RnoINT0086067 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113871509-113880663:+
Coord C1 exon
chr4:113871509-113871723
Coord A exon
chr4:113871724-113880443
Coord C2 exon
chr4:113880444-113880663
Length
8720 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
CCTCACTCCTGTCCCCATAGGAT
3' ss Score
11.07
Exon sequences
Seq C1 exon
GTGGATCATCAGCTCCAAGTGGAGGAAGTGCGACTCCGACCAGCTGTGGAGTGGGGCAGGCGACCCCTGCCTGTGACTGAGGGCCTGGTTGAAGTCAGGCTTCCTGAAGGCTGGTCGCAAGTGTGTGACAAAGGCTGGAGTGCCCACAACAGCCACGTAGTCTGCGGTATGCTGGGTTTCCCTGGAGAAAAGAGAGTCAACATGGCCTTCTACAG
Seq A exon
GTGCGGGGACTAAGCGTGTTTTCAGTCTTTGGAAAGGGTGAGGCACTGTGGGAGGCCCAGGAGGGAACGCAAGGAAACTGCTGTGACATAGGCAACTGGGAAACCATGCGTGACCCCGGAGGCTTTCCTACACAGAAATTGAAAGGGCTAGGCAAGGTGCGGAATGCGCGTGCGCGCCAGTGACGTCAGCGGTCGGCAGGCAGAATTTTGGAGTCTGGGCCCTGGGGCCTTGAGAGTTCAGAGTTCTTGAAGGGTGCGGCCGCCTGTCAGAGGCGGTGCCTGAGGATGTCTTTGCGAGGCTGCGCCTGGGGCCTCAGAGATTGTGACTGGCCAGCGCCAAGTCATCCTAGGGAGTGCTGTGCAAAGGGTGACTTCCTTCTTGAAGCATCTCACTTGGTAAATGAGATAAACAGCCGGTTAGATGACTTTTCATGGAGCACACTGCTAAGACGGGGACAGGGTGTTGTAGAAGTGTCACTGTTGAGGAAAGTTTACACTCCTTGCATTGAGATAGAAAACTGGTTCAGGTCTTATCTCTAATACAGGTAAAGCTGCCTTTGAACCTGAGTATACTCTGGGTAGGACATGGTAGATACTGGTGTAACCAATATTTCATTCTCTCATCTATAGTGAAATTATGAGGGTTTTTTTTAGCCTTGCTAAAAAGATAAACTGTGTTCACAGCTGTCTCTAGTACTCCTCCACAGAACACTATCATAGGTTTGAGTGTAATTTTATTATTCCAATAATTTTAGATCTCTAAGAATTGTGCTATGTTTTCCTTAGCAACTTCCTCTCAAGTAGCATTCATCTGTAGAGTAAGAAAACTTTGTTTCTTTCTAAAATCAATACACTCTGTAACATCCACTCATTTCCATATTTGACAGAATTTCCTTTACTGTGGGTGCCCAAACATACCTTTGTTCTTTCTGCCCTGAGGAACACGGTTGAGTCACCTGCAGACTGATAGCCTTTTACAAAGCTGTGTGCAGTAGTGTGTCCGTACTGGCATCCATCTCTGGCTGGGTTCCTTGCATTGAGCTCTGGCTTTGTCTTTCAGAATCCAAACACCAATCGTTTCTCTGCATTTTGGCTAAGATCAAGTGCAGAATCCAAACAGCAGGTTATAAACAGTTGTAGGATTGAAAGCCCAAGCTTTTCTAAGAGGAGAGGATGGACCGAACAAGACCTAAAGAGTCACTCATCAAGCATTTATTTGATGCTCCACTGTGTGCCACCTTCTATTGTAGGCTTTGGTGATTCCACACTAAGCACAATCATCCCTCCTCTGGGGACCAGGGGACAACAAGAAAATGAGTGAGCTTAGAAAATAGAAGGATGGCAGTGTTAGCGTGGCCTCCACCAGAACCAGGTTCCTGGCATGGGAAGAGCTCATGCAAACAGCCAAGTGGGAAAGGATTTTATTCAAGGGTAGTGTGGAGTATGGGACAGGTAGGCTGCAAGAGAGCAAGCATCAGGCTACCTGAGCTAGAGTCCTCGAGGTCACCTGTTCACCCACCACCCATGACTCCCTTCTGTGGGTCCAGGAGAAGGACTGGTGGTTAAGGGATGAACTGTGGGCAGTTTCCTATTTCGATTGACAGACTTAGGTTATATAAAACCTCTGGTTACTGTTCATAGCTTTCCCCACAATGCGTCTGATGTTAATCAATACGTACACCGATGATCGTGCATGGGCATGAGGTGGTAGATCAGGGCTTTCTCTCCAAGTATATTCAGAGAATACAGTGTACCTCACTGCACTGGCTCCCACCCCTACCTACGCTGGATAGGCTCAGTGCCCTTCTTCCTGAGTATTCGTCAGGATGTGTTTGCTCCAAAAAGGGAGTCGCTAAGGGTTCCTGGGTCAGCTGCGGCAGAGTGACCCAGTTGCTTTGTTTAGAGACAAGGGCGCATGCAGCAAGATACAGGTGTGGGTCCCGGGATGCTCAGAGTTTTGCTGAGAAGGGGATGCATCATGTGGAGCTCAAGCCCCCTAGAATTCCAGTTTGCTGAGCTGTCCCCACCCTTGCCTGCCTCAGTAGTATGCAGTGTGGATAAGGAAGTAAAAGGGCTGAGGGAAAGCCTTTCTGAGTAGACATCACGTGAGGGAGAGTTTAAAGGAGGTGGGGGCACAACTATGCAGACATATAGGTGAAGACCAGAAATTCTATGAGACAGGGGTGGAGAGAAGGCATTGTCTTCACCTCGGTGTGCCTGGAGCTTAGTGAACATAGAGCATGTCAGGTGACCTGAGACAGGAGATGGAAGGAAGGTTTGGTGAACCAGGTCCAGGAGGGTCATGTGGGAGATAGCGGCTTTACTCTTCAGTGGAAGGACCATTGGAGGGTTTTGAGCAGAGGTTTCATTTTGCTGTTTTGGTTTTTATCACATTGTATTTATTTTGAGCGCCACTGTGAGCAAATGGAAGTCAGAGGACGACTTCTTTCCTATGTGGGGTCCAGGGATTGAACTCAGGTCATCAGTCCTTTATGTGCTGAGCCACTTTCTCCTGCCACCCCCAAGGTGGTTTTGGTTTCATTTGAAACCATATCTTGGATATCCCTGGCTGGCCCAGAACTCCTGATCCTTCTGCCTCCACCTCCCAAGTCCAGGACTCTGGGCCTGCATCAGCATGCCCAGCTGGCAGGGGAGGGGGGGCATTTAATCACATTTCTAATCATTTCTAATTTCCCACTTCTTTTTTTTAAGATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGACATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTTTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCTAACTTCCCACTTCTAATTATCACTTTGACCGGGAATTGTCTTATGCTGTTTATTATCATGTGTGTGTTCATGTGCTGTGTTGTACACGGCAGTGCATGTGGGAGGTCAAAGAATAACTTTCAAGAGTCAGCTAACTCCTTCTAAGCTGGATTCCTGAGCTCAAACTCAAGTTCCCAGGTTCCAATGGTGAAAGTTTTACCTACTAAGGCATCTCGCCATCCATTAGCTGCTTCCTTTGATTGCTTTGTTCTTTGCTTCTCTTCTGGGGGCGGGGGGAGCATGTGATAAAGCCAAACTTTTATCAAATTACAGATGTGTACCACCATGCCTAACTTTGTATTTATAATTTTAAACTTGTTTTGATGTTATAGAATACACGGAAGCTATAGAATTTTAGAAGGGAAATGTATAGGTATTCGAACTCTTTACTGCTCTTGTGCAGGTAATGAAGCTGAGGCTCTGAGAGCTTCAGTGCATGTAAGAAGACACTTCCTTATAGAAGACACTCCCCCTATGTAGCAGCTTCAACTGGTAATCCCCTTGCCTCAGCTCTGAATGCTAGGACTGCAGGATTTTCCACCGTGCCTGGTTTTAGAGGCCACTCTCATTGGTGTCATTGTGCGCATCCTGACTGACCTCCATGCAAGGGTGGAGAGCACAAAGATGCTAAATGATAATGGAGGTAGACAGGCACCACATTACAGACCCACAGGCTGTGGTCACAGATCTGCCAGACTTGTCTAAGAAAGGTGATGGGAAAAGACAGTAAAGTGGCTAGATGGTTGGTTGGATGGTTGGTTGGTTGGTTTCTTTGGGGAGGGACAGGGTCTCTTTACATAGCTGTCCTAAAACTCACTATATAGACCAGACTGGCCTCAAACTCAGAAGAGATCTATCTACCTGCCTCTGCCTCTGCCTCTGCCTCTTAAGTGCTAGGACTAAAGGTGTATGCTACCATGTCAAGTGACAGTAATGTGTTCAGTGAAGCTAGACATGGTGGTATTCATCCACAATCCCAGAAGACTGGAGCCTAAGGCAGGAGGATCTGGAATTACAGGCTGACTCAGAGATCCTGTTTCCAGGGGGAGGGAAGAGGGACAGTTCAATGAAGATGTCTGTGGGATAACATGATCAGGCCGTGGCTGTACTTTTTCAGATGGGTTTTCATAAATGAAATAGTTATGGGGCTGGAGAGATGGCTCGTTGGCTAAAAGTACTTGCTGTTCTTTCTGAGAATTTGAGTTTATTTCCCAGTTCCCACATCAGGTCTCACAAACACCTGTAATTCCAGCTCCAGGAAATAATTCTGTGGGTACATGCATACACGTATGCTCTACACACACACACACACACACACACACACACACACACACACAATAGAATTTACAAAAACAAAAAAGATTATAATCTGGATACTTGGAAGGCTCAGGCAAGAGAATTACAAGTTTAGACGACACTCAGGGGAAGAGAGTAAATAAATTTTAAAATGCACATATAAAATCCTGGTACACCTTCACACAATATACTATGTCAAAATGCATGAATATTCAAAAGAAATGGCAGGGCAGGAACATGGAGGAAGAAACGATAACCTGGGGGTCAACAGGGAACACCATAAACCTCTTTTCTAAGATGCAGACCAGTCGGTGGTGGTGGTGCAACCTTTAATTCCAGCACTGGGGAGGCAGCAACAGGCAGATCTCTGAGTTCAAGGCCAGCCTAGCTACAGAGTATTCTGTGACCCCAGTACATGTGATGCAAAGGCAGAAGGATCAAGACTGGTTCATGGCTGGCCAGGGCTATGTAATCAAGACCCTGTCTCAACCCTGCACCCCAGCTCACTGCACACCCCAAGATAGGCATATAAAGTGTTGCGCAGGACAAAGAGTGGCTGCAATTAAAATCTTCAAACTTAAAAGGACAATGAGGAGAAATAGACTTAAGGAAACCCTTGAAGAAGGAAGTAAGGCTTACTTTCCTGCAAGCATGCTTGGGAGATGAACTCAGCTTGTGAATAACCAGGCCTATGGGATTGGAACTTGGGCAGGAAGAGGATTCCCCAGTCAAATGTCAAAGCTAATGTCCTCAGATATGTTCTCAGTCCCTGGTCCAGCAGTCTCAGGTCTAGACAGGGCCAGGGGATTCCTTAGAGAGACCACCCAAGAAGCACACACGCAAAGAGGAGGGAAAGAGATGATGTCAGTCTCCCTGGGCCTGATCCAAGCTGCTTCTCTGACCTCCAGATCCCCATGCCCCCTCCTCTGCCCTCTCCTGAGGTTTTCCACCAGCCTCCAGAGCCAGCGGCCCTCATTCCTCATCTGCCTTGATCTAATTTCTGAAGGTCCCGATACTGGGGCACTGTTCTGAGTCCATGGCCTTCACTGAGTTCACTCACCTGTTCCTGTGCTACTAAGGCCAATAGAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCACAAGGCCCTGGGTTCGGTCCTCAGCTCTAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAGGCCAATAGAGTAGCTGATGACATCACACTCTAGTCTTGGCAGCTCTCTATTAGGATCTTGCCCCTGGTTCTGGCCACACTGGCCTTTTCCACTTGGTTCTACACCAATCCTGACTTGATCTTGTCTTACCCTCACAGAAAGTTGAGGAAGCGAGCAGCCAAAGCCTCAGCCCGACACCCCAAGTCCCCTGGAAGGTAAAGGGGCAAGAGCCCCAGGGACCTCCTGTCTGCCCCCGAGGCCTCAGGAGGTGGATGGATGGATAGAAACCTATCCAGGTCCATCCCAGAACCCAAGCCTGTGGGTTAGGAATGTAGTTAAAGAATGGCAGCTCCCAGGGGAGGGTGGGAAGCAAGCATGGGAAAGGGTGAGCTTTGCTCTTAGGGACTGGGAGGAGGATGCTATGTAGGAACAGCTGAGGAGACACTGCAGCCTCAGCCCTTGCATCCCTCCTTCTCCCCACCCACACCCACTCTCAGCACAACTCCCTTGGTTGAGGAACAATTCCACTCTCTCCTCCATTGACCTTCCGCCGACCTCCTCTCCTCTCCCTCACCTGGATTTCCATAATTAGATTTGCCTTTAGTGGCACTGATTCCAGTGAGCCTCAGGAGTTGCTGACTGTATGCCCTGCTTGGCATTCAGCAGTCTTTGCGTGCAGGGAAATCAGTTGCCCTCCCCGTACTGTCAACAAAGGGTCCTTCTAAAAGCAGAATGCTTCACTTTTCCCAGGCCATATGCCCAATAACTGCCTCTACCAACATCTTTCTCCCTTTTGCAGAACAATCAACAAGTTTAAAGTCAAACACAAGCCCCAATTGGGCAGAGGGCCAAGTAAGAGGTAAATGAGGTTGGGGTTGGAAGCAGAGAGGAAGCAGGGCAGGCAGGGGCAGAGACAGGGGCAGGGGCAGGGTTCTGACCAGGAAAGCGTGCAGGGCAGGCCTGTTAGACTGACAGAGCTGATGACAGGTGGAATGGCAGCTGTGACAAACACCTTCCAGATCCTTCCAGAGACGGGAAGTAAGGCACTGTGTTGTGAGTCTCTGGGGACTGTGTTAGTCACAGGACTTGGGTTTCTTGCCCGTGTGCTCTCCTTCCATGAACTCCAGTAGGCAATCCAACACTCTGTCCTGTGCCTGCCTTTCCCCATGAGATCACCGAGTGCCCAAGAGATCAGTGTTCTCATCCTGCTTTATCTGATGAGTGCTTCTAAGTTCTACTTTTTTTTTTTAAGTAAATATTACCAGGAGCTGGAGAGATGGCCTATGGATCCCACTTGGGATCAATGGTTAAGTGTGGACTGCTCTTCCAGGGGATCTGAGTTCAATTCCCAGTACCCACATTAGGCAACTCTACACATGTATATCCACATTATTGAAGTGATTTTTAAGTAAACATTACAGTTTACCTGGTGTGGAGGGCCCGCTAGTCATCCAACTGCATATTTTCTTCCCGGACTCCCTCAGAATTCCAGGGAAAAAGAGACTTCCAACCCTTCCATCTAACTTGTCTTTAAAAGGAAGTCAGCAACACCCCTGAGACTTCCCTGATAACTTGTGATGAGGCCAGGAGCATCTCTTTCATCCTCCCCTCTACCCCTCAGCAAGCTCCAGTTCCCCAGCACACCCTACGATATGCCTCCTGAGTGGGCTTCTGTCCCTGGTTACTGTGGAAGAGCTCAGAATTTGATGAGTGCAAGTTCTTGCAATCCTCTTTGGCTTAGGTCTCTTTGCCCAACACAAATATTCTTTGGTTCCTCCTCTGACCCTCAGCATGCACTGATGTTTTTATTGGTTATAAGAGAGAGTAAGAGAGAGAGTTGGAAGTTAGATGTCTTCCTGTGATGGCCTGACTTTGATTTTCAGCCAAACAGCACCTGATCTCTTTGGTTTTCAGGATCCGTTTATTCTGGGCTTCCAAATGCTTTCATTCTGTAAAGTCTCCAGCCTCCTTTGCCTGTTTTGTGTTTTGTTTTGTGTTTGTTTTCTGAGACAGGACTTCTGTGTAGCTCTGGCTGCCCTGGAACTCACTATGTGGACCAAGCTGGCTTTGAACTCAGAGATTCACCTACCTCTGACTCTGGAGTGCTGGGATTAAAGCCGTGGGCTACTGTGGTCCAGCCCTTTTCCTGTTTTGTTCATAAATACCTTCCCCTCTTGTCTTCCTAGCTTTAAACTGTTACATTCCCTCTTTTCTCTAATGTCAGGGATAGGGCACCAAACTGCAATTAAATCAACCTCTTGGACCTACTCCACCCACACAACCCTTTGCTTTCCTGTCTCCCTGAGCCCCACCCAGCCTTTCTGGGAAGAGAGTTCTCCCTCCCAATCGCCTAGCGGCAAGCTCTTGTTCTGCTAGTACCTACAAGTTCCCTCCTCTCTCAGGCACTCTACAATGTTAACATCTCCAGTTTTGCCCTATTTTCTGCTCAGCTGGCTGTGGGACAATGCTCAGTGGAATTTGCACAAGCATGACTACCTCATTAAGACGTCTGTTTGCCATTGGACACCCATAGCTACCTCTCCTCTTTAGCCATGGAGTCCCTCCAACGTCTGTCTGTCTTGCATTTGTCTTCGTTCCAGAAAGCCACCACCAGTTCTTCTAGTCCATTCTTGCTGGAGCTGTCATATAAGGACAGGGCCTCTAACCTGGAAGCCCCCCTGGCCTCTGAGAAGCCATTTAGATGCAGACTTCCTCAGTAATTTGCAACCTAGCTCATCTTCAGTTGGCTTGTCCAGTCACAGCATAATAGAAGGGTCTGCTCACTAGCCGTTCAGGCCGGTTTTGTGCCAGCCCCTCCTGAGCCATCTTTCTGGTTTCCCGTTAGATGTGGGCTTCCCGTTAGACCTGCTTGGTTACCTTGGTCTCTTAATGACCTAAATGGCCTCAACCTGCCTTTATGTCATTAAGAACAAGGTTACAGCTGTGGGGTGGTGGTGCATGCCTTTAATCCCAGCACTCTAGGAGAAGGCAGGGGTAGGCGGAGCTCTATGAAGTCAAGGCCAGACTGCTCTATGGGCAACCTAGGACAGAGAGAAACACTGTCTCAAAATACAAAAAAAGAACAAGGTTGCCCATAGGGCCACCCTTAGGGTTCTGTTTGCAGGTCTCCAGGGGACCCTGACTGGGCAGCCAAAGCTCTTTCATAGTACACACTAGACAATTCTTGTCTCCCGGCAAGGAAAACACAGTAGGGGAAAAAAAGGGATAAGAGGCCATGAGAGGTTGGGGGATGGCAGGGAAGTGAATTGGCAGATGGCTGTGGGGCAGGCGGGTTAGAACTGCACCTCACTCCTGTCCCCATAG
Seq C2 exon
GATGCTGGCCCAGAAGAAGCAACACTCCTTTGGTCTACACAGCGTGGCATGTGTGGGCACAGAAGCCCACCTCTCCCTTTGCTCTCTGGAGTTCTATCGTGCCAATGACACCACCAGATGTGCTGGTGGGAGCCCTGCAGTGGTGAGCTGTATGCTGGGCCCTCTTTATGCCACCTCTACTGGTCAGAAGAAGCAGCAACATTCTAAGCCTCAAGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(48.5=68.1)
A:
NA
C2:
PF0053013=SRCR=PD(50.5=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]