RnoINT0085316 @ rn6
Intron Retention
Gene
ENSRNOG00000059801 | Lima1
Description
LIM domain and actin binding 1 [Source:RGD Symbol;Acc:1564050]
Coordinates
chr7:141443641-141445544:-
Coord C1 exon
chr7:141445487-141445544
Coord A exon
chr7:141443751-141445486
Coord C2 exon
chr7:141443641-141443750
Length
1736 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
GTCTTGTGTAACTTCACCAGGTA
3' ss Score
7.16
Exon sequences
Seq C1 exon
GTTTCTGCAACTGAGAATAGCCTGGTGGCCCACCCTGTCCCTGCAGAAGATGACACCT
Seq A exon
GTAAGTATTTGCTCTGAGCTCCGTGGTGGGGGTTCCCCTCCTCTTATTGTCTGTGGAGGAAGGAATATACCAAACCCAGCAACCAATCTCACCAGGGCCTGGGCGTTGAGGGCTGGTGCTGGATCCCCTTCACACATGTCATAGCTCGGGGAGAAGTTAAGTTAAACACCGTTAGCCAGCAGTGGCGGCACGCACCATTAACCCCCCCCCCCCACACACACACACACACACACACACACTCGGGAGGCAGAGGTGGACAGATCTCTGTGAGTTCAAGACCAACCTGATCTACAGAGTGAGTTCCCAGACAGCCAGGGAAACCTCATCTTGAAAAGGCCAAAAAGAAAAAAAAATTAAATGTGGTTAACATAGGATAAAGAGAATATTTCAGTTTTTGAGATTTTTCACCTACCGTGTGTGGGTGTTTGCCTGTAGTTGTCTCTAGTGTCTCTCAAGGCCAGAAGATGGCATCAGATCCCTAGGGACTGGAGGAGTCACCAGTGCTCTTAACCACTGGGCCATCGCTCTGGCCCTAACTGAAAGAATACGTCTAACAACATTCTCTCATCGAACTTATCCTATGTCCGTACTAAACTCTTCCAGGTCTGAAGCCACATAAACCAATCTTGACATTTTGCTCTGAATAGAGGACGTTCAGGAGAGAGTGATTAATTTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCCCAAGAGTGGTTAATTTTTGAAGAACATTTTGAAGGCCTAGGGATTGTCCTGCTCACGTGCTAAATTTTCATATAATTTTATCCTGTTCTGGAGTATTCTAAGCCTGTTTTCTCAAAGATAAAAGATTTGGTGTTGACTTGACTCTTACCATCTCTGATTTTGGACACAGTCTCACTATACACTGTGGGCCTGGAGTTCATCGTGTAGAGGAAGCTGATCCCTCCTGCCTCCGACTCCTGCATGGGGCGGTTACAGACGTGAGATGTGCGTCACACACTTACGATGCTGGACCACTTCTGACTCTAATATTCAGAGTCTCTCTCTGCAGCCCTGGCTGTCCTGGAACTCACTCTGTAGATGAGGCTGGCCTCGAACTCACAGAGATCCACCTGCCTCTGCCTCCCCAGTGCTGGGATTGAAGATGTGCACCACTGTGGCTAGCTTACCTTTTTTTTTTAATTCTTGATAAGAGAATGATACTGTCACATTAAGGTTTTCTTGATAATTATCTCAGTTCCGGGCCAGCCAGGGCTGCACAGGCTACACCCCCTGTGTCAAAAATGTTTCCAAGGAATGGCTGGCGACTCAACACCTATCCCACGCTTTCCCAGCTTCGGCCAAAGCACCCTGGAAGTTACTGGGATTACAAAGTACCAGGAACCTGTCAGAGTCTATACACGGCCTTCAGAAATGGCAAAGGCTCCAGAGCAGAATGATGCACGGTGTGGTCCAGGTCCCAGCCTCGTGCTGCAGGTTGAGAAAGTCTTAGTGACAGCCTGACTCCTGGGGGAGCCCAGGCACTTTCAGTTGAGAACCTTCTTCAACAGAAACGCAGGGTTTTTCCTGATGCTAAAAGGACCGACCAGTCCCTGGTGGAAAGTACCCATGTTTCGCTTTTTCAAAGATCCCTTCCTGAGGTTTGCATGAGCTACTCTAAAATGCCTGTCTTGTGTAACTTCACCAG
Seq C2 exon
GTAACTCCCAGGGGAGGAGTGAGGCCCAGCAGCCCATATACACTAAGCCGCTGAGTCCCGACGCCAGGACCTCCAGTCTTCCGGAAAGTTCTCCTTCCAAAACAGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059801:ENSRNOT00000091702:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.967 A=NA C2=1.000
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:
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]