Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0010406

Physical Location & Seq

Genomic Coordinates Forward (+)

23496204 .. 23498571

Gene Structure 2368 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012887

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGGAGGGCTTGAAGGTTTCCGATACCAATATGAAAGTGTTTTTGCACCCATCGAAGAGCGGCGACGTCGACGGAGCAATTCATCACCAGCTGAGCTCCATGATTTTCAAGTTTGATGATAATTTGGATGGTGTCTTAGTTGCTTATAAGTTTGACATTTCATCCAAGGATGCAAAGATTCTGAATGGGGTTCATCCTTATTTTACCGTGAGCATAAGAGCGACGCTGTTACTTTTCTCTCCAAAGCCAAATATGCTTGTAGAAGGGAAGGTGGTGAAAGTCACACGAGGATCCATATCTGTCATTGTTCTTGGCTTTTCATGTGCCTTCATAAAAGACGAAGATATTCGCGAAGAGTTTAAGTATAAATATAAACGTGGCAAGCACGTATATATTAGCAGATATCAGAAGCGGCATGTGATAAAAGTTGGAAGCATGATACGACTTTCAGTCAACAGTTTGGATGTGGAGACACTGCACATATATGGTTCTTTGCGTCCAGCTCACACAGGGAGCATTCGCTTTTTAGATAAAGATATGGAAGATGATGGACTTACAGACAGGAGTAATAAGAGGAGAAGAGAAAATGAGGGGGAGTCAGTTATGCAAGAACCCAGTACGACAGTTATTCAAGGGCTTAATACCAAAGTTAAGCCTAGTTCAACTGGTACCGAAGCATTTTCTTTCAATAATGACCAGTATATCAAGAAGTCAAAGAAACACAAGACAAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

S1 SHS2_Rpb7-N

Protein Analysis

245

Amino Acids

27.66

Weight (kDa)

9.57

Isoelectric Point (pI)

28.41

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75670 AT1G75670 AT1G75670
fragaria_vesca	FvH4_2g17590
malus_domestica	MD05G1155200.v1.1 MD10G1149500.v1.1
prunus_persica	Prupe.8G188100_v2.0.a1 Prupe.8G188100_v2.0.a1 Prupe.8G188100_v2.0.a1
pyrus_communis	pycom05g14860
rosa_chinensis	RchiOBHm_Chr6g0282531
rosa_laevigata	RLG00000012887
rosa_multiflora	Rmu_sc0000283.1_g000008 Rmu_sc0005697.1_g000028
rosa_roxburghii	Rroxscaffold_7G00186290
rosa_rugosa	Rorug06G0147300
rosa_samantha	Rh6AG260500 Rh6BG263600 Rh6CG262800 Rh6DG254700
rosa_wichuraiana	Rw6G022530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	147
AatII	GACGTC	1 cut(s)	69
Acc65I	GGTACC	1 cut(s)	668
AccB1I	GGYRCC	1 cut(s)	668
AccBSI	CCGCTC	1 cut(s)	60
AccI	GTMKAC	1 cut(s)	69
AccII	CGCG	1 cut(s)	351
AciI	CCGC	2 cut(s)	60, 412
AclWI	GGATC	2 cut(s)	285, 298
AcyI	GRCGYC	1 cut(s)	66
AfaI	GTAC	2 cut(s)	619, 670
AgsI	TTSAA	5 cut(s)	13, 109, 632, 663, 688
AhdI	GACNNNNNGTC	1 cut(s)	449
AluBI	AGCT	3 cut(s)	91, 96, 503
AluI	AGCT	3 cut(s)	91, 96, 503
Alw21I	GWGCWC	1 cut(s)	98
Alw26I	GTCTC	1 cut(s)	464
AlwI	GGATC	2 cut(s)	285, 298
Asp700I	GAANNNNTTC	1 cut(s)	345
Asp718I	GGTACC	1 cut(s)	668
AsuHPI	GGTGA	2 cut(s)	77, 286
BamHI	GGATCC	1 cut(s)	290
BanI	GGYRCC	1 cut(s)	668
BanII	GRGCYC	1 cut(s)	98
BauI	CACGAG	1 cut(s)	285
Bbv12I	GWGCWC	1 cut(s)	98
BccI	CCATC	3 cut(s)	58, 122, 542
BcoDI	GTCTC	1 cut(s)	464
BfaI	CTAG	1 cut(s)	657
BisI	GCNGC	2 cut(s)	61, 413
BlpI	GCTNAGC	1 cut(s)	92
BlsI	GCNGC	2 cut(s)	62, 414
BmeRI	GACNNNNNGTC	1 cut(s)	449
BmiI	GGNNCC	2 cut(s)	292, 670
BmrI	ACTGGG	1 cut(s)	609
BmsI	GCATC	1 cut(s)	160
BmuI	ACTGGG	1 cut(s)	609
Bpu1102I	GCTNAGC	1 cut(s)	92
BsaAI	YACGTR	1 cut(s)	388
BsaBI	GATNNNNATC	1 cut(s)	295
BsaHI	GRCGYC	1 cut(s)	66
BsaJI	CCNNGG	1 cut(s)	165
Bse1I	ACTGG	3 cut(s)	615, 670, 697
Bse8I	GATNNNNATC	1 cut(s)	295
BseDI	CCNNGG	1 cut(s)	165
BseGI	GGATG	5 cut(s)	133, 161, 175, 193, 469
BseJI	GATNNNNATC	1 cut(s)	295
BseMII	CTCAG	1 cut(s)	83
BseNI	ACTGG	3 cut(s)	615, 670, 697
BseRI	GAGGAG	1 cut(s)	589
BsgI	GTGCAG	1 cut(s)	461
Bsh1236I	CGCG	1 cut(s)	351
BshNI	GGYRCC	1 cut(s)	668
BsiHKAI	GWGCWC	1 cut(s)	98
BsmAI	GTCTC	1 cut(s)	464
BsmI	GAATGC	1 cut(s)	516
Bsp1286I	GDGCHC	1 cut(s)	98
Bsp143I	GATC	1 cut(s)	290
Bsp1720I	GCTNAGC	1 cut(s)	92
Bsp68I	TCGCGA	1 cut(s)	351
BspACI	CCGC	2 cut(s)	60, 412
BspCNI	CTCAG	1 cut(s)	84
BspFNI	CGCG	1 cut(s)	351
BspLI	GGNNCC	2 cut(s)	292, 670
BspPI	GGATC	2 cut(s)	285, 298
BspQI	GCTCTTC	1 cut(s)	50
BspT107I	GGYRCC	1 cut(s)	668
BsrBI	CCGCTC	1 cut(s)	60
BsrI	ACTGG	3 cut(s)	615, 670, 697
BssECI	CCNNGG	1 cut(s)	165
BssMI	GATC	1 cut(s)	290
BssNI	GRCGYC	1 cut(s)	66
BssSI	CACGAG	1 cut(s)	285
BssT1I	CCWWGG	1 cut(s)	165
Bst2BI	CACGAG	1 cut(s)	285
Bst4CI	ACNGT	3 cut(s)	208, 458, 625
Bst6I	CTCTTC	3 cut(s)	50, 348, 574
BstACI	GRCGYC	1 cut(s)	66
BstBAI	YACGTR	1 cut(s)	388
BstC8I	GCNNGC	1 cut(s)	383
BstDEI	CTNAG	2 cut(s)	92, 136
BstF5I	GGATG	5 cut(s)	133, 161, 175, 193, 469
BstFNI	CGCG	1 cut(s)	351
BstKTI	GATC	1 cut(s)	293
BstMAI	GTCTC	1 cut(s)	464
BstMBI	GATC	1 cut(s)	290
BstMWI	GCNNNNNNNGC	1 cut(s)	253
BstNSI	RCATGY	1 cut(s)	419
BstUI	CGCG	1 cut(s)	351
BstX2I	RGATCY	1 cut(s)	290
BstYI	RGATCY	1 cut(s)	290
BtsCI	GGATG	5 cut(s)	133, 161, 175, 193, 469
BtsI	GCAGTG	1 cut(s)	473
BtsIMutI	CAGTG	1 cut(s)	473
BtuMI	TCGCGA	1 cut(s)	351
Cac8I	GCNNGC	1 cut(s)	383
CseI	GACGC	2 cut(s)	232, 485
Csp6I	GTAC	2 cut(s)	618, 669
CviAII	CATG	4 cut(s)	100, 321, 416, 436
CviJI	RGCY	8 cut(s)	9, 91, 96, 247, 315, 503, 637, 655
CviKI_1	RGCY	8 cut(s)	9, 91, 96, 247, 315, 503, 637, 655
CviQI	GTAC	2 cut(s)	618, 669
DdeI	CTNAG	2 cut(s)	92, 136
DpnI	GATC	1 cut(s)	292
DpnII	GATC	1 cut(s)	290
DriI	GACNNNNNGTC	1 cut(s)	449
Eam1104I	CTCTTC	3 cut(s)	50, 348, 574
Eam1105I	GACNNNNNGTC	1 cut(s)	449
EarI	CTCTTC	3 cut(s)	50, 348, 574
Ecl136II	GAGCTC	1 cut(s)	96
Eco130I	CCWWGG	1 cut(s)	165
Eco24I	GRGCYC	1 cut(s)	98
Eco32I	GATATC	1 cut(s)	404
Eco53kI	GAGCTC	1 cut(s)	96
EcoICRI	GAGCTC	1 cut(s)	96
EcoRV	GATATC	1 cut(s)	404
EcoT14I	CCWWGG	1 cut(s)	165
EcoT38I	GRGCYC	1 cut(s)	98
ErhI	CCWWGG	1 cut(s)	165
FaeI	CATG	4 cut(s)	103, 324, 419, 439
FatI	CATG	4 cut(s)	99, 320, 415, 435
FblI	GTMKAC	1 cut(s)	69
Fnu4HI	GCNGC	2 cut(s)	61, 413
FokI	GGATG	5 cut(s)	140, 148, 180, 182, 476
FriOI	GRGCYC	1 cut(s)	98
Fsp4HI	GCNGC	2 cut(s)	61, 413
FspBI	CTAG	1 cut(s)	657
GluI	GCNGC	2 cut(s)	61, 413
HgaI	GACGC	2 cut(s)	232, 485
Hin1I	GRCGYC	1 cut(s)	66
Hin1II	CATG	4 cut(s)	103, 324, 419, 439
HincII	GTYRAC	2 cut(s)	70, 454
HindII	GTYRAC	2 cut(s)	70, 454
HinfI	GANTC	2 cut(s)	178, 596
HphI	GGTGA	2 cut(s)	77, 286
Hpy166II	GTNNAC	2 cut(s)	70, 454
Hpy188I	TCNGA	3 cut(s)	22, 183, 408
Hpy188III	TCNNGA	2 cut(s)	350, 706
Hpy8I	GTNNAC	2 cut(s)	70, 454
Hpy99I	CGWCG	4 cut(s)	68, 71, 74, 226
HpyAV	CCTTC	4 cut(s)	7, 257, 262, 337
HpyCH4III	ACNGT	3 cut(s)	208, 458, 625
HpyCH4IV	ACGT	3 cut(s)	66, 376, 387
HpyCH4V	TGCA	4 cut(s)	46, 173, 478, 607
HpyF10VI	GCNNNNNNNGC	1 cut(s)	253
HpyF3I	CTNAG	2 cut(s)	92, 136
HpySE526I	ACGT	3 cut(s)	66, 376, 387
Hsp92I	GRCGYC	1 cut(s)	66
Hsp92II	CATG	4 cut(s)	103, 324, 419, 439
KpnI	GGTACC	1 cut(s)	672
Kzo9I	GATC	1 cut(s)	290
LguI	GCTCTTC	1 cut(s)	50
LmnI	GCTCC	3 cut(s)	74, 101, 513
LpnPI	CCDG	7 cut(s)	101, 495, 513, 547, 628, 651, 710
LweI	GCATC	1 cut(s)	160
MaeI	CTAG	1 cut(s)	657
MaeII	ACGT	3 cut(s)	66, 376, 387
MaeIII	GTNAC	2 cut(s)	228, 280
MalI	GATC	1 cut(s)	292
MbiI	CCGCTC	1 cut(s)	60
MboI	GATC	1 cut(s)	290
MboII	GAAGA	5 cut(s)	67, 353, 365, 554, 591
MflI	RGATCY	1 cut(s)	290
MhlI	GDGCHC	1 cut(s)	98
MluCI	AATT	2 cut(s)	78, 121
MlyI	GAGTC	1 cut(s)	605
MmeI	TCCRAC	1 cut(s)	409
MnlI	CCTC	3 cut(s)	281, 567, 583
MroXI	GAANNNNTTC	1 cut(s)	345
MseI	TTAA	3 cut(s)	360, 639, 651
MslI	CAYNNNNRTG	1 cut(s)	483
MspA1I	CMGCKG	1 cut(s)	91
Mva1269I	GAATGC	1 cut(s)	516
MvnI	CGCG	1 cut(s)	351
MwoI	GCNNNNNNNGC	1 cut(s)	253
NdeII	GATC	1 cut(s)	290
NlaIII	CATG	4 cut(s)	103, 324, 419, 439
NlaIV	GGNNCC	2 cut(s)	292, 670
NmuCI	GTSAC	1 cut(s)	280
NruI	TCGCGA	1 cut(s)	351
NspI	RCATGY	1 cut(s)	419
PciSI	GCTCTTC	1 cut(s)	50
PctI	GAATGC	1 cut(s)	516
PdmI	GAANNNNTTC	1 cut(s)	345
PfeI	GAWTC	1 cut(s)	178
PkrI	GCNGC	2 cut(s)	62, 414
PleI	GAGTC	1 cut(s)	604
PpsI	GAGTC	1 cut(s)	604
Ppu21I	YACGTR	1 cut(s)	388
PsiI	TTATAA	1 cut(s)	147
Psp124BI	GAGCTC	1 cut(s)	98
PspN4I	GGNNCC	2 cut(s)	292, 670
PsuI	RGATCY	1 cut(s)	290
PvuII	CAGCTG	1 cut(s)	91
RruI	TCGCGA	1 cut(s)	351
RsaI	GTAC	2 cut(s)	619, 670
RsaNI	GTAC	2 cut(s)	618, 669
RseI	CAYNNNNRTG	1 cut(s)	483
SacI	GAGCTC	1 cut(s)	98
SalI	GTCGAC	1 cut(s)	68
SapI	GCTCTTC	1 cut(s)	50
SaqAI	TTAA	3 cut(s)	360, 639, 651
SatI	GCNGC	2 cut(s)	61, 413
Sau3AI	GATC	1 cut(s)	290
SchI	GAGTC	1 cut(s)	605
SduI	GDGCHC	1 cut(s)	98
SetI	ASST	9 cut(s)	18, 69, 93, 98, 273, 379, 390, 505, 734
SfaNI	GCATC	1 cut(s)	160
SgrDI	CGTCGACG	1 cut(s)	68
SmiMI	CAYNNNNRTG	1 cut(s)	483
Sse9I	AATT	2 cut(s)	78, 121
SsiI	CCGC	2 cut(s)	60, 412
SspMI	CTAG	1 cut(s)	657
SstI	GAGCTC	1 cut(s)	98
StyI	CCWWGG	1 cut(s)	165
TaaI	ACNGT	3 cut(s)	208, 458, 625
TaiI	ACGT	3 cut(s)	69, 379, 390
TaqI	TCGA	2 cut(s)	53, 69
TasI	AATT	2 cut(s)	78, 121
TauI	GCSGC	2 cut(s)	63, 415
TfiI	GAWTC	1 cut(s)	178
Tru1I	TTAA	3 cut(s)	360, 639, 651
Tru9I	TTAA	3 cut(s)	360, 639, 651
TscAI	CASTG	1 cut(s)	480
TseFI	GTSAC	1 cut(s)	280
Tsp45I	GTSAC	1 cut(s)	280
TspDTI	ATGAA	6 cut(s)	47, 71, 150, 182, 309, 319
TspGWI	ACGGA	1 cut(s)	87
TspRI	CASTG	1 cut(s)	480
XceI	RCATGY	1 cut(s)	419
XmiI	GTMKAC	1 cut(s)	69
XmnI	GAANNNNTTC	1 cut(s)	345
XspI	CTAG	1 cut(s)	657
ZraI	GACGTC	1 cut(s)	67

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.