RnoINT0085196 @ rn6
Intron Retention
Gene
ENSRNOG00000028348 | Lhx8
Description
LIM homeobox 8 [Source:RGD Symbol;Acc:1308749]
Coordinates
chr2:260574190-260580290:-
Coord C1 exon
chr2:260580107-260580290
Coord A exon
chr2:260574911-260580106
Coord C2 exon
chr2:260574190-260574910
Length
5196 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
GTCTCTTTTCTGTCTTGTAGCTC
3' ss Score
10.8
Exon sequences
Seq C1 exon
GTGTGGTTTCAGAACTGCAGGGCTCGTCATAAGAAACATGTCAGTCCCAACCACTCCTCCTCTGCCCCGGTCACAGCAGTCCCCTCATCCAGGCTGTCTCCACCCATGTTGGAAGAAATGGCTTATTCCGCCTACGTGCCCCAGGACGGGACGATGCTGACGGCGCTGCATTCATACATGGACG
Seq A exon
GTAGGTAGCGCAGCAGGTGACCTCTAACCTGATTATCGGCCTCGTTCACATTTTGGAAAGACTGCCTTGGTCAGTGGCTGAAAAGCATTATAAGGAGGCACAGCAGACAGTAAACGCATCCAACTATTGGTTTAACAGCCTACTGCAAAGCTCCGTGTGTAAGCAACGAGTCAGTTCTTTGGTGTTTTGTTTTGTTTGTTTTGGTTTGGTTTCTGCCTATCTTTGCCTCTGCAGCACTGGCACTGGAACTATGTACCACCATGCCTAGGTCGCTTGTTGTTGTTTGTTTGCGGTTTTTATTTTTATTTGTTTTAATTTTATTTTCTACCTATTCATTTTACATCCCCCTTTCACTGCCCCCTCCTGGTCACCCCCTCACACAGTTCTTCCCCATCCCTCTCTCCCCTTCTCCTCTAAGTGGGTGTGGCCTCCTGGGTATGCCCTTCATCCTCTCCCACTGAGGCAGACAAGGCAGCCCAGCTAGAAGAACATATCCCACGTACAGGCGACAGCTTTGGGGACAGCCCCTGCCACAGTTGTTCAGGACCCACATGAAGACCAAGCTGCACATCTGCTACATATGTGTGGGGAGGCCTAGGTAGGTCCAGCCTGTGTATGTTCTTTGGTTGGTGGTTCAGTCTCTGAGAGCCCCCAAAGGTCCAGGCTAGTTGATTCTGTTGGTCTTCCTCTGGAGTTTCTATCCCCTTTGGGGCCTGCAATCAATCCTTCCTTTTATTCTTCTATAAGACTCTCCAAGCTCCATCCACTGTCTGGCTGTGGTTGTCTACATCTGTTTGAGTCAGCTTCTGGGTGCAGCCTCTCAGAGGACAGCCATGCTAGGCTCCTGTCTGCAAGCATAACAGACCATCATTAATAGTGTCAGGGATTGGTGCCTGTCCATGGAACGCACGGGTCTCAAGTTGGGCTGGTCATTTCCCTCCGTCTCTGCTTCATCCTCCATTCCTGCTTTTCTTGTAGACTTGAGTGGAAAGTTTTTCGGGTGGGTTGGTGTCCCTATTACTCCACGGGGATCCTGCCTGGCCGCAGGAGGCAGCTCCCTTAGGCTACATATCCCCAATATTGTGAGTCACAGCTGAGGACACCCGCATTGATTCTTGGGTGCCTCCCCTATCCCAGGTCTCTGACTCTTCCTGGAGGTGCTCTCTACCTCCCCTCTCCTGTCAGTTGCAGATTTCCATTATCATAGCCATCCAACTATCACCCCTGCCCCTCTGCACACCTGACCCCAGACCTCTCACTCCCCTCCCATCCCCCTTCTCACCCAGTTCCCTCCGTCCATGTCCATATGTTTTTGTGACCATTCCATTCCCCCTTGACTCAAGCATCCATGGCCTCCTTGGGTCTGTGGATTGTAGCATGGATATCCTGTATTTTATGGCTAATATCCACTTATAAGTGAACAAACACCATGCATGTCGTTTTGGGACTGGGTTACTTCCCTCAGGAGGGCATTCTTGAGATCCATCCATTGTTTTTTGTTTTTTTTGTTTTTTTTTGGTTTTTTTTTTTTGTTTTTTTTTGCTGGCAACATTTTTAATTTCTTTCTTTTCATTTTTAAAAGGCTTCCTTTATTTTTATTTTATGTGTATGGGCGTTGCCTGCATGTATGTCTGCCTCGCATGCATAAAAGTAGCATCAAGAGCCAGAAGAGGGCATCTCTCCTGGNNNNNNNNNNNNNNNNNNNNNNNNNCTTACGTTCTTTCTTTCTAAACTTTTTAAACATTATTTTATATGTATGTGCAAGTGCGTAAGTGTGTGTGTGGTGTGTGTGTGTGTGTATGGGGGGGTGGTTCCGAGAACAGCTTGCAGGGACTGTCCATTCTCTCCTTTTACCCCTGGGGGATTCTGGTGATTGAAGAACTCAGACTGGCTTTGGCAGCTGATGCTTTTACCGGCTGAGCCATGTTGTGAACCACCACTGATGATCTTCCTTTCCTCTCCCTTCCCCTCTCCCTCCCCCCCTCTTTCTCTCTTCCTCTCCCCTCTTTCTCCTTGGAGGTGAGCCGTCGGTCTTGCTGATTTATTATACACAACTCTACTCGAGGGATCATTTCATGCCTATTCTATGGTTGATAGCTTTCTCTGTGTTCCCGTTTGGGTATTCTAGGAATACACTACTGGGGATTCTCTTGTGTACATCCTCTGGCACCTATTAAAACTTCTCTCTGGTCTATGCATGGGTTTTGAGTGAGGGCACAGTTGGAGCAGTTGCTCTGCTTCTTGACACTCTGCCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTTCATGAGGCTTTGCCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGGTTACACCAGCAGCTTCACACTGGGGGTCACACCAGCAGCTTCACACTGGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTTCATGAGGCTCTGCCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTATGACCAGCAGCTTCACACTGCGGTCACACCAGTTTTCCCTATGACCAGCAGCTTCACACTGGGGTCACACCAGCAACTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTATGACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTATGACCAGCAGCTTCACACTGCGGTCACACCAGTTTTCCCTATGACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTATGACCAGCAGCTTCACACTGCGGTCACACCAGTTTTCCCTATGACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCAGCTTCACACTGGGGTCACACCAGCTTTCCCTATGACCAGCAGCTTCACACTGCGGTCACACCAGCTCAGCTTTCCCTTTGACCCAGCAGCATGCGAGCCCTGAAGGTGCTCCTGTCCCCGCAAGCTCTGAGCATGTGATCCTTCTTCCTCTTGGCCAGTCTGGTGACCATGTAGTACCATCTCATGATGTTTAGCATCTTTTCCCCATGACAGACAACTTTCCCCAGCCCCTTGGACATCTGTTTAACTCTTGTGAAGATCCCTGCATATTTGGACCACTTGCCTGATGGTTTCTCTTTTCAAAACGGATTTTATCTCTTGATTGTGATCTACACATAAAGCCCTTTGATCACAGCACTGTTGAAAGCATCTTCCATTTAGAGGCTTTTCTAAGCTGTTTGACATCTTGCATTAAAAGAACCATTATTTAGCCAGTTGTGGTAGGATAGGCCTTAATCCCACCACTCGGGAAGGGACATAGACAGATAGATCTCCAAGTTTGAGGGGTAGCCTGATCTACATAGAGAATTCTGGGCCAGCTAAGATTACATAGTTAGACTCTGTCTCAAAAAAAATAATTTAGGCCAACGATGAAAATTTTTTACATTCTAGCTTTTTGACCTTTCATTTTTAGTATATTTTCGTCTGGCTCATCTGCTAGTTCACAAGTTCCCTGAATCTATAAGATCATCAGCTCATCTGTCAGCTTCTTGTTCAGTTGCTGTGTTCCTCAGCTTGAGGACTCTCAGCCATGCTGACACCCATCTCCTTGATGCCTCAGACCTCGTGTGAACAGTTGGATTACCCTCATTCGAGTGGAGGTTCACACATTTGATGGCTCCAATGTCTGGGCCTTTTCTGCCTCTTCTCTGTTGTTTCTCTTCTGTTTTTAGTCAAGCCAAATCTTATTACTTGCCAAAACAAAACAAACAAAAACCAAGACACAGAAAAGCACTTCATTTCAGAGGTTAGGTAAGAAGGAATAACCTGAGGCTGTGGATGGTCTTTCTCCAGAGATTGACTGTAGCTTCCTGTGGCACAAACCTGGGCTACAGGAAGTCACCTCAAACAGAGTCCTCGTAAAGCGATCCCAAATGAGGGCCTGTGTGCGTGTGTGTCTGATTTCTGTTTTCCACAGCCCTGCCAAAGTCCCAGCCTGAGAGACATTCCTCTCAAGTTACATTTGTTAGTATCTCTGTCCGGAATAAACCTCTTTCCCATCTCTCCTCTCTGGCACTGGACTTCAGAACTTCCCACTCCCTGGGTATCTTCCCAGCTCACAATCCAGCCACTATCTGGCTCTCCAAGTTGCTCTCAAAGGGAGGGAGTTTTGGTTTGAAGTAGCACGGCTGGGGCCGAAAGCAGGGTTTCGTTTTAAGTTTTTGTTAAAAGCCAACAGACTTGTAATACCATTGTGCCACGTGGTCGGTCATGCTGCTGTTGGAACCGTGCTTGTCGTTTGAGAGACTGAAGGGCTACTTGAGGCAAACGTGTTTAGATGCCAGCAGAGCTTGGGGTTTGTCACCTTTAACCCCAGGACCCTTGGACACTGAGGTTGAGAAGGACCATGAGTTGTAATTTGGGGAGAATGAAATACTCCTAAGGGGAACATGGGTGTATCCTACACCCTGATACCTGCACATAAAGACAGGAGGCGACATCCTCACATAGAGCTCACGTATCTTTCTCAACTGAAGGGTGAGGGACAGTGAATGGGATAGGGATGGGGTACACCACCATGCCCAAAGCTTGTGCCTCCTCTTGCTAAAGATGGAGAAGTTTAAGGATCCCCTGGATGCTCAGTACACTCTCTGTATGAATGGGTCAGCAGCCCTATTGAGGTGGGAGAGTGGCCGATGCTAGCGTCTGATGCCCACACCCTGAGGTAGTGACCTTGGCATGCTCTTGTGTGTTTAAGCCACTCTCAGTCACCATACGGAACTGACCACTGTGTCTCTTTTCTGTCTTGTAG
Seq C2 exon
CTCACCAACAACTCCTGGACTCCAGCCCTTGCTACCCCATACAATGACCCAACTGCCAATAAGTCATACTTAATTCCTTCTTTCAGGGATAGAAATGATTGAGGATATAAACCTGTCATTTATTATGTATAAAATACCATTGAAAAGATATTAATGTTAATTTTTTATTTAACACTCAAAGGCATTTCGAACATCCTTTCGCCGTCCACGTATGTACCTAGAGTTGGCCTGCAAGACACTTTTATTAATTCTTCATTTTGGTTTTTTTTTTTTTGGGTAAAACTTATGTTTACAAGAAGAAAACAAGTCAAAACAATTTTTTTTGTATTGTCTGGAAATAGTTGGCTCCAGTGTGTGTCTATTAACTTATTTGTCATCAAAAGAGCACTTTGCCTAAAAGGCAGGACTGATAGTGTGCAAAAACGTTTACAATCCTTTGTGAAACCGTAGTTTATCATTAGTTTGTACCTGTAAGTTATTGTTATAAATATTATCTGTATTTTTTGTCATATACAACTTTATACCTTGAAGCTTGTATCTGTGAATTTGCAACTGAAATTTATTTTGCCAGTGTTTTCTGGACGAGCTTGAGTGCACGTCCGTTGTAGCATGCCGCACACACCCACGGCGGTGTCTGCACTTGGGGAGTTCTAGCTGTAAATAACACTCTAGTTTACGAAGCCTACCATCCTAAGTTCATTAAACATTTCGCATCCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028348:ENSRNOT00000009370:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(19.3=17.7)
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]