Detailed information on CNT0000138 (Glycine max)


BLAST search results

BLAST vs PNRD: nothing found

BLAST vs Swiss-Prot:
sp|O49596|HMGB2_ARATH, E-value = 4e-12

BLAST vs NONCODE (A. thaliana): nothing found

Potential orthologs: nothing found

Most similar lncRNAs: nothing found

Expression of CNT0000138

Created with Highcharts 4.1.6Chart context menuExpression (RPKM)0.8981.2610.9201.072.6881.2621.5784.3978.0865.5465.0134.510.6160.249leaves (SRR924099)leaves (SRR924144)leaves (SRR926169)seed (SRR639168)shoot apical meristem (SRR824155)shoot apical meristem (SRR824156)shoot apical meristem (SRR824157)shoot apical meristem (SRR824158)shoot apical meristem (SRR824159)shoot apical meristem (SRR824160)shoot apical meristem (SRR824161)shoot apical meristem (SRR824162)shoot apical meristem (SRR824163)whole seed (SRR639162)whole seed (SRR639164)00.511.522.533.544.555.566.577.588.5

Peptides detected in this lncRNA

>peptide 1 (46 aa)
LCKTIFFSRIHLRFIMYHHLYSSSSSSSLTSDFDLSDSSSSEFFPS*

>peptide 2 (33 aa)
TMQNNFLFPHPPTLHHVSPSLLLIFLVIIDFRL*

Sequence

>CNT0000138
ACTATGCAAAACAATTTTCTTTTCCCGCATCCACCTACGCTTCATCATGTATCACCATCTTTACTCCTCATCTTCCTCGTCATCATTGACTTCAGACTTT
GACTTGTCAGACTCGTCTTCCTCTGAATTCTTTCCCTCCTAACACATCAAAATAACAAGTTCAATAAATTATAAACAATTATATACAATATGAGTAAGAA
GTAAAAAAGTACATAGGGTAAAAAGTATTCACCAATTGCTTATTGTAAGCCGAAATAGTTTTCTCATACTCCTGTTTCTTCTTCTCAGCAGTAGCAACGA
AAGGGGCCTTTTCCTGAAACATTAAATTAACGCAAACTAGGTTACAGAAAAAGTAGACATGATTCGTTAAATTAAATCATATACAACCACACACAAAAAA
TTATCATTAAAATATTTCTCAAAATCATAATTCTCACAGCATCAGATAGCGATTTCCATTTTTCACCACCAGCTTTGCCGACCTAAAATATTTTTCAGAA
AAATACGGATGAGAATAAACGAAAAATAGCGTCAAATTTTTCACGCGGAGAGAAAAAATAAAAAGGGCGAAATCACTCACAACAGCGACGGATTTGTTGT
TAGGATGCTCCTTCTTGAACTGCTCTCTGAACTCGGACCTAAACAAAAACAATCACCAAAAC

lncRNA-RNA interactions

Number of interactions: 7

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
GLYMA09G33070.1 Uncharacterized protein protein coding CNT0000138 754 581 CDS Trans
GLYMA09G33070.2 Uncharacterized protein protein coding CNT0000138 754 581 CDS Trans
GLYMA09G33070.3 Uncharacterized protein protein coding CNT0000138 754 581 CDS_UTR Trans
GLYMA16G22060.3 Uncharacterized protein protein coding CNT0000138 1604 597 CDS Cis
GLYMA16G22060.4 Uncharacterized protein protein coding CNT0000138 1604 597 CDS Cis
GLYMA16G22060.5 Uncharacterized protein protein coding CNT0000138 868 323 CDS_UTR Cis
GLYMA20G01570.1 Uncharacterized protein protein coding CNT0000138 602 419 CDS Trans