Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0016829

Physical Location & Seq

Genomic Coordinates Reverse (-)

61175543 .. 61177488

Gene Structure 1946 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG298700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 777 bp

ATGTATCATCCACTTCCGATGATGCAGTATAAGAGAGTTGTGGATCTTCATAACTTGCTCGGAGGAGACTCGAATCAGACTAGTCTGGGTGGGATCAGTGACGAGAATGAACGAGACCGCTGGGGAAAGAAGCTTATGAACACTGACGCAAGCAGAGCTAAGAAGGAGTTGAAGCGCCTGAGGGTTTTGAGGATGGCAGTGATTTACATGATGATGTGTGTGCTGAATCTGTACGAGTACACGAAGAAGAACTTGGGGCCTCAGAGATCGACTGTGTGGACTGTGGAGGTTGCTATGATCACTATTGTTGGTCCAGTCTACCAGAGATTCAAGGGAGTGCCTGATGATTTCTTTGCTTTACTCGACACAAAGATTGATGAAGCAGCTGACAAGTTTGATAAGCATGCTCCTCCTTTGGCTAAGCAGGTGGTGTACCTGACTCTGGGTTCTATCCAGAAAGCATTGAAAAAGACCCAAGCATTTGTGAACGAGACTCAGGCTGGCGGTCTACACACAGCTATCCATTCTGCAGCTACAGAATATAAGCTGCTTCTCTTCAACCAATCCATGAAGTTTTGGGTTGGACTCGAGTACCAGTGTCCTCCCATACACACAGTGGCAGAGAAGGCTACACCAGCTGCTGCTTGCTTGTCCCGGAAATACAACAAAGTGGTAAGAGACTTGAACCTGAAGGGTTACACTATCTTTGGATATTTACCTTTGGTTCCGATCGATCAGATATCAACAGCATTTAATAAGGCGAGGCAGAGAAGATAG

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

258

Amino Acids

29.33

Weight (kDa)

9.63

Isoelectric Point (pI)

30.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
REF	PF05755	53 - 252	1.2e-60	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)

Image

Tree File

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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
AccI	GTMKAC	2 cut(s)	318, 508
AciI	CCGC	2 cut(s)	118, 504
AclWI	GGATC	2 cut(s)	51, 101
AcuI	CTGAAG	1 cut(s)	710
AdeI	CACNNNGTG	1 cut(s)	616
AfaI	GTAC	4 cut(s)	233, 239, 434, 593
AfiI	CCNNNNNNNGG	1 cut(s)	442
AgsI	TTSAA	5 cut(s)	172, 331, 466, 559, 685
AhlI	ACTAGT	1 cut(s)	80
AjuI	GAANNNNNNNTTGG	2 cut(s)	236, 268
AluBI	AGCT	7 cut(s)	133, 158, 386, 518, 533, 547, 638
AluI	AGCT	7 cut(s)	133, 158, 386, 518, 533, 547, 638
Alw26I	GTCTC	4 cut(s)	60, 108, 485, 672
AlwI	GGATC	2 cut(s)	51, 101
AlwNI	CAGNNNCTG	1 cut(s)	641
Ama87I	CYCGRG	1 cut(s)	587
AoxI	GGCC	1 cut(s)	257
ApeKI	GCWGC	5 cut(s)	383, 530, 547, 638, 641
AspLEI	GCGC	1 cut(s)	177
AspS9I	GGNCC	2 cut(s)	257, 311
AsuC2I	CCSGG	1 cut(s)	655
AvaI	CYCGRG	1 cut(s)	587
AvaII	GGWCC	1 cut(s)	311
AxyI	CCTNAGG	1 cut(s)	179
BaeI	ACNNNNGTAYC	2 cut(s)	575, 608
BbvI	GCAGC	5 cut(s)	395, 534, 542, 625, 628
BccI	CCATC	1 cut(s)	187
BclI	TGATCA	1 cut(s)	297
BcnI	CCSGG	1 cut(s)	655
BcoDI	GTCTC	4 cut(s)	60, 108, 485, 672
BcuI	ACTAGT	1 cut(s)	80
BfaI	CTAG	1 cut(s)	81
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
Bme1390I	CCNGG	1 cut(s)	655
Bme18I	GGWCC	1 cut(s)	311
BmeT110I	CYCGRG	1 cut(s)	587
BmgT120I	GGNCC	2 cut(s)	257, 311
BmiI	GGNNCC	2 cut(s)	258, 726
BmrFI	CCNGG	1 cut(s)	655
BmsI	GCATC	1 cut(s)	12
Bpu1102I	GCTNAGC	1 cut(s)	420
BpuMI	CCSGG	1 cut(s)	655
Bsa29I	ATCGAT	1 cut(s)	732
BsaI	GGTCTC	1 cut(s)	108
Bsc4I	CCNNNNNNNGG	1 cut(s)	442
Bse1I	ACTGG	2 cut(s)	314, 595
Bse21I	CCTNAGG	1 cut(s)	179
BseCI	ATCGAT	1 cut(s)	732
BseGI	GGATG	2 cut(s)	7, 198
BseLI	CCNNNNNNNGG	1 cut(s)	442
BseMII	CTCAG	3 cut(s)	170, 275, 509
BseNI	ACTGG	2 cut(s)	314, 595
BseRI	GAGGAG	2 cut(s)	78, 399
BseXI	GCAGC	5 cut(s)	395, 534, 542, 625, 628
BseYI	CCCAGC	1 cut(s)	120
Bsh1285I	CGRYCG	1 cut(s)	732
BshFI	GGCC	1 cut(s)	259
BshVI	ATCGAT	1 cut(s)	732
BsiEI	CGRYCG	1 cut(s)	732
BsiHKCI	CYCGRG	1 cut(s)	587
BsiSI	CCGG	1 cut(s)	655
BslFI	GGGAC	1 cut(s)	637
BslI	CCNNNNNNNGG	1 cut(s)	442
BsmAI	GTCTC	4 cut(s)	60, 108, 485, 672
BsmFI	GGGAC	1 cut(s)	637
BsnI	GGCC	1 cut(s)	259
Bso31I	GGTCTC	1 cut(s)	108
BsoBI	CYCGRG	1 cut(s)	587
Bsp143I	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
Bsp1720I	GCTNAGC	1 cut(s)	420
BspACI	CCGC	2 cut(s)	118, 504
BspANI	GGCC	1 cut(s)	259
BspCNI	CTCAG	3 cut(s)	171, 274, 508
BspDI	ATCGAT	1 cut(s)	732
BspLI	GGNNCC	2 cut(s)	258, 726
BspMAI	CTGCAG	1 cut(s)	532
BspMI	ACCTGC	1 cut(s)	415
BspPI	GGATC	2 cut(s)	51, 101
BspTNI	GGTCTC	1 cut(s)	108
BsrI	ACTGG	2 cut(s)	314, 595
BssMI	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
Bst4CI	ACNGT	3 cut(s)	274, 283, 616
Bst6I	CTCTTC	1 cut(s)	560
BstC8I	GCNNGC	4 cut(s)	151, 405, 502, 646
BstDEI	CTNAG	5 cut(s)	159, 179, 261, 420, 495
BstF5I	GGATG	2 cut(s)	7, 198
BstH2I	RGCGCY	1 cut(s)	178
BstHHI	GCGC	1 cut(s)	177
BstKTI	GATC	6 cut(s)	46, 96, 269, 300, 732, 736
BstMAI	GTCTC	4 cut(s)	60, 108, 485, 672
BstMBI	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
BstMCI	CGRYCG	1 cut(s)	732
BstMWI	GCNNNNNNNGC	3 cut(s)	155, 626, 635
BstNSI	RCATGY	1 cut(s)	407
BstSCI	CCNGG	1 cut(s)	653
BstSFI	CTRYAG	2 cut(s)	528, 534
BstV1I	GCAGC	5 cut(s)	395, 534, 542, 625, 628
BstX2I	RGATCY	1 cut(s)	43
BstYI	RGATCY	1 cut(s)	43
Bsu15I	ATCGAT	1 cut(s)	732
Bsu36I	CCTNAGG	1 cut(s)	179
BsuRI	GGCC	1 cut(s)	259
BsuTUI	ATCGAT	1 cut(s)	732
BtsCI	GGATG	2 cut(s)	7, 198
BtsI	GCAGTG	1 cut(s)	204
BtsIMutI	CAGTG	5 cut(s)	103, 141, 204, 602, 621
BveI	ACCTGC	1 cut(s)	415
Cac8I	GCNNGC	4 cut(s)	151, 405, 502, 646
CaiI	CAGNNNCTG	1 cut(s)	641
CfoI	GCGC	1 cut(s)	177
Cfr13I	GGNCC	2 cut(s)	257, 311
ClaI	ATCGAT	1 cut(s)	732
CseI	GACGC	1 cut(s)	155
Csp6I	GTAC	4 cut(s)	232, 238, 433, 592
CviAII	CATG	3 cut(s)	208, 404, 568
CviQI	GTAC	4 cut(s)	232, 238, 433, 592
DdeI	CTNAG	5 cut(s)	159, 179, 261, 420, 495
DpnI	GATC	6 cut(s)	45, 95, 268, 299, 731, 735
DpnII	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
DraIII	CACNNNGTG	1 cut(s)	616
Eam1104I	CTCTTC	1 cut(s)	560
EarI	CTCTTC	1 cut(s)	560
Eco31I	GGTCTC	1 cut(s)	108
Eco32I	GATATC	1 cut(s)	741
Eco47I	GGWCC	1 cut(s)	311
Eco57I	CTGAAG	1 cut(s)	710
Eco81I	CCTNAGG	1 cut(s)	179
Eco88I	CYCGRG	1 cut(s)	587
EcoO109I	RGGNCCY	1 cut(s)	257
EcoRV	GATATC	1 cut(s)	741
FaeI	CATG	3 cut(s)	211, 407, 571
FaiI	YATR	9 cut(s)	30, 51, 137, 209, 296, 405, 543, 569, 608
FalI	AAGNNNNNCTT	2 cut(s)	236, 268
FaqI	GGGAC	1 cut(s)	637
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)	81
GlaI	GCGC	1 cut(s)	176
GluI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
GsaI	CCCAGC	1 cut(s)	124
HaeII	RGCGCY	1 cut(s)	178
HaeIII	GGCC	1 cut(s)	259
HapII	CCGG	1 cut(s)	655
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
HindIII	AAGCTT	1 cut(s)	131
HinfI	GANTC	7 cut(s)	68, 73, 226, 327, 439, 493, 585
HpaII	CCGG	1 cut(s)	655
Hpy166II	GTNNAC	6 cut(s)	240, 279, 319, 433, 487, 509
Hpy188I	TCNGA	6 cut(s)	18, 62, 78, 264, 729, 738
Hpy188III	TCNNGA	1 cut(s)	454
Hpy8I	GTNNAC	6 cut(s)	240, 279, 319, 433, 487, 509
HpyAV	CCTTC	3 cut(s)	157, 619, 685
HpyCH4III	ACNGT	3 cut(s)	274, 283, 616
HpyCH4V	TGCA	2 cut(s)	25, 530
HpyF10VI	GCNNNNNNNGC	3 cut(s)	155, 626, 635
HpyF3I	CTNAG	5 cut(s)	159, 179, 261, 420, 495
Hsp92II	CATG	3 cut(s)	211, 407, 571
HspAI	GCGC	1 cut(s)	175
Ksp22I	TGATCA	1 cut(s)	297
Kzo9I	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
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)	81
MaeIII	GTNAC	2 cut(s)	98, 695
MalI	GATC	6 cut(s)	45, 95, 268, 299, 731, 735
MboI	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
MboII	GAAGA	4 cut(s)	38, 256, 259, 547
MflI	RGATCY	1 cut(s)	43
MlyI	GAGTC	4 cut(s)	62, 433, 487, 579
MmeI	TCCRAC	1 cut(s)	562
MnlI	CCTC	8 cut(s)	56, 174, 183, 270, 280, 420, 612, 756
MseI	TTAA	1 cut(s)	753
MslI	CAYNNNNRTG	1 cut(s)	212
MspA1I	CMGCKG	3 cut(s)	120, 386, 638
MspI	CCGG	1 cut(s)	655
MspR9I	CCNGG	1 cut(s)	655
MwoI	GCNNNNNNNGC	3 cut(s)	155, 626, 635
NciI	CCSGG	1 cut(s)	655
NdeII	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
NlaIII	CATG	3 cut(s)	211, 407, 571
NlaIV	GGNNCC	2 cut(s)	258, 726
NmuCI	GTSAC	1 cut(s)	98
NspI	RCATGY	1 cut(s)	407
PaeI	GCATGC	1 cut(s)	407
PaeR7I	CTCGAG	1 cut(s)	587
PaqCI	CACCTGC	1 cut(s)	415
PfeI	GAWTC	3 cut(s)	73, 226, 327
PfoI	TCCNGGA	1 cut(s)	653
PkrI	GCNGC	5 cut(s)	385, 532, 549, 640, 643
Ple19I	CGATCG	1 cut(s)	732
PleI	GAGTC	4 cut(s)	62, 433, 487, 579
PpsI	GAGTC	4 cut(s)	62, 433, 487, 579
PspFI	CCCAGC	1 cut(s)	120
PspN4I	GGNNCC	2 cut(s)	258, 726
PspPI	GGNCC	2 cut(s)	257, 311
PspXI	VCTCGAGB	1 cut(s)	587
PstI	CTGCAG	1 cut(s)	532
PstNI	CAGNNNCTG	1 cut(s)	641
PsuI	RGATCY	1 cut(s)	43
PvuI	CGATCG	1 cut(s)	732
PvuII	CAGCTG	2 cut(s)	386, 638
RsaI	GTAC	4 cut(s)	233, 239, 434, 593
RsaNI	GTAC	4 cut(s)	232, 238, 433, 592
RseI	CAYNNNNRTG	1 cut(s)	212
SaqAI	TTAA	1 cut(s)	753
SatI	GCNGC	5 cut(s)	384, 531, 548, 639, 642
Sau3AI	GATC	6 cut(s)	43, 93, 266, 297, 729, 733
Sau96I	GGNCC	2 cut(s)	257, 311
SchI	GAGTC	4 cut(s)	62, 433, 487, 579
ScrFI	CCNGG	1 cut(s)	655
SfaNI	GCATC	1 cut(s)	12
SfcI	CTRYAG	2 cut(s)	528, 534
Sfr274I	CTCGAG	1 cut(s)	587
SinI	GGWCC	1 cut(s)	311
SlaI	CTCGAG	1 cut(s)	587
SmiMI	CAYNNNNRTG	1 cut(s)	212
SmlI	CTYRAG	1 cut(s)	587
SmoI	CTYRAG	1 cut(s)	587
SpeI	ACTAGT	1 cut(s)	80
SphI	GCATGC	1 cut(s)	407
SsiI	CCGC	2 cut(s)	118, 504
SspMI	CTAG	1 cut(s)	81
StyD4I	CCNGG	1 cut(s)	653
TaaI	ACNGT	3 cut(s)	274, 283, 616
TaqI	TCGA	5 cut(s)	71, 269, 363, 588, 732
TatI	WGTACW	1 cut(s)	237
TfiI	GAWTC	3 cut(s)	73, 226, 327
Tru1I	TTAA	1 cut(s)	753
Tru9I	TTAA	1 cut(s)	753
TscAI	CASTG	5 cut(s)	103, 148, 204, 602, 621
TseFI	GTSAC	1 cut(s)	98
TseI	GCWGC	5 cut(s)	383, 530, 547, 638, 641
Tsp45I	GTSAC	1 cut(s)	98
TspDTI	ATGAA	5 cut(s)	38, 123, 152, 393, 584
TspRI	CASTG	5 cut(s)	103, 148, 204, 602, 621
VpaK11BI	GGWCC	1 cut(s)	311
XceI	RCATGY	1 cut(s)	407
XcmI	CCANNNNNNNNNTGG	1 cut(s)	613
XhoI	CTCGAG	1 cut(s)	587
XmiI	GTMKAC	2 cut(s)	318, 508
XspI	CTAG	1 cut(s)	81

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