Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001409

Physical Location & Seq

Genomic Coordinates Forward (+)

13471018 .. 13480306

Gene Structure 9289 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG076300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 705 bp

ATGTGGAGGCTGAAGGTTTCAGAAGGAGGAAGAGATGGTAATCCATGGCTCACAAGTGTGAATAATCACATCGGGAGACAATTCTGGGAGTTTGACCCAAATCTCGGAACACCGGAAGAGCGAGCTCAGGTGGAAAAAGCACGTCTTGAGTTTCGTAACAATCGTTTTCGATCCAAACATAGTTCTGATCTATTAATGAGACTTCAGTTTGCAAAGGAGAAAGAAAGTGATCGAATGGAGCTACCAACTCAGGTGAAAATAAAAAGTGAAGAAGAAATTAATGAAGAAGTAGTAACAACCACATTGAGGAGGGGGTTGAGATTTTACTCGACTCTTCAGGCTGAGGATGGTTTTTGGCCTGGTGACTATAGCGGTCCTCTGTTTCTTCTACCTGGCTTGGTTATTGGATTATCTGTAACAGGGGCCCTTGATGCAATCTTGCCACACGAGCATTCAAAGGAGATCCGCCGCTATCTTTATAACCATCAGGACGTGCTGTGGGGGTGTCTTCATAAGGTTGGGGAACCTCTTCTCATGAGATGGCCATTGTCTAACCTCAGGCAAAAAGCTCTCACCACTGTGATGGACCACATACACTATGAGGATGAAAACACTCAGTATATCTGCATTGGAGCTGTCAATAAGAACAGCAATGGAGGGTTTGCATCATATGAACTCACAAGATCCTATGCCTGGTTGGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000250 GO:0003674 GO:0003824 GO:0016853 GO:0016866 GO:0031559

KEGG Pathways

Metabolic & Signaling

ko00100 ko01100 ko01110 ko01130 map00100 map01100 map01110 map01130

Pfam Domains

Protein Families

SQHop_cyclase_C SQHop_cyclase_N

Protein Analysis

234

Amino Acids

27.18

Weight (kDa)

6.26

Isoelectric Point (pI)

49.66

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001409)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g10860 FvH4_7g10860 FvH4_7g10860
malus_domestica	MD17G1158900.v1.1 MD17G1160000.v1.1 MD17G1246000.v1.1 MD17G1246100.v1.1 MD17G1246500.v1.1 MD17G1246700.v1.1
prunus_persica	Prupe.1G002600_v2.0.a1 Prupe.1G002600_v2.0.a1 Prupe.7G043400_v2.0.a1
pyrus_communis	pycom16g19870 pycom16g24410
rosa_chinensis	RchiOBHm_Chr1g0332711 RchiOBHm_Chr2g0148781 RchiOBHm_Chr4g0385071 RchiOBHm_Chr4g0385101
rosa_laevigata	RLG00000010257
rosa_multiflora	Rmu_co8015556.1_g000001 Rmu_co8308753.1_g000001 Rmu_co8434809.1_g000001 Rmu_sc0000824.1_g000004 Rmu_sc0001548.1_g000031 Rmu_sc0001548.1_g000053 Rmu_sc0002070.1_g000040 Rmu_sc0002116.1_g000014 Rmu_sc0003929.1_g000004 Rmu_sc0008546.1_g000012 Rmu_sc0008678.1_g000005 Rmu_ssc0000158.1_g000036
rosa_roxburghii	Rroxscaffold_5G00333010 Rroxscaffold_5G00342310
rosa_rugosa	Rorug03G0113700 Rorug03G0225800 Rorug03G0298900
rosa_samantha	Rh1CG121300 Rh1DG132500 Rh2AG466900 Rh2CG453300 Rh2CG453700 Rh4AG002600 Rh4AG078200 Rh4AG078500 Rh4BG002100 Rh4BG073600 Rh4BG073800 Rh4BG075600 Rh4BG076300 Rh4DG002100 Rh4DG071700 Rh7BG219000
rosa_wichuraiana	Rw4G000670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	480
AciI	CCGC	3 cut(s)	372, 466, 469
AclWI	GGATC	3 cut(s)	165, 457, 678
AcoI	YGGCCR	1 cut(s)	542
AcuI	CTGAAG	3 cut(s)	32, 188, 320
AfiI	CCNNNNNNNGG	3 cut(s)	104, 306, 693
AgsI	TTSAA	1 cut(s)	456
AjiI	CACGTC	2 cut(s)	143, 493
AjnI	CCWGG	3 cut(s)	358, 391, 692
AleI	CACNNNNGTG	2 cut(s)	56, 578
AluBI	AGCT	4 cut(s)	125, 241, 569, 635
AluI	AGCT	4 cut(s)	125, 241, 569, 635
Alw21I	GWGCWC	1 cut(s)	127
Alw26I	GTCTC	2 cut(s)	70, 193
AlwI	GGATC	3 cut(s)	165, 457, 678
AoxI	GGCC	3 cut(s)	356, 423, 542
ApaI	GGGCCC	1 cut(s)	427
AseI	ATTAAT	2 cut(s)	194, 279
Asp700I	GAANNNNTTC	1 cut(s)	528
AspS9I	GGNCC	4 cut(s)	374, 423, 424, 586
AsuHPI	GGTGA	3 cut(s)	265, 374, 565
AvaII	GGWCC	2 cut(s)	374, 586
AxyI	CCTNAGG	1 cut(s)	557
BaeGI	GKGCMC	1 cut(s)	427
BalI	TGGCCA	1 cut(s)	544
BanII	GRGCYC	2 cut(s)	127, 427
BauI	CACGAG	1 cut(s)	446
BbsI	GAAGAC	1 cut(s)	500
Bbv12I	GWGCWC	1 cut(s)	127
BbvCI	CCTCAGC	1 cut(s)	342
BccI	CCATC	5 cut(s)	29, 341, 492, 534, 577
BciT130I	CCWGG	3 cut(s)	360, 393, 694
BcoDI	GTCTC	2 cut(s)	70, 193
BfmI	CTRYAG	1 cut(s)	367
BisI	GCNGC	1 cut(s)	469
BlsI	GCNGC	1 cut(s)	470
Bme1390I	CCNGG	3 cut(s)	360, 393, 694
Bme18I	GGWCC	2 cut(s)	374, 586
BmgBI	CACGTC	2 cut(s)	143, 493
BmgT120I	GGNCC	4 cut(s)	374, 423, 424, 586
BmiI	GGNNCC	3 cut(s)	424, 425, 525
BmrFI	CCNGG	3 cut(s)	360, 393, 694
BmsI	GCATC	2 cut(s)	421, 674
BpiI	GAAGAC	1 cut(s)	500
Bpu10I	CCTNAGC	2 cut(s)	126, 342
BpuEI	CTTGAG	1 cut(s)	167
BsaBI	GATNNNNATC	1 cut(s)	39
BsaJI	CCNNGG	1 cut(s)	44
BsaWI	WCCGGW	1 cut(s)	112
Bsc4I	CCNNNNNNNGG	3 cut(s)	104, 306, 693
Bse21I	CCTNAGG	1 cut(s)	557
Bse3DI	GCAATG	1 cut(s)	658
Bse8I	GATNNNNATC	1 cut(s)	39
BseBI	CCWGG	3 cut(s)	360, 393, 694
BseDI	CCNNGG	1 cut(s)	44
BseGI	GGATG	2 cut(s)	352, 610
BseJI	GATNNNNATC	1 cut(s)	39
BseLI	CCNNNNNNNGG	3 cut(s)	104, 306, 693
BseMI	GCAATG	1 cut(s)	658
BseMII	CTCAG	5 cut(s)	140, 263, 333, 571, 629
BseRI	GAGGAG	1 cut(s)	322
BseSI	GKGCMC	1 cut(s)	427
BshFI	GGCC	3 cut(s)	358, 425, 544
BsiHKAI	GWGCWC	1 cut(s)	127
BsiSI	CCGG	1 cut(s)	113
BslI	CCNNNNNNNGG	3 cut(s)	104, 306, 693
BsmAI	GTCTC	2 cut(s)	70, 193
BsmI	GAATGC	1 cut(s)	451
BsnI	GGCC	3 cut(s)	358, 425, 544
Bsp120I	GGGCCC	1 cut(s)	423
Bsp1286I	GDGCHC	2 cut(s)	127, 427
Bsp143I	GATC	5 cut(s)	170, 187, 229, 462, 683
Bsp19I	CCATGG	1 cut(s)	44
BspACI	CCGC	3 cut(s)	372, 466, 469
BspANI	GGCC	3 cut(s)	358, 425, 544
BspCNI	CTCAG	5 cut(s)	139, 262, 334, 570, 628
BspHI	TCATGA	1 cut(s)	534
BspLI	GGNNCC	3 cut(s)	424, 425, 525
BspPI	GGATC	3 cut(s)	165, 457, 678
BspQI	GCTCTTC	1 cut(s)	111
BsrDI	GCAATG	1 cut(s)	658
BssECI	CCNNGG	1 cut(s)	44
BssMI	GATC	5 cut(s)	170, 187, 229, 462, 683
BssSI	CACGAG	1 cut(s)	446
BssT1I	CCWWGG	1 cut(s)	44
Bst2BI	CACGAG	1 cut(s)	446
Bst2UI	CCWGG	3 cut(s)	360, 393, 694
Bst4CI	ACNGT	1 cut(s)	580
Bst6I	CTCTTC	4 cut(s)	25, 111, 339, 534
BstC8I	GCNNGC	1 cut(s)	123
BstDEI	CTNAG	5 cut(s)	126, 249, 342, 557, 615
BstDSI	CCRYGG	1 cut(s)	44
BstF5I	GGATG	2 cut(s)	352, 610
BstKTI	GATC	5 cut(s)	173, 190, 232, 465, 686
BstMAI	GTCTC	2 cut(s)	70, 193
BstMBI	GATC	5 cut(s)	170, 187, 229, 462, 683
BstMWI	GCNNNNNNNGC	2 cut(s)	431, 448
BstNI	CCWGG	3 cut(s)	360, 393, 694
BstSCI	CCNGG	3 cut(s)	358, 391, 692
BstSFI	CTRYAG	1 cut(s)	367
BstSLI	GKGCMC	1 cut(s)	427
BstV2I	GAAGAC	1 cut(s)	500
BstX2I	RGATCY	2 cut(s)	462, 683
BstXI	CCANNNNNNTGG	1 cut(s)	583
BstYI	RGATCY	2 cut(s)	462, 683
Bsu36I	CCTNAGG	1 cut(s)	557
BsuRI	GGCC	3 cut(s)	358, 425, 544
BtgI	CCRYGG	1 cut(s)	44
BtrI	CACGTC	2 cut(s)	143, 493
BtsCI	GGATG	2 cut(s)	352, 610
BtsIMutI	CAGTG	1 cut(s)	576
Cac8I	GCNNGC	1 cut(s)	123
CciI	TCATGA	1 cut(s)	534
Cfr13I	GGNCC	4 cut(s)	374, 423, 424, 586
CviAII	CATG	2 cut(s)	45, 535
DdeI	CTNAG	5 cut(s)	126, 249, 342, 557, 615
DpnI	GATC	5 cut(s)	172, 189, 231, 464, 685
DpnII	GATC	5 cut(s)	170, 187, 229, 462, 683
EaeI	YGGCCR	1 cut(s)	542
Eam1104I	CTCTTC	4 cut(s)	25, 111, 339, 534
EarI	CTCTTC	4 cut(s)	25, 111, 339, 534
EciI	GGCGGA	1 cut(s)	455
Ecl136II	GAGCTC	1 cut(s)	125
Eco130I	CCWWGG	1 cut(s)	44
Eco24I	GRGCYC	2 cut(s)	127, 427
Eco47I	GGWCC	2 cut(s)	374, 586
Eco53kI	GAGCTC	1 cut(s)	125
Eco57I	CTGAAG	3 cut(s)	32, 188, 320
Eco81I	CCTNAGG	1 cut(s)	557
EcoICRI	GAGCTC	1 cut(s)	125
EcoO109I	RGGNCCY	2 cut(s)	423, 424
EcoRII	CCWGG	3 cut(s)	358, 391, 692
EcoT14I	CCWWGG	1 cut(s)	44
EcoT38I	GRGCYC	2 cut(s)	127, 427
ErhI	CCWWGG	1 cut(s)	44
FaeI	CATG	2 cut(s)	48, 538
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FatI	CATG	2 cut(s)	44, 534
FauNDI	CATATG	1 cut(s)	670
Fnu4HI	GCNGC	1 cut(s)	469
FokI	GGATG	2 cut(s)	359, 617
FriOI	GRGCYC	2 cut(s)	127, 427
Fsp4HI	GCNGC	1 cut(s)	469
GluI	GCNGC	1 cut(s)	469
HaeIII	GGCC	3 cut(s)	358, 425, 544
HapII	CCGG	1 cut(s)	113
Hin1II	CATG	2 cut(s)	48, 538
HinfI	GANTC	1 cut(s)	331
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	3 cut(s)	265, 374, 565
Hpy188I	TCNGA	3 cut(s)	22, 107, 187
Hpy188III	TCNNGA	4 cut(s)	73, 146, 488, 535
HpyAV	CCTTC	2 cut(s)	7, 17
HpyCH4III	ACNGT	1 cut(s)	580
HpyCH4IV	ACGT	2 cut(s)	142, 492
HpyCH4V	TGCA	4 cut(s)	212, 434, 627, 665
HpyF10VI	GCNNNNNNNGC	2 cut(s)	431, 448
HpyF3I	CTNAG	5 cut(s)	126, 249, 342, 557, 615
HpySE526I	ACGT	2 cut(s)	142, 492
Hsp92II	CATG	2 cut(s)	48, 538
Kzo9I	GATC	5 cut(s)	170, 187, 229, 462, 683
LguI	GCTCTTC	1 cut(s)	111
LmnI	GCTCC	2 cut(s)	238, 632
LweI	GCATC	2 cut(s)	421, 674
MaeII	ACGT	2 cut(s)	142, 492
MaeIII	GTNAC	4 cut(s)	155, 292, 362, 415
MalI	GATC	5 cut(s)	172, 189, 231, 464, 685
MboI	GATC	5 cut(s)	170, 187, 229, 462, 683
MboII	GAAGA	9 cut(s)	42, 128, 281, 284, 296, 326, 377, 500, 521
MflI	RGATCY	2 cut(s)	462, 683
MhlI	GDGCHC	2 cut(s)	127, 427
MlsI	TGGCCA	1 cut(s)	544
MluCI	AATT	2 cut(s)	80, 276
MluNI	TGGCCA	1 cut(s)	544
MlyI	GAGTC	1 cut(s)	325
MmeI	TCCRAC	1 cut(s)	678
MnlI	CCTC	9 cut(s)	20, 300, 303, 337, 387, 537, 566, 595, 650
Mox20I	TGGCCA	1 cut(s)	544
MroXI	GAANNNNTTC	1 cut(s)	528
MscI	TGGCCA	1 cut(s)	544
MseI	TTAA	2 cut(s)	194, 279
MslI	CAYNNNNRTG	3 cut(s)	56, 578, 581
Msp20I	TGGCCA	1 cut(s)	544
MspI	CCGG	1 cut(s)	113
MspR9I	CCNGG	3 cut(s)	360, 393, 694
Mva1269I	GAATGC	1 cut(s)	451
MvaI	CCWGG	3 cut(s)	360, 393, 694
MwoI	GCNNNNNNNGC	2 cut(s)	431, 448
NcoI	CCATGG	1 cut(s)	44
NdeI	CATATG	1 cut(s)	670
NdeII	GATC	5 cut(s)	170, 187, 229, 462, 683
NlaIII	CATG	2 cut(s)	48, 538
NlaIV	GGNNCC	3 cut(s)	424, 425, 525
NmuCI	GTSAC	1 cut(s)	362
OliI	CACNNNNGTG	2 cut(s)	56, 578
PagI	TCATGA	1 cut(s)	534
PciSI	GCTCTTC	1 cut(s)	111
PcsI	WCGNNNNNNNCGW	1 cut(s)	160
PctI	GAATGC	1 cut(s)	451
PdmI	GAANNNNTTC	1 cut(s)	528
PkrI	GCNGC	1 cut(s)	470
PleI	GAGTC	1 cut(s)	325
PpsI	GAGTC	1 cut(s)	325
PshBI	ATTAAT	2 cut(s)	194, 279
PsiI	TTATAA	1 cut(s)	480
Psp124BI	GAGCTC	1 cut(s)	127
Psp6I	CCWGG	3 cut(s)	358, 391, 692
PspGI	CCWGG	3 cut(s)	358, 391, 692
PspN4I	GGNNCC	3 cut(s)	424, 425, 525
PspOMI	GGGCCC	1 cut(s)	423
PspPI	GGNCC	4 cut(s)	374, 423, 424, 586
PsuI	RGATCY	2 cut(s)	462, 683
RseI	CAYNNNNRTG	3 cut(s)	56, 578, 581
SacI	GAGCTC	1 cut(s)	127
SapI	GCTCTTC	1 cut(s)	111
SaqAI	TTAA	2 cut(s)	194, 279
SatI	GCNGC	1 cut(s)	469
Sau3AI	GATC	5 cut(s)	170, 187, 229, 462, 683
Sau96I	GGNCC	4 cut(s)	374, 423, 424, 586
SchI	GAGTC	1 cut(s)	325
ScrFI	CCNGG	3 cut(s)	360, 393, 694
SduI	GDGCHC	2 cut(s)	127, 427
SfaNI	GCATC	2 cut(s)	421, 674
SfcI	CTRYAG	1 cut(s)	367
SinI	GGWCC	2 cut(s)	374, 586
SmiMI	CAYNNNNRTG	3 cut(s)	56, 578, 581
SmlI	CTYRAG	1 cut(s)	146
SmoI	CTYRAG	1 cut(s)	146
Sse9I	AATT	2 cut(s)	80, 276
SsiI	CCGC	3 cut(s)	372, 466, 469
SstI	GAGCTC	1 cut(s)	127
StyD4I	CCNGG	3 cut(s)	358, 391, 692
StyI	CCWWGG	1 cut(s)	44
TaaI	ACNGT	1 cut(s)	580
TaiI	ACGT	2 cut(s)	145, 495
TaqI	TCGA	3 cut(s)	169, 232, 329
TasI	AATT	2 cut(s)	80, 276
TauI	GCSGC	1 cut(s)	471
Tru1I	TTAA	2 cut(s)	194, 279
Tru9I	TTAA	2 cut(s)	194, 279
TscAI	CASTG	1 cut(s)	583
TseFI	GTSAC	1 cut(s)	362
Tsp45I	GTSAC	1 cut(s)	362
TspDTI	ATGAA	4 cut(s)	297, 500, 621, 687
TspRI	CASTG	1 cut(s)	583
VpaK11BI	GGWCC	2 cut(s)	374, 586
VspI	ATTAAT	2 cut(s)	194, 279
XmnI	GAANNNNTTC	1 cut(s)	528

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