RnoINT0070918 @ rn6
Intron Retention
Gene
ENSRNOG00000011015 | Hivep2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:RGD Symbol;Acc:61988]
Coordinates
chr1:8311385-8317985:+
Coord C1 exon
chr1:8311385-8316932
Coord A exon
chr1:8316933-8317830
Coord C2 exon
chr1:8317831-8317985
Length
898 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TCTCTCTTCTGATCTTGCAGATG
3' ss Score
12.1
Exon sequences
Seq C1 exon
GTGATTGCACTTCAGTGAAACTGGCTGTTGAACATTGCTGGAGTTGATGGGCAGAATTTCTCCTGGACTATTCATCATCCCAGTCCCATCCTAGTTGAGAGAGATTTAAATGCCATAAGAATCCTTTGTAACGTTGCACTTTGCTTTTGAAGATGGACATTTCTAGGATGGAGAGAACTGTTATAGTTTGGTTCCAGGACATTGGCATCCAATGCCCACTGACTCCAGTGTGAGCCTGGAAGGTTCCAGAGAGAGAGGGAACAATCCACGAGTTTGCAGACGACCAGGAACGCAGAAGCAACCCAGCTTTACAAAGCACAGCATTGGAGACACCTCCATGAGTCTGCTTGGCTTCCGGGCAAAGTAGCACTTAAGACCTTGTGTTAAAATGGACACTGGGGACACAGCTCTAGGACAAAAAGCTACCTCAAGGTCTGGAGAAACTGACAGTGTGTCAGGTAGATGGAGGCAGGAACAATCAGCCGGTCTTAAGATGAGCACTTTCAGCAGTCAGGAAGGGCAGAGACAACCGCAAATAGATCCTGACCAGATCGGAAATGTAGCTTCAGCTCAGCTGTTCGGTTCTGGGAAGCTGGCCTCGCCTGGCGAGGGCGTACATCAAGTCACAGAGAAGCAATACCCACCACACCGTCCGAGTCCCTACCCATGCCAACATTCGCTCTCTTTCCCTCAGCACTCATTGCCCCAGGGCATGATGCACAGCAACAAGCCGCACCAGAGCCTCGAGGGCCCTCCCTGGCTCTTCTCTGGCCCTTTGCCATCTGTGGCCTCTGAGGACTTATTTCCTTTTCCAATGCACGGCCACAGTAGTGGTTACCCTAGAAAAAAGATCTCAAGTCTCAACCCCGCTTACAGCCAATACTCCCAGAAAAGTATCGAACAGGCAGAAGATGCTCACAAAAAAGAGCACAAACCCAAAAAGCCAGGCAAATACATCTGCCCGTACTGCAGCAGGGCATGTGCAAAACCAAGTGTCCTGAAGAAACACATCAGGTCCCATACCGGTGAGCGGCCGTATCCGTGTATACCTTGTGGTTTCTCTTTCAAGACAAAGAGCAATTTGTACAAGCACAGGAAGTCTCATGCCCACGCAATTAAGGCAGGCTTGGTACCCTTCACCGAATCATCTGTGTCTAAGCTGGACCTGGAGGCTGGCTTTATTGATGTAGAAGCAGAGATCCACTCGGATGGTGAACAGAGCACAGACACGGATGAGGAGAGCTCTTTATTTGCTGAGGCTTCTGACAAAGTGAGCCCCGGCCCTCCCATCCCTTTGGACATTGCTAGCAGAGGTGGCTACCCCGGATCCTTGGAAGAATCCTTGGGAGGTCCGATGAAGGTGCCAATTTTGATTATCCCCAAAAGTGGGATCCCGCTACCCAATGAGGGCTCTCAGTATCTGGGCCCTGACATGCTCCCAAACCCGTCTTTGAATGCTAAGGCCGATGACTCTCACACAGTGAAACAGAAACTTGCACTGAGACTGTCAGAGAAAAAAGGACAAGACTCTGAGCTATCCCTCAACCTTCTGAGCCCACACAGCAAGGGGAGCACAGACTCTGGCTACTTTTCTCGCTCGGAAAGTGCAGAGCAGCAGATAAGCCCACCCAACACAAACGCAAAGTCTTACGAAGAAATCATCTTTGGGAAGTACTGTCGACTGAGTCCCAGGAATACACTCAGTGTTACCCCCACGGGTCAGGAGCGCACCGCCATGGGGCGGAGGGGCCTCGTGGAACCATTACCTCATGTAAACACCAGGTTGGAGGTCAAGATGTTTGAAGATCCCATCACACAGCTGATTCCCAGCAAAGGAGAAATGGACCCCAGTCAAGTCAACATGTTGAAGACCACGAAGTTCAACAGTGAGTGTCGGCAGCCACAAGCCATGGTGGCATCTGTTAGGAATGAAGGAAAACCTTACCCAGGAAGTTTCCCAGGCAGCAATCCCGTTCTCTTAGAAGCTCCCGTGGACTCTTCACCCCTTATTAGAAGCAACTCAATGCCAACTTCTTCAGCAACTAACTTAAGCATCCCTCCTTCTTTGAGAGGAAGCCACTCGTTTGATGAAAGGATGACGGGCTCTGATGACGTGTTCTATCCCGGCACTGTAGGCATACCTCCCCAGCGCATGCTTAGACGACAGGCAGCCTTCGAGCTGCCATCGGTGCAAGAGGGTCACATGGAGTTTGAGCACCCTGCAAGGGTACCCAAGAGCCTTGCCGGCTCATCCCTGAAGGAAAAGAAATTAGTTCCCGGAGATAGGTCTGGCTATGACTATGATGCCTGCCGTAAACCGTATAAGAAGTGGGAAGACCCTGAAACACCAAAACAGAGCTACAGAGATATCTCTTGCTTGAGCACCTTCAAACATGGAGGGGAATATTTTATGGACCCCTCAGTGCCATTGCCGGGAGTGCCAACCATGTTCGGGACGACCTGCGAGAACAGAAAGCGCAGGAAGGAGAAAAGTGTAGGGGACGAGGAGGATACGCCTATGATCTGTGGTGGCATGGGGAGTGCTCCTGGGAGCATGATGTCCTCAGAGTATGACTCCAAGCTGCAGGACGGAGGAAGGAGTGGCTTCACCATGACTGGACATGAGAGTCTTCCTCATGGTCACTCCGATCGTTTAGACCTGGCCCGGCCCCAGCTGCCGTCTAGAAGTCCGTCTCTTGGGTCTGAGGATTTGCCCTCGGCTGGTGATCCTGACAAGATGACAGACCTGGGCAAGAAGCCTCCGGGAAATGTGATTTCGGTGATTCAGCACACAAACTCGCTGAGCCGGCCCAATTCCTTCGAAAGGTCTGAGTCAACAGAAATGGCAGTCAGTACACAGGACAAGACCCCCTCACCTTCTGAGATGGGCGACAGTGAGGTTTTGGAAGGCCCCGTAAGCCCAGAGTGGGCTCCTCCAGGGGATGGTGCAGAGAGTGGAAGCAGGCCAACCCCTTCACAGCAGGTACCTCAGCACTCCTACCATGGGCAACCAAGGCTTGTTCGCCAACACAACATCCAGGTCCCCGAAATCAGAGTCACAGAAGAACCTGATAAGCCCGAGAAGGAGAAGGAGGCTCCTACCAAGGAGCCCGAGAAGCCTGTGGAAGAATTCCAGTGGCCCCAGAGAAGCGAGACTCTTTCTCAACTCCCTGCTGAGAAGTTGCCTCCCAAAAAGAAACGCTTGAGGCTCGCAGATATGGAGCACTCCTCAGGGGAATCCAGTTTCGAGTCCACAGGCACCGGCCTCTCTCGGAGTCCCAGCCAAGAAAGCAACTTATCCCACAGTTCCAGTTTCTCCATGTCCTTTGACAGAGACGAAACGGTCAAGCTCACCGCACCTCCCAAGCAGGATGAGAGCGGGAAGCATTCCGAGTTTTTGACTGTCCCCGCGGGTTCATACTCATTGTCTGTCCCGGGTCACCACCACCAGAAAGAAATGCGGCGTTGCTCCTCTGAGCAGATGCCCTGTCCTCACCCGACGGAAGTCCCAGAAATACGGAGTAAATCATTTGATTATGGGAACCTGTCCCATGCTCCAGTGGCGGGAGCATCCCCATCAACATTATCGCCATCCCGGGAGAGGAAGAAATGCTTTCTGGTACGCCAGGCTTCCTTCAGTGGCTCCCCAGAAATTGCCCAAGGTGAAGCCGGCATGGACCCCAGCGTCAAGCAGGAGCAGCTGGAGCAGCTGCATGCTGGCCTCAGGGCTGCATGGACCACTGTGCTCCCACCCCTGCCAGGGGATGACCCAGGGAAGCAGGTGGTCGGTCCTTGTGGCCAGCTGAGCTCAGGGCCACCGCTCCACCTTGCCCAGCAACAGATCATGCACATGGACAGTCAGGAATCTCTGAGAAATCCGTTGATTCAGCCAACATCCTACATGACAGGCAAGCACTTACCCGAACAACCGCACCTGTTTCCACATCAAGACGCGGTCCCGTTTTCTCCTATCCAGAATGCCTTGTTTCAGTTTCAGTACCCGACTGTCTGTATGGTTCATTTGCCAGCTCAGCAGCCTCCCTGGTGGCAGGCGCATTTCCCCCATCCCTTCACTCCACACCCTCAGAACAGCTACAGCAAGCCTCCTTTCCAAGCTGACATTCATTCTAGCTATTCCTTAGAGCACGTAGCAGAACACACTGGAAAGAAATCTGCTGACTATCCGCATGCAAAAGAGCAGACTTACCCGTGCTATTCCGGAGCATCAGGGCTACACTCCAAGAACCTCCCTCCGAAGTTTCCATCAGACCCTGGCAGTAAATCCACTGAGGCTCCGCCCACTGAACAGCTTCTTCGAGAAGATTTTGCCTCAGAAAATGCTGGGCCTTTGCAGTCCCTACCGGGAACGGTGGTTCCTGTTCGCATCCAGACCCACGTTCCATCCTATGGAAGTGTCATGTACACAAGCATTTCTCAGATACTTGGACAGAATAGCCCCGCCATTGTCATATGCAAGGTCGATGAGAACATGACCCAAAGAACACTGGTAACCAACGCGGCCATGCAAGGGATAGGATTTAACATAGCCCAAGTGCTTGGGCAGCGCACAGGCTTGGAAAAATACCCTCTTTGGAAAGTACCTCAGACCCTACCCCTGGGCTTGGAATCCTCCATCCCCTTGTGTTTACCGTCCACCTCAGACAGCGCGGCCTCTCTCGGAGGAAGCAAGCGGATGCTGTCTCCAGCCAGCAGTTTGGAGCTCTTCATGGAAACCAAGCAACAGAAACGGGTGAAAGAGGAGAAGATGTACGGGCAGATTGTAGAAGAGCTCAGTGCTGTGGAGTTAACCAACTCGGACATCAAGAAGGGCCTCTCCCGCCCCCAGAAGCCCCAGCTCGTGAGGCAAGGGTGTGCCTCGGAGCCGAAGGACGGCAGCTCTCAGTCAAGGTCATCTTCCTTCTCCTCCCTGTCACCCTCCTCGTCTCAAGACCATCCGGCTGCCAGCGGGCCTTTCCCTCCCAACAGGGAGATACTTTCAGGTTCCAGGGCGCCGCCGCGACGGAAGTTCAGTGGGCCCTCAGAAAGCAGAGAGTCCTCCGATGAGCTGGACATCGATGAGACCTCGTCAGACATGAGCATGAGCCCCCAGAGCTCTTCGCTGCCCACAGGAGGCAGTCAGCAGGAAGACGAAGGGAAGGCCCGCAAGCTGCCAGTCAGCATGCTAGTCCACATGGCCTCTGGTCCGGGAGGAAATGTGGCAAATTCCACTCTTCTTTTCACAGACGTGGCAGATTTCCAGCAGATCCTTCAGTTCCCCAGTCTGCGGACAACAACTACTGTGAGTTGGTGCTTCTTAAATTATACAAAACCCAATTTTGTGCAACAGGCCACCTTCAAATCCTCCGTTTATGCTTCATGGTGCATTAGTTCCTGTAACCCAAACCCATCAGGATTGAACACCAAGACCACGCTGGCCCTCCTGAGATCCAAACAAAAAATTACCGCAGAAATTTACACTCTGGCTGCTATGCACAGGCCCGGAACTGGCAAGCTCACATCATCCAGTGCCTGGAAGCAGTTTGCACAG
Seq A exon
GTAACAACAGACTCCGGGTTTGAATGTATGGTGTGTTGTGGGTCAAATAACACGTAGACTGAAGGGTAGAAGGTTAAAATGTACTAGGAATGTATTAGTAACGAGGAATGTTTAGTATCCAGATGGGAGACGCCATAGCCTGCCCTTAGTCTGAGGGTTCCCAGAAAAGCTTCAAAGGATGGGAGTGCTCATGTTAGCCCAGATAAGGGAAATTCTCCTGCTAGGAAAAATATCCATTGGTCAGTTTCCCTTCTGCCTCATGAGTGATAGTGCAGACATGAGGAATTCTGGGACTTTAAGAAATGAGGAAATAAAACATGGAATGGATGCTGAAAAAAAGATTTCGGAGGAAGTGTGGAGGATGTTAGTTCTCGGAAGGCAAATGTCATCACTGATATCAAGTGTATTTTTGACTAAAATTTATATTCTATGTATCTCTTTCAAAAATGGCTTTCCCCAGTTACTGTCTTTTTCTGACTTTTTTTCCCTAAACAGTAGAGTAAACAAAATTAATAGTGAAAAAAGTAGAGATTTGAAAAATATATTTTGGACGCTATGCCAGGGTTATTTTCCCTTCGTTGATTTTTGAAACTACTTCCTTAACATGATTGTTTGACTTGCCCCTTCAAATTATAGAGCATGCATTGGGAATCTCTGTGAACACTGTGCAGAGAAAATGTGAGCTACTCAGGGTTTGTGCACTTAAACATTGACCGTATGGAAACTGACATTTTTCCCTCTGATTTTATCCCCGGTGGTCTCTGTTTCCTGCAGCCAAATCCATAGCCTTTTATCGTAGAGTTTAAGCTAACTTGCAGGGATGAGTAATGGGCAGGACACAAGGGCCAGACTATCCTGGAGAAAGCATGTGAAATGATTCTCTCTTCTGATCTTGCAG
Seq C2 exon
ATGAAACCTGATGCACCCTTCTTGTTTGGCAACAAACTAGAAAGGAAATTAGGGGGAAATGTCTTAAAGGAAAGAGGGAAAGGAGAGATTCACGGAGATAAAGATCTTGGATCCAAACAAACCGAGCCAATCCGAATTAAGATCTTTGAAGGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011015:ENSRNOT00000015131:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.697 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=1.5)
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:
TGCAACAGGCCACCTTCAAAT
R:
TCGGATTGGCTCGGTTTGTTT
Band lengths:
344-1242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]