Detailed information on CNT0000220 (Glycine max)


BLAST search results

BLAST vs PNRD: nothing found

BLAST vs Swiss-Prot:
sp|P49310|GRP1_SINAL, E-value = 2e-20

BLAST vs NONCODE (A. thaliana): nothing found

Potential orthologs: nothing found

Most similar lncRNAs: nothing found

Expression of CNT0000220

Created with Highcharts 4.1.6Chart context menuExpression (RPKM)123.24794.132123.9223.4619.0553.5544.081.21711.827.9036.23713.25710.9715.9726.11leaves (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)0102030405060708090100110120130140

Peptides detected in this lncRNA

>peptide 1 (78 aa)
FTTTTVPTITVVSTFTTTTVSAAATTTTISTATAVVSTTTSETTASTTTTAGAGLSFVDSDVTAVKVLAVHSCDRIFH*

>peptide 2 (54 aa)
SRRPPSPPLRLYPPSRRPPYPPPPPPPPYPPLPRLYPPPLPKPPPPPPPRLARV*

>peptide 3 (59 aa)
MLRPSRSWPFIPAIASFIDCSEAKVTNPNPLDLPVSRSLITCTQKHDASDPKQKKKHEN*

>peptide 4 (58 aa)
LHDDHRPHHYGCIHLHDDHRIRRRHHHHHIHRYRGCIHHHFRNHRLHHHHGWRGSELR*

Sequence

>CNT0000220
CTTCACGACGACCACCGTCCCCACCATTACGGTTGTATCCACCTTCACGACGACCACCGTATCCGCCGCCGCCACCACCACCACCATATCCACCGCTACC
GCGGTTGTATCCACCACCACTTCCGAAACCACCGCCTCCACCACCACCACGGCTGGCGCGGGTCTGAGCTTCGTTGACAGTGATGTTACGGCCGTCAAGG
TCCTGGCCGTTCATTCCTGCGATCGCATCTTTCATTGACTGCTCTGAGGCGAAGGTCACAAATCCGAATCCTCTGGACCTTCCAGTCTCACGGTCGTTGA
TAACCTGCACACAAAAACACGATGCATCAGATCCAAAGCAAAAGAAAAAACACGAAAACTAACGACAGAACCGAATAGAAACCGATCGATCTTCGCCTTT
GGTGAAAGGAAGAAGATGAACGTACCTATTGGCGTGAGTAATAAAAGAATCATATAGTAACACAAGTATCATATCATAGATCAAGTAACGCAAATAGATC
AGAGATCACAGATCAGAAGAGGATCGAGAAAAAATCCGAATCCGAATCGTGTGAGATCAGTTGCGGTGCCTGCATCAAACGGACCTTCGATTCAACGATG
TCGCCGTAGATTGAAAAGGCTTTCTCGAGGGCATCGTTGCCGGTGACCCAAGCAAGCCCACCAACAAAGCAACGGAACTCAACATCTGCAGAAGCCATTG
AAAAATAGTAGAAATTTGCAACAGCTAGAGTGATTAGAGGGATAAGATAAG

lncRNA-RNA interactions

Number of interactions: 25

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
GLYMA03G34490.1 Uncharacterized protein protein coding CNT0000220 178 88 CDS Trans
GLYMA04G01421.1 Uncharacterized protein protein coding CNT0000220 272 178 CDS_UTR Trans
GLYMA04G01421.1 Uncharacterized protein protein coding CNT0000220 349 497 CDS Trans
GLYMA06G01471.1 Uncharacterized protein protein coding CNT0000220 254 140 CDS_UTR Trans
GLYMA06G01471.2 Uncharacterized protein protein coding CNT0000220 254 140 CDS_UTR Trans
GLYMA06G01471.2 Uncharacterized protein protein coding CNT0000220 390 305 CDS Trans
GLYMA06G01471.2 Uncharacterized protein protein coding CNT0000220 131 90 CDS Trans
GLYMA11G12471.1 Uncharacterized protein protein coding CNT0000220 1019 642 CDS_UTR Trans
GLYMA11G12480.1 Uncharacterized protein protein coding CNT0000220 883 619 CDS_UTR Trans
GLYMA11G12490.1 Uncharacterized protein protein coding CNT0000220 276 137 CDS_UTR Cis
GLYMA11G12490.1 Uncharacterized protein protein coding CNT0000220 545 311 CDS Cis
GLYMA11G12505.1 Uncharacterized protein protein coding CNT0000220 2192 741 CDS_UTR Cis
GLYMA12G03470.11 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.13 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.14 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.17 Uncharacterized protein protein coding CNT0000220 89 79 CDS Trans
GLYMA12G03470.19 Uncharacterized protein protein coding CNT0000220 89 79 CDS Trans
GLYMA12G03470.2 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.21 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.21 Uncharacterized protein protein coding CNT0000220 89 79 CDS Trans
GLYMA12G03470.22 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.22 Uncharacterized protein protein coding CNT0000220 89 79 CDS Trans
GLYMA12G03470.8 Uncharacterized protein protein coding CNT0000220 141 104 CDS Trans
GLYMA12G03470.8 Uncharacterized protein protein coding CNT0000220 89 79 CDS Trans
GLYMA12G04701.2 Uncharacterized protein protein coding CNT0000220 999 655 CDS_UTR Trans