Detailed information on CNT0000239 (Glycine max)


BLAST search results

BLAST vs PNRD: nothing found

BLAST vs Swiss-Prot:
sp|P10792|SODCP_PETHY, E-value = 7e-08

BLAST vs NONCODE (A. thaliana): nothing found

Potential orthologs: nothing found

Most similar lncRNAs: nothing found

Expression of CNT0000239

Created with Highcharts 4.1.6Chart context menuExpression (RPKM)1.5361.6071.20400.4460.16000.7850.3140.6260.8080.9120.3660.222leaves (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)00.10.20.30.40.50.60.70.80.911.11.21.31.41.51.61.7

Peptides detected in this lncRNA

>peptide 1 (32 aa)
MYSYHKLQGCFIVTYLLISLNTTTTNLSENDK*

>peptide 2 (37 aa)
MKRIELIEFIFFFLVPHANLPPAFPVVKLSSCPPTKV*

>peptide 3 (36 aa)
MFDAIQYSLISYFQNGIIVQKWFGIKTHRLNNHDLIN

>peptide 4 (43 aa)
MGEGYCTQPYPCICKEAVSGFEPMTNKSPRHNFTTAPGLALFI*

>peptide 5 (31 aa)
MQAQRTLSYRRNIKFIIQIDWSINIIKIADI*

>peptide 6 (48 aa)
MRRYGGGILYAALPLHMQRGCFRIRTHDQQVTKAQLYHCTRARPLHLT*

Sequence

>CNT0000239
TTCTTTCTCAAGCAGACAACAAGGACTACAGCAATCAATTTCATTGGGGAATAAACATCTGACTGCATGATGAATTTTATTGGGGAGTACAGACCCGACT
GCACGATGAATCTCCAGTAAAGGACTAACAACATGTTTTCATGATTCATTTGCACACTCATCTTTAGAAGGACATTATGCTTTACAGTTTACATTGGTAA
CTGAAGAAAACAGTGAGTCATCATGCTTCACAGAGAACATAATATCTGATAACATAACACGACTGCTACAAAAAATTCGCTGCACTGATTATGCTGGAGT
CAAACCAACCACACCTGCAAACATGCAAGCACAACGCACATTATCATACAGGAGAAACATAAAGTTTATAATACAGATAGATTGGAGTATAAACATTATA
AAGATAGCAGACATATAAATCAGCTATAGCTTTTGAAAATTGGACTATTGAATAAGCTTGGCAAGCAATACCCACCCTGTACATCGCAGGTTTAATCCCT
TATCTAATTTAACATTATGCTTGCCTAAGTTACTAATAAAGGCAATTATATTAACTTATCTTCACTAGTTTAAAAATTCATAATATTTTCATTTAACATG
AAATAAAAAACTTCGTACCCCATTGCCCAGAGGCTCTTCGCTATGCGAAGGTATGGGGGAGGGATATTGTACGCAGCCTTACCCTTGCATATGCAAAGAG
GCTGTTTCCGGATTCGAACCCATGACCAACAAGTCACCAAGGCACAACTTTACCACTGCACCAGGGCTCGCCCTCTTCATTTAACATGAAATAATAGATT
AATTTTACAATTGTGGTTAACTATTGTATAAATATATAATTTAAAATAATCATGAGTGAGGGGCATGGTGAGACAGGTAGGTTGCAGGTTTTAATACTTT
TTTTTTTGCAAGGCAGGTTCAGGTTTTAATCCATAAAGGGGCAGTGCGGGATTGGCTTGGGAAAAACCTGTCCTTGCAGCCTACCCACCCCGAAATGTAT
TCATATCACAAACTGCAAGGTTGTTTCATAGTTACATATCTACTAATAAGTTTAAATACAACCACTACTAATCTGTCAGAAAATGACAAGTAATCAAGCT
TGAAATTCCTTTTTAAATACAGGATACTGAAACCATTCAACATTAAATTTGTCAAATTTGATTTCAAGACAATATTTACATCTAAGGAGACTGAGAAAAT
GAAGAATTAGAGATATATTCCTTGTTTTAATTGGACAACCCCAGTTATATCGTTGTCATAGGTCTGAAAGCAAATATACAAAGATATTCTAGATCTCTAG
TCACCATTTCTATACATCAGTCATGTGCATGAACTAACATTTAGCAACATATGCATGTCAATAAATCATGTCTCTGTTCAATTTGGTAGTTGATAATTCA
TCTATGATGTAGCTCAGGACCCAGCTTTCTATCACAGACTAAAGTGCAGGACTTTCAAAAATTAGTATAGAGCTTGTCCGTAAATCATTCAAAATCACGC
ATTATTTATTGAAACAAGTTTGTGAGGAAATCGTTGTACTTTTTTTTATCATAAAACGAAAATTGATCATGATGTTATAGAAAATAGTTCATCTTAGAAC
ATTGAGGCAAAGAGTAAACCAAATAACATCATGTTGGAATGGATGAATAGGTGAATATGAAAAGAATAGAACTGATCGAATTTATATTTTTTTTTTTGGT
ACCACATGCTAATCTTCCACCAGCATTTCCAGTTGTCAAACTGAGTTCATGCCCACCTACAAAAGTTTAAGCAAATGCAGTTAAGACCAAAGTAAAAATA
CTCCAGTTACGATTAACATGTCATACTACACAAGACTACAATTGCAATGTGAGATATAAAATGTCAAGAAGACAAATGACCAATTTCATTTTCATGCCAT
TCCTCCCATGATAAGTACATATTCATTGCTGTTTACTTAAGTAAATAAAATACAAGTGCTGAAGCTTGTGACAGGTCCACAGCACAGGATCCAAAGGCAA
ATATAAATAAATATTAAAATAAAATAGCTAACCCTTTCCAAGGTCATCCTCAAGCTCATGGACCACCAAGGCTCTTCCAACTACTGAATTGGGGCCAGAG
AGTGGTATCTGCATGTTTGATGCCATACAATACAGCCTGATTAGCTACTTTCAAAATGGAATTATAGTTCAAAAGTGGTTCGGAATTAAGACCCACAGGC
TTAACAACCATGATTTGATAAATAC

lncRNA-RNA interactions

Number of interactions: 27

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
GLYMA01G09660.2 Uncharacterized protein protein coding CNT0000239 230 122 UTR5 Trans
GLYMA01G41010.1 Uncharacterized protein protein coding CNT0000239 154 63 CDS Trans
GLYMA02G08430.2 Uncharacterized protein protein coding CNT0000239 486 165 CDS Trans
GLYMA04G30390.1 Uncharacterized protein protein coding CNT0000239 486 173 CDS Trans
GLYMA05G36540.5 Uncharacterized protein protein coding CNT0000239 322 110 CDS_UTR Trans
GLYMA07G14260.2 Actin-related protein 2/3 complex subunit 5 protein coding CNT0000239 471 170 CDS_UTR Trans
GLYMA11G09411.1 Uncharacterized protein protein coding CNT0000239 470 172 CDS Trans
GLYMA11G19840.1 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 2068 773 CDS Cis
GLYMA11G19840.1 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 2820 1024 CDS_UTR Cis
GLYMA11G19840.2 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 2068 773 CDS Cis
GLYMA11G19840.2 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 1528 564 CDS_UTR Cis
GLYMA11G19840.3 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 2062 770 CDS Cis
GLYMA11G19840.3 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 1528 564 CDS_UTR Cis
GLYMA12G08650.1 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 1116 797 CDS Trans
GLYMA12G08650.1 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 924 572 CDS_UTR Trans
GLYMA12G30260.1 Superoxide dismutase [Cu-Zn] protein coding CNT0000239 204 118 CDS Trans
GLYMA13G18920.1 Uncharacterized protein protein coding CNT0000239 479 170 CDS Trans
GLYMA14G14060.1 Uncharacterized protein protein coding CNT0000239 424 143 CDS Trans
GLYMA15G17565.1 Uncharacterized protein protein coding CNT0000239 434 154 UTR3 Trans
GLYMA15G17565.2 Uncharacterized protein protein coding CNT0000239 434 154 UTR3 Trans
GLYMA15G35221.1 Uncharacterized protein protein coding CNT0000239 222 161 UTR5 Trans
GLYMA16G31081.1 Uncharacterized protein protein coding CNT0000239 498 171 CDS Trans
GLYMA17G20241.3 Uncharacterized protein protein coding CNT0000239 512 176 UTR5 Trans
GLYMA17G20241.4 Uncharacterized protein protein coding CNT0000239 512 176 UTR5 Trans
GLYMA20G03090.3 Uncharacterized protein protein coding CNT0000239 473 176 CDS_UTR Trans
GLYMA20G33050.3 Uncharacterized protein protein coding CNT0000239 318 171 UTR5 Trans
GLYMA20G33050.4 Uncharacterized protein protein coding CNT0000239 318 171 UTR5 Trans