Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0016829

Physical Location & Seq

Genomic Coordinates Reverse (-)

52452945 .. 52455436

Gene Structure 2492 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG302600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 672 bp

ATGTATCATCTACTTCCGATGATGCAGTATAAGAGAGTTGTGGATCTTCATAACTTGCTCGGAGGAGACTCGAATCAGACGAGTGTGCGTGGGATCAGTGATGAGAATGAACGAGATCACTGGGGAAAGAAGCCTATGAACACTGACGCAAGCAGAGGTAAGAAGGAGTTGAAGCGCCTGAGGGTTTTGAGGATGGCAGTGATTTACATGATGATGTTTGTGCTGAATCTGTACAAGTTCGCGAAGAAGAACTCGGGGCCTCTGAGATCGACTGTGTGGACTGTGGAGGTTGCTATGATCACTATTGTTGGTCCAGTCTACCAGAGATTCAAGGGAGTGCCTGATGATTTCTTTGCTTTACTCGACACGAAGATTGATGAAGCAGCTGACAAGTTTGATAAGCATGCTCCTCCTTTGGCTAAGCAGGTGGTGTACCTAACGCTAGGTTCTATCCAGAAAGCATTGAAAAAGACCCGAGAATTTGTGAACGAGGCTCAGGCTGGCGGTCTACACACAGCTATTCATTCTGCAGCTACAGAATATAAGCTGCTTGTCTTCAACCAATCCATGAAGTTTTGGGTTGGACTCGGGTACCAGTGTCCTCCCATACACACAGTGGTAGCCTTCTCTACACCAGCTGCTGCTTGTCCCAGAAATACAACAAGGTGGTAA

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

223

Amino Acids

25.29

Weight (kDa)

9.72

Isoelectric Point (pI)

27.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
REF	PF05755	54 - 215	2.3e-45	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)	415
Acc36I	ACCTGC	1 cut(s)	415
Acc65I	GGTACC	1 cut(s)	591
AccB1I	GGYRCC	1 cut(s)	591
AccI	GTMKAC	2 cut(s)	318, 508
AccII	CGCG	1 cut(s)	242
AciI	CCGC	1 cut(s)	504
AclWI	GGATC	2 cut(s)	51, 101
AcsI	RAATTY	1 cut(s)	479
AdeI	CACNNNGTG	1 cut(s)	616
AfaI	GTAC	3 cut(s)	233, 434, 593
AgsI	TTSAA	4 cut(s)	172, 331, 466, 559
AluBI	AGCT	5 cut(s)	386, 518, 533, 547, 638
AluI	AGCT	5 cut(s)	386, 518, 533, 547, 638
Alw26I	GTCTC	1 cut(s)	60
AlwI	GGATC	2 cut(s)	51, 101
AlwNI	CAGNNNCTG	1 cut(s)	641
Ama87I	CYCGRG	3 cut(s)	253, 474, 587
AoxI	GGCC	1 cut(s)	257
ApeKI	GCWGC	5 cut(s)	383, 530, 547, 638, 641
ApoI	RAATTY	1 cut(s)	479
Asp718I	GGTACC	1 cut(s)	591
AspLEI	GCGC	1 cut(s)	177
AspS9I	GGNCC	2 cut(s)	257, 311
AvaI	CYCGRG	3 cut(s)	253, 474, 587
AvaII	GGWCC	1 cut(s)	311
AxyI	CCTNAGG	1 cut(s)	179
BaeI	ACNNNNGTAYC	4 cut(s)	575, 583, 608, 616
BanI	GGYRCC	1 cut(s)	591
BbsI	GAAGAC	1 cut(s)	547
BbvI	GCAGC	5 cut(s)	395, 534, 542, 625, 628
BccI	CCATC	1 cut(s)	187
BclI	TGATCA	1 cut(s)	297
BcoDI	GTCTC	1 cut(s)	60
BfaI	CTAG	1 cut(s)	443
BfmI	CTRYAG	2 cut(s)	528, 534
BfoI	RGCGCY	1 cut(s)	178
BfuAI	ACCTGC	1 cut(s)	415
BisI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
BlpI	GCTNAGC	1 cut(s)	420
BlsI	GCNGC	5 cut(s)	385, 532, 549, 640, 643
Bme18I	GGWCC	1 cut(s)	311
BmeT110I	CYCGRG	3 cut(s)	253, 474, 587
BmgT120I	GGNCC	2 cut(s)	257, 311
BmiI	GGNNCC	2 cut(s)	258, 593
BmrI	ACTGGG	1 cut(s)	130
BmsI	GCATC	1 cut(s)	12
BmuI	ACTGGG	1 cut(s)	130
BpiI	GAAGAC	1 cut(s)	547
Bpu10I	CCTNAGC	1 cut(s)	495
Bpu1102I	GCTNAGC	1 cut(s)	420
Bse1I	ACTGG	3 cut(s)	125, 314, 595
Bse21I	CCTNAGG	1 cut(s)	179
BseGI	GGATG	1 cut(s)	198
BseMII	CTCAG	3 cut(s)	170, 254, 509
BseNI	ACTGG	3 cut(s)	125, 314, 595
BseRI	GAGGAG	2 cut(s)	78, 399
BseXI	GCAGC	5 cut(s)	395, 534, 542, 625, 628
Bsh1236I	CGCG	1 cut(s)	242
BshFI	GGCC	1 cut(s)	259
BshNI	GGYRCC	1 cut(s)	591
BsiHKCI	CYCGRG	3 cut(s)	253, 474, 587
BslFI	GGGAC	1 cut(s)	633
BsmAI	GTCTC	1 cut(s)	60
BsmFI	GGGAC	1 cut(s)	633
BsnI	GGCC	1 cut(s)	259
BsoBI	CYCGRG	3 cut(s)	253, 474, 587
Bsp1407I	TGTACA	1 cut(s)	231
Bsp143I	GATC	5 cut(s)	43, 93, 115, 266, 297
Bsp1720I	GCTNAGC	1 cut(s)	420
Bsp68I	TCGCGA	1 cut(s)	242
BspACI	CCGC	1 cut(s)	504
BspANI	GGCC	1 cut(s)	259
BspCNI	CTCAG	3 cut(s)	171, 255, 508
BspFNI	CGCG	1 cut(s)	242
BspLI	GGNNCC	2 cut(s)	258, 593
BspMAI	CTGCAG	1 cut(s)	532
BspMI	ACCTGC	1 cut(s)	415
BspPI	GGATC	2 cut(s)	51, 101
BspT107I	GGYRCC	1 cut(s)	591
BsrGI	TGTACA	1 cut(s)	231
BsrI	ACTGG	3 cut(s)	125, 314, 595
BssMI	GATC	5 cut(s)	43, 93, 115, 266, 297
Bst4CI	ACNGT	3 cut(s)	274, 283, 616
BstAUI	TGTACA	1 cut(s)	231
BstC8I	GCNNGC	3 cut(s)	151, 405, 502
BstDEI	CTNAG	4 cut(s)	179, 263, 420, 495
BstF5I	GGATG	1 cut(s)	198
BstFNI	CGCG	1 cut(s)	242
BstH2I	RGCGCY	1 cut(s)	178
BstHHI	GCGC	1 cut(s)	177
BstKTI	GATC	5 cut(s)	46, 96, 118, 269, 300
BstMAI	GTCTC	1 cut(s)	60
BstMBI	GATC	5 cut(s)	43, 93, 115, 266, 297
BstNSI	RCATGY	1 cut(s)	407
BstSFI	CTRYAG	2 cut(s)	528, 534
BstUI	CGCG	1 cut(s)	242
BstV1I	GCAGC	5 cut(s)	395, 534, 542, 625, 628
BstV2I	GAAGAC	1 cut(s)	547
BstX2I	RGATCY	1 cut(s)	43
BstYI	RGATCY	1 cut(s)	43
Bsu36I	CCTNAGG	1 cut(s)	179
BsuRI	GGCC	1 cut(s)	259
BtsCI	GGATG	1 cut(s)	198
BtsI	GCAGTG	1 cut(s)	204
BtsIMutI	CAGTG	6 cut(s)	103, 118, 141, 204, 602, 621
BtuMI	TCGCGA	1 cut(s)	242
BveI	ACCTGC	1 cut(s)	415
Cac8I	GCNNGC	3 cut(s)	151, 405, 502
CaiI	CAGNNNCTG	1 cut(s)	641
CfoI	GCGC	1 cut(s)	177
Cfr13I	GGNCC	2 cut(s)	257, 311
CseI	GACGC	1 cut(s)	155
Csp6I	GTAC	3 cut(s)	232, 433, 592
CviAII	CATG	3 cut(s)	208, 404, 568
CviQI	GTAC	3 cut(s)	232, 433, 592
DdeI	CTNAG	4 cut(s)	179, 263, 420, 495
DpnI	GATC	5 cut(s)	45, 95, 117, 268, 299
DpnII	GATC	5 cut(s)	43, 93, 115, 266, 297
DraIII	CACNNNGTG	1 cut(s)	616
Eco47I	GGWCC	1 cut(s)	311
Eco81I	CCTNAGG	1 cut(s)	179
Eco88I	CYCGRG	3 cut(s)	253, 474, 587
EcoO109I	RGGNCCY	1 cut(s)	257
FaeI	CATG	3 cut(s)	211, 407, 571
FaiI	YATR	9 cut(s)	30, 51, 137, 209, 296, 405, 543, 569, 608
FaqI	GGGAC	1 cut(s)	633
FatI	CATG	3 cut(s)	207, 403, 567
FbaI	TGATCA	1 cut(s)	297
FblI	GTMKAC	2 cut(s)	318, 508
Fnu4HI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
FokI	GGATG	1 cut(s)	205
Fsp4HI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
FspBI	CTAG	1 cut(s)	443
GlaI	GCGC	1 cut(s)	176
GluI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
HaeII	RGCGCY	1 cut(s)	178
HaeIII	GGCC	1 cut(s)	259
HgaI	GACGC	1 cut(s)	155
HhaI	GCGC	1 cut(s)	177
Hin1II	CATG	3 cut(s)	211, 407, 571
Hin6I	GCGC	1 cut(s)	175
HinP1I	GCGC	1 cut(s)	175
HinfI	GANTC	5 cut(s)	68, 73, 226, 327, 585
Hpy166II	GTNNAC	5 cut(s)	279, 319, 433, 487, 509
Hpy188I	TCNGA	4 cut(s)	18, 62, 78, 264
Hpy188III	TCNNGA	2 cut(s)	241, 454
Hpy8I	GTNNAC	5 cut(s)	279, 319, 433, 487, 509
HpyAV	CCTTC	2 cut(s)	157, 634
HpyCH4III	ACNGT	3 cut(s)	274, 283, 616
HpyCH4V	TGCA	2 cut(s)	25, 530
HpyF3I	CTNAG	4 cut(s)	179, 263, 420, 495
Hsp92II	CATG	3 cut(s)	211, 407, 571
HspAI	GCGC	1 cut(s)	175
KpnI	GGTACC	1 cut(s)	595
Ksp22I	TGATCA	1 cut(s)	297
Kzo9I	GATC	5 cut(s)	43, 93, 115, 266, 297
LmnI	GCTCC	1 cut(s)	412
Lsp1109I	GCAGC	5 cut(s)	395, 534, 542, 625, 628
LweI	GCATC	1 cut(s)	12
MaeI	CTAG	1 cut(s)	443
MalI	GATC	5 cut(s)	45, 95, 117, 268, 299
MboI	GATC	5 cut(s)	43, 93, 115, 266, 297
MboII	GAAGA	5 cut(s)	38, 256, 259, 382, 547
MflI	RGATCY	1 cut(s)	43
MluCI	AATT	1 cut(s)	479
MlyI	GAGTC	2 cut(s)	62, 579
MmeI	TCCRAC	1 cut(s)	562
MnlI	CCTC	9 cut(s)	56, 149, 174, 183, 270, 280, 420, 484, 612
MslI	CAYNNNNRTG	1 cut(s)	212
MspA1I	CMGCKG	2 cut(s)	386, 638
MvnI	CGCG	1 cut(s)	242
NdeII	GATC	5 cut(s)	43, 93, 115, 266, 297
NlaIII	CATG	3 cut(s)	211, 407, 571
NlaIV	GGNNCC	2 cut(s)	258, 593
NruI	TCGCGA	1 cut(s)	242
NspI	RCATGY	1 cut(s)	407
PaeI	GCATGC	1 cut(s)	407
PaqCI	CACCTGC	1 cut(s)	415
PcsI	WCGNNNNNNNCGW	1 cut(s)	77
PfeI	GAWTC	3 cut(s)	73, 226, 327
PkrI	GCNGC	5 cut(s)	385, 532, 549, 640, 643
PleI	GAGTC	2 cut(s)	62, 579
PpsI	GAGTC	2 cut(s)	62, 579
PspN4I	GGNNCC	2 cut(s)	258, 593
PspPI	GGNCC	2 cut(s)	257, 311
PstI	CTGCAG	1 cut(s)	532
PstNI	CAGNNNCTG	1 cut(s)	641
PsuI	RGATCY	1 cut(s)	43
PvuII	CAGCTG	2 cut(s)	386, 638
RruI	TCGCGA	1 cut(s)	242
RsaI	GTAC	3 cut(s)	233, 434, 593
RsaNI	GTAC	3 cut(s)	232, 433, 592
RseI	CAYNNNNRTG	1 cut(s)	212
SatI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
Sau3AI	GATC	5 cut(s)	43, 93, 115, 266, 297
Sau96I	GGNCC	2 cut(s)	257, 311
SchI	GAGTC	2 cut(s)	62, 579
SfaNI	GCATC	1 cut(s)	12
SfcI	CTRYAG	2 cut(s)	528, 534
SinI	GGWCC	1 cut(s)	311
SmiMI	CAYNNNNRTG	1 cut(s)	212
SphI	GCATGC	1 cut(s)	407
Sse9I	AATT	1 cut(s)	479
SsiI	CCGC	1 cut(s)	504
SspMI	CTAG	1 cut(s)	443
TaaI	ACNGT	3 cut(s)	274, 283, 616
TaqI	TCGA	3 cut(s)	71, 269, 363
TasI	AATT	1 cut(s)	479
TatI	WGTACW	1 cut(s)	231
TfiI	GAWTC	3 cut(s)	73, 226, 327
TscAI	CASTG	6 cut(s)	103, 125, 148, 204, 602, 621
TseI	GCWGC	5 cut(s)	383, 530, 547, 638, 641
TspDTI	ATGAA	6 cut(s)	38, 123, 152, 393, 512, 584
TspRI	CASTG	6 cut(s)	103, 125, 148, 204, 602, 621
VpaK11BI	GGWCC	1 cut(s)	311
XapI	RAATTY	1 cut(s)	479
XceI	RCATGY	1 cut(s)	407
XcmI	CCANNNNNNNNNTGG	1 cut(s)	613
XmiI	GTMKAC	2 cut(s)	318, 508
XspI	CTAG	1 cut(s)	443

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