DreINT0089794 @ danRer10
Intron Retention
Gene
ENSDARG00000068365 | lmx1bb
Description
LIM homeobox transcription factor 1, beta b [Source:ZFIN;Acc:ZDB-GENE-050114-2]
Coordinates
chr8:33269315-33271920:-
Coord C1 exon
chr8:33271745-33271920
Coord A exon
chr8:33269393-33271744
Coord C2 exon
chr8:33269315-33269392
Length
2352 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
ATTTTTGTTTTATGCTGTAGGTA
3' ss Score
9.72
Exon sequences
Seq C1 exon
AGAAAAGCGAAGATGAGGAGCTGGATATCAAGCCGGAGAAAGGCTCGGGAGGCACCGGGAAGGGAGATGATGGGAAAGACCCTAGAAGACCCAAGAGACCACGTACCATCCTCACCACACAGCAGAGACGAGCCTTCAAGGCGTCGTTCGAGGTGTCTTCCAAACCCTGCCGGAAG
Seq A exon
GTGCGTTCCTCCGGATATCAGCTTCCTCCATCTCTTGTTTTTATATGGATGTCAGATCATGAGTCAATAAGAATAAAAATGGTTTGAGCTATGTTTCAATCCACCCTTTTGTAAGCGAATTTGGGACATTGCATAAAAACATTCTTAATGGAAAAACACCAAGATTCGCATAACAACTTATCCAGGCATCTGAGTAGAATAAACTTCATACATTCATTCATTTTCCTTCGGCTTAGTCCCTTTATTCATCAGGGGTCGCCACAAGAAAAACGGTGTTATATTTCCAAAATGTTTTGTGGGATTTCAAGTTTTGCGCATGAATCTAATTTGCATCTTTGGATAGAAACTGTACTATTACTGTAGCTATTGTGAGGTATAAATGTATAATAAGTAACAATTGTGTGAAATAAAGTTTTGAAAGATGGAGCTAATTGAAATATGTAGAGATTAAACATACAAAAGAAGATATAAGCTGGAAAACTGTAATCATTGGCTTCCATAGCAGGAAGTCAAATACTATGAAAGTCAGTGGTTTCAGGTAAGAAGCTTTTTTCAGTTTTTTTTTTTTTTTTTTTTTAGTTTTCAAAAGAAGAAAAAGAAGTGTAAAGGTCTTTACACACCAAAATCCAAAATTTTTGCATGCAATTTTTTTTTTGTATTCATATGCAAAAAAAATGTCACGTAAATAAACCTTGCACACTGAGTCCAATGCATATTATTTAATCCATTATGAAAAAACGCATAACATTTCAGAGTCAGTTCAAGCAGATTCTGCTTTTCTCCAGAGTATAACAAGAAAGAAGAATAGGTTACATATTGTGTCCATATTCTTTTAATACTAGCCTACATAAAGTGGAAGGAGAGTTCTCCTCCTTATCAAAGAGCTGCACTATGATTATTCCGAAATGCAAAGTTTATTTCAGGAAATCAGTGGAATTTTGACATTACTTGTGATACTTCACACATTCATGTATGTAAACAAAACCTTATGGTGGCCGCGTTGACATTTCGAAGCAATGGACTGTCATGCTTTAATTATAATGTCTATGGGCAGTATGTCAAATGTATGGACACACAACAACAAGCATCTGTGGAGAGGTGCACCAGTCGCTGAATCCAGCATATACAGTAGGGGTTCTCAACTGCCCTCCACATTCTGTCTTTATTTTATGCACTGTGTTTTTCATCAGGTTATCTGTCGCTCAAATTATGGGATACTGTATTTAGCTTTTCGCTTGAACAATCTTAAAGCAGAAAAAATCTAACCCGGTTCAAATTTTTTTGTGACGAATGAAAGTTTTAGAGGCATTGTGTCAATACTTTTCACACAACGCAAGGTCTAATTTATTTTTTAACTTGCGAAAATTGCGAACAAAATTTCAGATTCAGTGTGCAATAACCTTGAAGGTTTGGAAACACTTGAGGGAGAGTAAATAGTGTGTAAAAAACATTTATTTTTAGGGGAACTATTTCTTTAAAAACAATCCACATTTCAACAAATAAAATCACAACTGTGGAATACAATAAGATATTATGTGTTAAGTTGCAATTATGTAAAATAAATTGTGAAATTTCAATTTGTGAGAAATTTTGAGAAGAAACTGCAGTTATACCGGTTTTGAGAAGGTGCAAATTCTCATTTCATTTTCATTTCATTTTCTTGTCGGCTTAGTCACTTTATTAATCCGGGGTCGCCACAGTGGACTGAACCGCCAACTTATCCAGCAAGTTTTTACACAGCGAATGCCCTTCCAGCCGCAGCCCATTTCTGGGAAACATCCACACACACATTCACACACACACTACGGACAATTTAGCCTGTACCGCATGTCTTTGGACCCACGCAAAGGCAGGGAAAACATGCAAACTCCACACAGAAACACCAACTGAGCCGAGGTTCGAACCAGTGACCCAGCAACCTTTTTGCTGTGAGGCGACAGCACTACCTACTGCGCCACTGCCTCGCTGGTTCAAATTCTCAATTTAGCTAAATCAAGAAAGTCATGTAAGACCATGTTTTTTAATGTAAAGGTGACAGTCACATTGTGAGCCTCAGAAATTTGCACAGTCAATAAATAGTCAAATAAACAAGATATAAAGTCACATATAGTAACTGTAACTGTCATATTGTGAGAAAAAGTACTGTAGCATTTGTGAGACTTGATGTCAGTTGTGAGGTTAAGTAGTACGTACTGAGATTAATTCGCAATTACAAGACATGAAATCACAACGATGACATTGTTTAAGATAAAGTTACAATAATGAGAAAATGTCAATGCTTTGTAAATGTATTTCCAAATATTACACAGCCTCTTCAGTGAACACATAAATGATTTTTGTTTTATGCTGTAG
Seq C2 exon
GTAAGAGAGACACTGGCTGCAGAGACAGGTCTGAGCGTACGCGTGGTTCAAGTGTGGTTCCAGAACCAAAGAGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068365:ENSDART00000076420:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.712 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=45.8)
A:
NA
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]