Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0016829

Physical Location & Seq

Genomic Coordinates Reverse (-)

53540288 .. 53543242

Gene Structure 2955 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00372070.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGGTTGTTGCAGAGAAATCGAACGAAGCTGAGATCACCGAGCAGGACGCGCTTCTTCAGGCAATGTATCATCCACTTCCGATGATGCAGTATAAGAGAGTTGTGGATCTTCATAACTTGCTCGGAGGAGACTCAAATCAGACTAGTGTGCGTGGGATCAGCGATGAGAATGAACGAGATCGCTGGGGAAAGAAGCCGCCTATTAACGCTGACGCAAGCAGAGCTAAGAAGGAGTTGAAGCGCCTGAGGGTTTTGAGGATGGCAGTGATTTACATGAGGATTGATGAAGCAGCTGACAAGTTTGATAAGAATGCTCCTCCTTTGGCTAAGCAGGTGGTGTACCTAACTCTAGGTTCTATCCAGAAAGCATTGAAAAAGACCCAAGCATTTGTGAACGAGGCTCAGGCTGGCGGTCTATACACAGCTATTCATTCTGCAGCTACAGAATATAAGCTGCTTGTCTTCAACCAATCCATGAAGTTTTGGGTTGGACTCGAGTACCAGTGTCCTCCCATACACACAGTGGCAGAGAAGGCTACACCAGCTGCTGCTTACTTGTCCCGGAAATACAACAAGGTGGTAAGAGACTTGAACCTGAAGGGTTACACTATCTTTGGATATTTACCTTTGGTTCCGATCGATCAGATATCAACAGCACTTAATAGGGCGAGGCAGAGAAGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005783 GO:0005811 GO:0006996 GO:0007275 GO:0008150 GO:0009555 GO:0009987 GO:0012505 GO:0016043 GO:0032501 GO:0032502 GO:0034389 GO:0040007 GO:0040008 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044424 GO:0044444 GO:0044464 GO:0045927 GO:0048229 GO:0048518 GO:0048583 GO:0048584 GO:0048589 GO:0048856 GO:0050789 GO:0065007 GO:0071840 GO:0080134 GO:0080186 GO:1902584 GO:2000070

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

REF

Protein Analysis

227

Amino Acids

25.68

Weight (kDa)

9.64

Isoelectric Point (pI)

35.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
REF	PF05755	92 - 221	3.9e-32	Rubber elongation factor protein (REF)

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)

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Publication-ready

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Orthologous Genes (Group: OG0016829)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g23780
rosa_chinensis	RchiOBHm_Chr4g0430271
rosa_laevigata	RLG00000006989
rosa_multiflora	Rmu_sc0001089.1_g000025 Rmu_sc0027338.1_g000002
rosa_roxburghii	Rroxscaffold_5G00372070
rosa_rugosa	Rorug04G0242200 Rorug04G0242300 Rorug04G0242400
rosa_samantha	Rh4AG298700 Rh4BG305300 Rh4CG320800 Rh4DG302600
rosa_wichuraiana	Rw4G025900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	322
Acc36I	ACCTGC	1 cut(s)	322
AccII	CGCG	1 cut(s)	50
AciI	CCGC	2 cut(s)	197, 411
AclWI	GGATC	2 cut(s)	114, 164
AcuI	CTGAAG	2 cut(s)	41, 617
AdeI	CACNNNGTG	1 cut(s)	523
AfaI	GTAC	2 cut(s)	341, 500
AgsI	TTSAA	4 cut(s)	238, 373, 466, 592
AhlI	ACTAGT	1 cut(s)	143
AluBI	AGCT	7 cut(s)	29, 224, 293, 425, 440, 454, 545
AluI	AGCT	7 cut(s)	29, 224, 293, 425, 440, 454, 545
Alw26I	GTCTC	2 cut(s)	123, 579
AlwI	GGATC	2 cut(s)	114, 164
AlwNI	CAGNNNCTG	1 cut(s)	548
Ama87I	CYCGRG	1 cut(s)	494
ApeKI	GCWGC	5 cut(s)	290, 437, 454, 545, 548
AspLEI	GCGC	2 cut(s)	52, 243
AsuC2I	CCSGG	1 cut(s)	562
AsuHPI	GGTGA	1 cut(s)	28
AvaI	CYCGRG	1 cut(s)	494
AxyI	CCTNAGG	1 cut(s)	245
BaeI	ACNNNNGTAYC	2 cut(s)	482, 515
BbsI	GAAGAC	1 cut(s)	454
BbvI	GCAGC	5 cut(s)	302, 441, 449, 532, 535
BccI	CCATC	1 cut(s)	253
BcgI	CGANNNNNNTGC	1 cut(s)	34
BcnI	CCSGG	1 cut(s)	562
BcoDI	GTCTC	2 cut(s)	123, 579
BcuI	ACTAGT	1 cut(s)	143
BfaI	CTAG	2 cut(s)	144, 350
BfmI	CTRYAG	2 cut(s)	435, 441
BfoI	RGCGCY	1 cut(s)	244
BfuAI	ACCTGC	1 cut(s)	322
BisI	GCNGC	6 cut(s)	197, 291, 438, 455, 546, 549
BlpI	GCTNAGC	1 cut(s)	327
BlsI	GCNGC	6 cut(s)	198, 292, 439, 456, 547, 550
Bme1390I	CCNGG	1 cut(s)	562
BmeT110I	CYCGRG	1 cut(s)	494
BmiI	GGNNCC	1 cut(s)	633
BmrFI	CCNGG	1 cut(s)	562
BmsI	GCATC	1 cut(s)	75
BpiI	GAAGAC	1 cut(s)	454
Bpu10I	CCTNAGC	1 cut(s)	402
Bpu1102I	GCTNAGC	1 cut(s)	327
BpuMI	CCSGG	1 cut(s)	562
Bsa29I	ATCGAT	1 cut(s)	639
Bse1I	ACTGG	1 cut(s)	502
Bse21I	CCTNAGG	1 cut(s)	245
Bse3DI	GCAATG	1 cut(s)	69
BseCI	ATCGAT	1 cut(s)	639
BseGI	GGATG	2 cut(s)	70, 264
BseMI	GCAATG	1 cut(s)	69
BseMII	CTCAG	3 cut(s)	21, 236, 416
BseNI	ACTGG	1 cut(s)	502
BseRI	GAGGAG	2 cut(s)	141, 306
BseXI	GCAGC	5 cut(s)	302, 441, 449, 532, 535
BseYI	CCCAGC	1 cut(s)	183
Bsh1236I	CGCG	1 cut(s)	50
Bsh1285I	CGRYCG	1 cut(s)	639
BshVI	ATCGAT	1 cut(s)	639
BsiEI	CGRYCG	1 cut(s)	639
BsiHKCI	CYCGRG	1 cut(s)	494
BsiSI	CCGG	1 cut(s)	562
BslFI	GGGAC	1 cut(s)	544
BsmAI	GTCTC	2 cut(s)	123, 579
BsmFI	GGGAC	1 cut(s)	544
BsmI	GAATGC	1 cut(s)	316
BsoBI	CYCGRG	1 cut(s)	494
Bsp143I	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
Bsp1720I	GCTNAGC	1 cut(s)	327
BspACI	CCGC	2 cut(s)	197, 411
BspCNI	CTCAG	3 cut(s)	22, 237, 415
BspDI	ATCGAT	1 cut(s)	639
BspFNI	CGCG	1 cut(s)	50
BspLI	GGNNCC	1 cut(s)	633
BspMAI	CTGCAG	1 cut(s)	439
BspMI	ACCTGC	1 cut(s)	322
BspPI	GGATC	2 cut(s)	114, 164
BsrDI	GCAATG	1 cut(s)	69
BsrI	ACTGG	1 cut(s)	502
BssMI	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
Bst4CI	ACNGT	1 cut(s)	523
BstC8I	GCNNGC	2 cut(s)	217, 409
BstDEI	CTNAG	5 cut(s)	30, 225, 245, 327, 402
BstF5I	GGATG	2 cut(s)	70, 264
BstFNI	CGCG	1 cut(s)	50
BstH2I	RGCGCY	1 cut(s)	244
BstHHI	GCGC	2 cut(s)	52, 243
BstKTI	GATC	6 cut(s)	36, 109, 159, 181, 639, 643
BstMAI	GTCTC	2 cut(s)	123, 579
BstMBI	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
BstMCI	CGRYCG	1 cut(s)	639
BstMWI	GCNNNNNNNGC	4 cut(s)	49, 221, 533, 542
BstSCI	CCNGG	1 cut(s)	560
BstSFI	CTRYAG	2 cut(s)	435, 441
BstUI	CGCG	1 cut(s)	50
BstV1I	GCAGC	5 cut(s)	302, 441, 449, 532, 535
BstV2I	GAAGAC	1 cut(s)	454
BstX2I	RGATCY	1 cut(s)	106
BstYI	RGATCY	1 cut(s)	106
Bsu15I	ATCGAT	1 cut(s)	639
Bsu36I	CCTNAGG	1 cut(s)	245
BsuTUI	ATCGAT	1 cut(s)	639
BtgZI	GCGATG	1 cut(s)	177
BtsCI	GGATG	2 cut(s)	70, 264
BtsI	GCAGTG	1 cut(s)	270
BtsIMutI	CAGTG	3 cut(s)	270, 509, 528
BveI	ACCTGC	1 cut(s)	322
Cac8I	GCNNGC	2 cut(s)	217, 409
CaiI	CAGNNNCTG	1 cut(s)	548
CfoI	GCGC	2 cut(s)	52, 243
ClaI	ATCGAT	1 cut(s)	639
CseI	GACGC	2 cut(s)	56, 221
Csp6I	GTAC	2 cut(s)	340, 499
CviAII	CATG	2 cut(s)	274, 475
CviQI	GTAC	2 cut(s)	340, 499
DdeI	CTNAG	5 cut(s)	30, 225, 245, 327, 402
DpnI	GATC	6 cut(s)	35, 108, 158, 180, 638, 642
DpnII	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
DraIII	CACNNNGTG	1 cut(s)	523
Eco32I	GATATC	1 cut(s)	648
Eco57I	CTGAAG	2 cut(s)	41, 617
Eco81I	CCTNAGG	1 cut(s)	245
Eco88I	CYCGRG	1 cut(s)	494
EcoRV	GATATC	1 cut(s)	648
FaeI	CATG	2 cut(s)	277, 478
FaiI	YATR	7 cut(s)	93, 114, 275, 418, 450, 476, 515
FaqI	GGGAC	1 cut(s)	544
FatI	CATG	2 cut(s)	273, 474
Fnu4HI	GCNGC	6 cut(s)	197, 291, 438, 455, 546, 549
FokI	GGATG	2 cut(s)	57, 271
Fsp4HI	GCNGC	6 cut(s)	197, 291, 438, 455, 546, 549
FspBI	CTAG	2 cut(s)	144, 350
GlaI	GCGC	2 cut(s)	51, 242
GluI	GCNGC	6 cut(s)	197, 291, 438, 455, 546, 549
GsaI	CCCAGC	1 cut(s)	187
HaeII	RGCGCY	1 cut(s)	244
HapII	CCGG	1 cut(s)	562
HgaI	GACGC	2 cut(s)	56, 221
HhaI	GCGC	2 cut(s)	52, 243
Hin1II	CATG	2 cut(s)	277, 478
Hin6I	GCGC	2 cut(s)	50, 241
HinP1I	GCGC	2 cut(s)	50, 241
HinfI	GANTC	2 cut(s)	131, 492
HpaII	CCGG	1 cut(s)	562
HphI	GGTGA	1 cut(s)	28
Hpy166II	GTNNAC	2 cut(s)	340, 394
Hpy188I	TCNGA	5 cut(s)	81, 125, 141, 636, 645
Hpy188III	TCNNGA	1 cut(s)	361
Hpy8I	GTNNAC	2 cut(s)	340, 394
HpyAV	CCTTC	3 cut(s)	223, 526, 592
HpyCH4III	ACNGT	1 cut(s)	523
HpyCH4V	TGCA	3 cut(s)	11, 88, 437
HpyF10VI	GCNNNNNNNGC	4 cut(s)	49, 221, 533, 542
HpyF3I	CTNAG	5 cut(s)	30, 225, 245, 327, 402
Hsp92II	CATG	2 cut(s)	277, 478
HspAI	GCGC	2 cut(s)	50, 241
Kzo9I	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
LmnI	GCTCC	1 cut(s)	319
Lsp1109I	GCAGC	5 cut(s)	302, 441, 449, 532, 535
LweI	GCATC	1 cut(s)	75
MaeI	CTAG	2 cut(s)	144, 350
MaeIII	GTNAC	1 cut(s)	602
MalI	GATC	6 cut(s)	35, 108, 158, 180, 638, 642
MboI	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
MboII	GAAGA	3 cut(s)	47, 101, 454
MflI	RGATCY	1 cut(s)	106
MlyI	GAGTC	2 cut(s)	125, 486
MmeI	TCCRAC	1 cut(s)	469
MnlI	CCTC	8 cut(s)	119, 240, 249, 270, 327, 391, 519, 663
MseI	TTAA	2 cut(s)	204, 660
MspA1I	CMGCKG	2 cut(s)	293, 545
MspI	CCGG	1 cut(s)	562
MspR9I	CCNGG	1 cut(s)	562
Mva1269I	GAATGC	1 cut(s)	316
MvnI	CGCG	1 cut(s)	50
MwoI	GCNNNNNNNGC	4 cut(s)	49, 221, 533, 542
NciI	CCSGG	1 cut(s)	562
NdeII	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
NlaIII	CATG	2 cut(s)	277, 478
NlaIV	GGNNCC	1 cut(s)	633
PaeR7I	CTCGAG	1 cut(s)	494
PaqCI	CACCTGC	1 cut(s)	322
PctI	GAATGC	1 cut(s)	316
PfoI	TCCNGGA	1 cut(s)	560
PkrI	GCNGC	6 cut(s)	198, 292, 439, 456, 547, 550
Ple19I	CGATCG	1 cut(s)	639
PleI	GAGTC	2 cut(s)	125, 486
PpsI	GAGTC	2 cut(s)	125, 486
PspFI	CCCAGC	1 cut(s)	183
PspN4I	GGNNCC	1 cut(s)	633
PspXI	VCTCGAGB	1 cut(s)	494
PstI	CTGCAG	1 cut(s)	439
PstNI	CAGNNNCTG	1 cut(s)	548
PsuI	RGATCY	1 cut(s)	106
PvuI	CGATCG	1 cut(s)	639
PvuII	CAGCTG	2 cut(s)	293, 545
RsaI	GTAC	2 cut(s)	341, 500
RsaNI	GTAC	2 cut(s)	340, 499
SaqAI	TTAA	2 cut(s)	204, 660
SatI	GCNGC	6 cut(s)	197, 291, 438, 455, 546, 549
Sau3AI	GATC	6 cut(s)	33, 106, 156, 178, 636, 640
SchI	GAGTC	2 cut(s)	125, 486
ScrFI	CCNGG	1 cut(s)	562
SfaNI	GCATC	1 cut(s)	75
SfcI	CTRYAG	2 cut(s)	435, 441
Sfr274I	CTCGAG	1 cut(s)	494
SlaI	CTCGAG	1 cut(s)	494
SmlI	CTYRAG	1 cut(s)	494
SmoI	CTYRAG	1 cut(s)	494
SpeI	ACTAGT	1 cut(s)	143
SsiI	CCGC	2 cut(s)	197, 411
SspMI	CTAG	2 cut(s)	144, 350
StyD4I	CCNGG	1 cut(s)	560
TaaI	ACNGT	1 cut(s)	523
TaqI	TCGA	3 cut(s)	20, 495, 639
TauI	GCSGC	1 cut(s)	199
Tru1I	TTAA	2 cut(s)	204, 660
Tru9I	TTAA	2 cut(s)	204, 660
TscAI	CASTG	3 cut(s)	270, 509, 528
TseI	GCWGC	5 cut(s)	290, 437, 454, 545, 548
TspDTI	ATGAA	5 cut(s)	101, 186, 300, 419, 491
TspRI	CASTG	3 cut(s)	270, 509, 528
XcmI	CCANNNNNNNNNTGG	1 cut(s)	520
XhoI	CTCGAG	1 cut(s)	494
XspI	CTAG	2 cut(s)	144, 350

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