTGTCACTCCTGGCTGTCTCAGGGGGAATGAAGCAGAGAGGCCTTCAAAAGGAAGCAGCTCTGGGGAGAAGGAAGTTTTTTTGTATCTAACCTTCAGAACGGCTTTTGATCAGTGTTGAAGGTGGGAAGAGCCTTTGCAGGTCTAGAAGAGCAGAGCAGAGGGAGGGGTACAGCAACATGTGCACACGCATGCACATGTATGTGCATGCGCACACACAATCTGGGTTATCTTTGTGCTATATAGTGGATTATAATTCTGTGAAACCAAGTTTGTATATTGAATTACATTAAGGAGTGTTCTTTAAAAAGAGAAATAAATATACAATTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011015:ENSRNOT00000015131:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.977 A=NA C2=0.887
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]