Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0002274

Physical Location & Seq

Genomic Coordinates Reverse (-)

3348944 .. 3349618

Gene Structure 675 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G003890.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGGGAGGTTCCGTCTCGAAGAAGCGAGCCGAAGAAAGGTCCAGCAGGCATGGCTATGGTCAAGAATGTTTTGATTATGTTTTCAACTACTTATCCCCACAATGTTCATACTTGAATGGACAAACTGCAGATGCACCTAGAAGTTCTACTTCTTCCGAACCAAGTCTTCATACTGCAAATTCACAGCCCCCGCCGTCTGCTCCGCTACTACCAGATGCATATGATGACGAAGAAGATCAGCAGATGGATCTGGCGATTAGGGCCTCTCTGAAAGCACCAAACATTCCTAGGGCATCTTCTACCTTAAGCATGAACCCTAGCTATGAATACGATGACGAAGAAGAGCGGCAGATCGGTATGGCGATTAGGGCATCTTCTACCTTGAGCAAGAACCCTAGCTATGGTCATGAATGGTCATCTCTGTTTGATATTGGTAGTATCTCTACTTCTTCCCAGCCAAGAAGGTCAATGCCATCTGCTCAACAAACTCCAAATCATTCCAGTTGCGAATTAGTGGAATGTGGGATATGTTTGGAAGTTTCATTAATGCCAGCAATATGTGACCCCTGTGGGCATGTGAGCTGCTACGAGTGTTTGCTACAGATTCAGGGTAGTACTAATCGCTGTCCTCGTTGTCGTCGAGCAATCACCAAAGTGATGAGGATTTATATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005623 GO:0005886 GO:0008150 GO:0009987 GO:0010118 GO:0010941 GO:0016020 GO:0044464 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060548 GO:0065007 GO:0071944 GO:0090332

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

C2 Copine

Protein Analysis

224

Amino Acids

24.72

Weight (kDa)

5.39

Isoelectric Point (pI)

76.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	173 - 219	8e-08	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	173 - 212	5e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	173 - 213	4.7e-06	Ring finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002274)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g04801 FvH4_6g04803 FvH4_6g04820 FvH4_6g04830
malus_domestica	MD12G1228100.v1.1
rosa_chinensis	RchiOBHm_Chr2g0118871 RchiOBHm_Chr6g0301381
rosa_laevigata	RLG00000001612 RLG00000025524
rosa_multiflora	Rmu_co8350985.1_g000001 Rmu_sc0000466.1_g000013 Rmu_sc0003983.1_g000003 Rmu_sc0003983.1_g000004 Rmu_sc0008487.1_g000015 Rmu_sc0032758.1_g000001
rosa_roxburghii	Rroxscaffold_2G00095170 Rroxscaffold_3G00268540 Rroxscaffold_6G00430300 Rroxscaffold_6G00430310 Rroxscaffold_6G00430330 Rroxscaffold_6G00430340
rosa_rugosa	Rorug02G0648100 Rorug02G0648200 Rorug02G0648300
rosa_samantha	Rh2DG653600 Rh3AG050500 Rh3AG050800 Rh3AG050900 Rh3AG051400 Rh3AG051500 Rh3BG051700 Rh3CG051800 Rh3DG052400 Rh3DG052600 Rh4AG163500 Rh4BG209700 Rh4DG159400 Rh5CG498300 Rh7BG086700 Rh7DG437000
rosa_wichuraiana	Rw0G005410 Rw3G003870 Rw3G003890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	346
AciI	CCGC	3 cut(s)	191, 203, 346
AclWI	GGATC	1 cut(s)	255
AcsI	RAATTY	1 cut(s)	178
AfaI	GTAC	1 cut(s)	616
AfiI	CCNNNNNNNGG	2 cut(s)	36, 401
AflII	CTTAAG	1 cut(s)	304
AgsI	TTSAA	2 cut(s)	85, 115
AleI	CACNNNNGTG	1 cut(s)	653
AluBI	AGCT	3 cut(s)	321, 399, 582
AluI	AGCT	3 cut(s)	321, 399, 582
Alw26I	GTCTC	1 cut(s)	19
AlwI	GGATC	1 cut(s)	255
AoxI	GGCC	1 cut(s)	261
ApeKI	GCWGC	1 cut(s)	582
ApoI	RAATTY	1 cut(s)	178
AseI	ATTAAT	1 cut(s)	545
AspA2I	CCTAGG	1 cut(s)	287
AspS9I	GGNCC	2 cut(s)	39, 261
AsuHPI	GGTGA	1 cut(s)	640
AvaII	GGWCC	1 cut(s)	39
AvrII	CCTAGG	1 cut(s)	287
BarI	GAAGNNNNNNTAC	2 cut(s)	430, 462
BbsI	GAAGAC	1 cut(s)	158
BbvI	GCAGC	1 cut(s)	569
BccI	CCATC	2 cut(s)	238, 481
BceAI	ACGGC	1 cut(s)	178
BcoDI	GTCTC	1 cut(s)	19
BfaI	CTAG	4 cut(s)	138, 288, 318, 396
BfmI	CTRYAG	2 cut(s)	126, 599
BfrI	CTTAAG	1 cut(s)	304
BisI	GCNGC	2 cut(s)	347, 583
BlnI	CCTAGG	1 cut(s)	287
BlsI	GCNGC	2 cut(s)	348, 584
BmcAI	AGTACT	1 cut(s)	616
Bme18I	GGWCC	1 cut(s)	39
BmgT120I	GGNCC	2 cut(s)	39, 261
BmiI	GGNNCC	1 cut(s)	10
BmsI	GCATC	4 cut(s)	121, 205, 302, 380
BpiI	GAAGAC	1 cut(s)	158
BpuEI	CTTGAG	1 cut(s)	403
BsaJI	CCNNGG	1 cut(s)	287
BsaXI	ACNNNNNCTCC	1 cut(s)	27
Bsc4I	CCNNNNNNNGG	2 cut(s)	36, 401
Bse1I	ACTGG	1 cut(s)	501
BseDI	CCNNGG	1 cut(s)	287
BseLI	CCNNNNNNNGG	2 cut(s)	36, 401
BseNI	ACTGG	1 cut(s)	501
BseXI	GCAGC	1 cut(s)	569
BseYI	CCCAGC	1 cut(s)	453
BshFI	GGCC	1 cut(s)	263
BslI	CCNNNNNNNGG	2 cut(s)	36, 401
BsmAI	GTCTC	1 cut(s)	19
BsmBI	CGTCTC	1 cut(s)	19
BsnI	GGCC	1 cut(s)	263
Bsp143I	GATC	3 cut(s)	235, 247, 351
BspACI	CCGC	3 cut(s)	191, 203, 346
BspANI	GGCC	1 cut(s)	263
BspHI	TCATGA	1 cut(s)	406
BspLI	GGNNCC	1 cut(s)	10
BspMAI	CTGCAG	1 cut(s)	130
BspPI	GGATC	1 cut(s)	255
BspQI	GCTCTTC	1 cut(s)	336
BspTI	CTTAAG	1 cut(s)	304
BsrBI	CCGCTC	1 cut(s)	346
BsrI	ACTGG	1 cut(s)	501
BssECI	CCNNGG	1 cut(s)	287
BssMI	GATC	3 cut(s)	235, 247, 351
BssT1I	CCWWGG	1 cut(s)	287
Bst6I	CTCTTC	1 cut(s)	336
BstAFI	CTTAAG	1 cut(s)	304
BstC8I	GCNNGC	3 cut(s)	27, 47, 552
BstKTI	GATC	3 cut(s)	238, 250, 354
BstMAI	GTCTC	1 cut(s)	19
BstMBI	GATC	3 cut(s)	235, 247, 351
BstMWI	GCNNNNNNNGC	3 cut(s)	51, 260, 368
BstNSI	RCATGY	1 cut(s)	578
BstSFI	CTRYAG	2 cut(s)	126, 599
BstV1I	GCAGC	1 cut(s)	569
BstV2I	GAAGAC	1 cut(s)	158
BstX2I	RGATCY	1 cut(s)	247
BstYI	RGATCY	1 cut(s)	247
BsuRI	GGCC	1 cut(s)	263
Cac8I	GCNNGC	3 cut(s)	27, 47, 552
CciI	TCATGA	1 cut(s)	406
Cfr13I	GGNCC	2 cut(s)	39, 261
Csp6I	GTAC	1 cut(s)	615
CviAII	CATG	4 cut(s)	50, 310, 407, 575
CviJI	RGCY	8 cut(s)	29, 54, 187, 263, 321, 399, 457, 582
CviKI_1	RGCY	8 cut(s)	29, 54, 187, 263, 321, 399, 457, 582
CviQI	GTAC	1 cut(s)	615
DpnI	GATC	3 cut(s)	237, 249, 353
DpnII	GATC	3 cut(s)	235, 247, 351
Eam1104I	CTCTTC	1 cut(s)	336
EarI	CTCTTC	1 cut(s)	336
Eco130I	CCWWGG	1 cut(s)	287
Eco47I	GGWCC	1 cut(s)	39
EcoO109I	RGGNCCY	1 cut(s)	261
EcoT14I	CCWWGG	1 cut(s)	287
EcoT22I	ATGCAT	1 cut(s)	220
ErhI	CCWWGG	1 cut(s)	287
Esp3I	CGTCTC	1 cut(s)	19
FaeI	CATG	4 cut(s)	53, 313, 410, 578
FalI	AAGNNNNNCTT	2 cut(s)	133, 165
FatI	CATG	4 cut(s)	49, 309, 406, 574
FauI	CCCGC	1 cut(s)	198
FauNDI	CATATG	1 cut(s)	220
Fnu4HI	GCNGC	2 cut(s)	347, 583
Fsp4HI	GCNGC	2 cut(s)	347, 583
FspBI	CTAG	4 cut(s)	138, 288, 318, 396
GluI	GCNGC	2 cut(s)	347, 583
GsaI	CCCAGC	1 cut(s)	457
HaeIII	GGCC	1 cut(s)	263
Hin1II	CATG	4 cut(s)	53, 313, 410, 578
HinfI	GANTC	1 cut(s)	604
HphI	GGTGA	1 cut(s)	640
Hpy188I	TCNGA	2 cut(s)	157, 270
Hpy188III	TCNNGA	3 cut(s)	16, 62, 407
Hpy99I	CGWCG	1 cut(s)	642
HpyAV	CCTTC	1 cut(s)	456
HpyCH4V	TGCA	4 cut(s)	128, 134, 176, 218
HpyF10VI	GCNNNNNNNGC	3 cut(s)	51, 260, 368
Hsp92II	CATG	4 cut(s)	53, 313, 410, 578
Kzo9I	GATC	3 cut(s)	235, 247, 351
LguI	GCTCTTC	1 cut(s)	336
LmnI	GCTCC	1 cut(s)	205
LpnPI	CCDG	9 cut(s)	31, 55, 225, 236, 467, 514, 564, 580, 593
Lsp1109I	GCAGC	1 cut(s)	569
LweI	GCATC	4 cut(s)	121, 205, 302, 380
MaeI	CTAG	4 cut(s)	138, 288, 318, 396
MaeIII	GTNAC	1 cut(s)	560
MalI	GATC	3 cut(s)	237, 249, 353
MbiI	CCGCTC	1 cut(s)	346
MboI	GATC	3 cut(s)	235, 247, 351
MflI	RGATCY	1 cut(s)	247
MluCI	AATT	2 cut(s)	178, 509
MnlI	CCTC	3 cut(s)	274, 639, 654
Mph1103I	ATGCAT	1 cut(s)	220
MseI	TTAA	2 cut(s)	305, 545
MslI	CAYNNNNRTG	2 cut(s)	54, 653
MspCI	CTTAAG	1 cut(s)	304
MwoI	GCNNNNNNNGC	3 cut(s)	51, 260, 368
NdeI	CATATG	1 cut(s)	220
NdeII	GATC	3 cut(s)	235, 247, 351
NlaIII	CATG	4 cut(s)	53, 313, 410, 578
NlaIV	GGNNCC	1 cut(s)	10
NmuCI	GTSAC	1 cut(s)	560
NsiI	ATGCAT	1 cut(s)	220
NspI	RCATGY	1 cut(s)	578
OliI	CACNNNNGTG	1 cut(s)	653
PagI	TCATGA	1 cut(s)	406
PciSI	GCTCTTC	1 cut(s)	336
PcsI	WCGNNNNNNNCGW	2 cut(s)	628, 637
PfeI	GAWTC	1 cut(s)	604
PkrI	GCNGC	2 cut(s)	348, 584
PshBI	ATTAAT	1 cut(s)	545
PspFI	CCCAGC	1 cut(s)	453
PspN4I	GGNNCC	1 cut(s)	10
PspPI	GGNCC	2 cut(s)	39, 261
PstI	CTGCAG	1 cut(s)	130
PsuI	RGATCY	1 cut(s)	247
RsaI	GTAC	1 cut(s)	616
RsaNI	GTAC	1 cut(s)	615
RseI	CAYNNNNRTG	2 cut(s)	54, 653
SapI	GCTCTTC	1 cut(s)	336
SaqAI	TTAA	2 cut(s)	305, 545
SatI	GCNGC	2 cut(s)	347, 583
Sau3AI	GATC	3 cut(s)	235, 247, 351
Sau96I	GGNCC	2 cut(s)	39, 261
ScaI	AGTACT	1 cut(s)	616
SetI	ASST	9 cut(s)	10, 41, 139, 305, 323, 383, 401, 467, 584
SfaNI	GCATC	4 cut(s)	121, 205, 302, 380
SfcI	CTRYAG	2 cut(s)	126, 599
SinI	GGWCC	1 cut(s)	39
SmiMI	CAYNNNNRTG	2 cut(s)	54, 653
SmlI	CTYRAG	2 cut(s)	304, 382
SmoI	CTYRAG	2 cut(s)	304, 382
Sse9I	AATT	2 cut(s)	178, 509
SsiI	CCGC	3 cut(s)	191, 203, 346
SspMI	CTAG	4 cut(s)	138, 288, 318, 396
StyI	CCWWGG	1 cut(s)	287
TaqI	TCGA	2 cut(s)	17, 640
TasI	AATT	2 cut(s)	178, 509
TatI	WGTACW	1 cut(s)	614
TauI	GCSGC	1 cut(s)	349
TfiI	GAWTC	1 cut(s)	604
Tru1I	TTAA	2 cut(s)	305, 545
Tru9I	TTAA	2 cut(s)	305, 545
TseFI	GTSAC	1 cut(s)	560
TseI	GCWGC	1 cut(s)	582
Tsp45I	GTSAC	1 cut(s)	560
TspDTI	ATGAA	6 cut(s)	96, 158, 326, 339, 423, 531
Vha464I	CTTAAG	1 cut(s)	304
VpaK11BI	GGWCC	1 cut(s)	39
VspI	ATTAAT	1 cut(s)	545
XapI	RAATTY	1 cut(s)	178
XceI	RCATGY	1 cut(s)	578
XmaJI	CCTAGG	1 cut(s)	287
XspI	CTAG	4 cut(s)	138, 288, 318, 396
ZrmI	AGTACT	1 cut(s)	616
Zsp2I	ATGCAT	1 cut(s)	220

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