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Detailed information on CNT0043452


BLAST search results

BLAST vs PNRD: nothing found

BLAST vs Swiss-Prot:
sp|P48000|KNAT3_ARATH, E-value = 5e-53

BLAST vs NONCODE (A. thaliana): nothing found

Potential orthologs: nothing found

Most similar lncRNAs:
CNT0001697, E-value = 3e-11 (G. max)

Expression of CNT0043452

Created with Highcharts 4.1.6Chart context menuExpression (RPKM)4.9175.6042.8784.8111.0251.9110.636000.6180.4780.620.5030.6940.6080.510.5140.3290.8410.3720.5450.34514.56902.0412.55405.03600000endosperm (SRR068956)endosperm (SRR068957)endosperm (SRR068958)endosperm (SRR068959)floral bud (SRR314815)floral bud (SRR314818)non specified (DRR008476)pollen (SRR847501)pollen (SRR847502)root (SRR314814)root (SRR314817)rosette leaf (ERR754068)rosette leaf (ERR754089)seed (ERR588038)seedling (SRR314813)seedling (SRR314816)seedling (SRR346552)seedling (SRR346553)seedling (SRR847503)seedling (SRR847504)seedling (SRR847505)seedling (SRR847506)seedling (SRR944363)seedling (SRR944364)seedling (SRR944365)seedling (SRR944366)seedling (SRR944367)seedling (SRR944368)seedling (SRR944369)seedling (SRR944370)seedling (SRR944371)seeds (ERR588039)siluge without seeds (ERR588040)012345678910111213141516

Peptides detected in this lncRNA

>peptide 1 (40 aa)
MCLHHKKNINQTHNKHKEQNLYFLHHHDHYYIISSFFGILV

>peptide 2 (29 aa)
SLISPLLCLLSSPCNPFHQQDKALYIVSS*

Sequence

>CNT0043452
TCCTTAATATCTCCTCTCTTATGTCTACTATCTTCTCCTTGTAACCCTTTTCATCAACAAGACAAAGCCCTCTACATTGTTAGTTCATGAACTAGTTCAA
AGAACAAGTTTGTTGATTATTACCTGTTTGAGTTCATGTTTAAGTTCTTGTCTAACTCTTTCCATCAACGACCTCTCACTCTCAGTAGGAATCAAAGGAC
CAAAACCCAACACATCTAATCCCCCATCGAACATATTAGCATCACTCTCTACTTGTTCATCTTCATCGTCAGACATTGTTGCTCCCATCCCTTCTCCAGG
AGACACTCCTAATCTCACCAATAAAACACAAAACTTGTCAATGTCATAAAACTAACTATTGGATTCATGAGCTAATCACAGGATTCATTTTCTCACCTGT
TAAGCTTTGAAGAGACTGCTCAATCTCCCAACAAGCCATCACAGCTTCCATTGCATGAACACGCACATGTTGTTGCAATTGCTCTTTAAATGAACACAGT
AGCAACACATAATGTGTCTACACCATAAAAAAAACATTAATCAAACACACAATAAACACAAAGAACAAAATTTGTATTTTCTTCATCATCATGACCATTA
TTATATCATAAGCTCTTTTTTTGGGATTTTAGTCT

lncRNA-RNA interactions

Number of interactions: 2

Potential function Interacting transcript Gene description Transcript biotype lncRNA id Alignment score (LAST) Alignment length Transcript region involved in interaction Genomic orientation of interacting RNAs
AT5G25220.1 KNOTTED1-like homeobox gene 3 protein coding CNT0043452 1730 635 CDS Cis
AT5G25220.2 KNOTTED1-like homeobox gene 3 protein coding CNT0043452 1730 635 CDS Cis