Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0000543

Physical Location & Seq

Genomic Coordinates Reverse (-)

3960551 .. 3963689

Gene Structure 3139 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG054800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1140 bp

ATGGATGAGAGGCCGATTTTCAGAGACATAAGGCGGTATTACTGCGACTACTGTGGAATCTGTAGATCTAAGAAGACTCTGATTGCTTCTCACATCCAGGCTCAGCACAAGGATGAGATGGAAATGGCGAAGGGTCATGAGGAAGTTGTGGTGGAGAAGTCTAATACATGTGAAGAATGTGGTGCTAGTTTCAAGAAACCTGCACATCTGAAGCAGCATATGCAAAGCCATTCCCTTGAGGAATCAACATGTTTAAGAACTAAACCATTTGGATCGCGTGAAGCATTGGATCCCACCAAAGAACTCCAAAATGCGAGAGGGTATGGACTTGAGTGGACCAGTACCAGGGGGGAGACCTCCTGTGAAGCTCCATCAAGTGATCCTCAATCACGCAGTGGTACTTTTGAGAGGCCATATGTTTGCACAATCGATGATTGTCGTTCTACTTATAGAAGAAAGGACCATTTGAACCGTCATCTTCTTCAGCACCAAGGGAAGCTCTTTAAGTGTCCAATTGAGAACTGTAAGAGTGAATTTGCTTTTCAAGGTAACGTGAAGAGGCATGTTGTGGAATTTCACAGTGAGGATTGCCCTTCTACTAGCGTTGAAGGTCAGAAGCAGCATGTGTGCCAGGAACCTGGTTGTGGAAAGGTGTTCAAATTTGCTTCGAAGCTGCGGAAGCACGAGGATTCTCATGTTAAGCTGGACTCAGTGGAGGCCTTCTGCTCTGAACCAGATTGTATGAAATATTTTTCTAATAAGCAATGCCTTAAGGACCATATCCAGGCCTGCCACACTCATATTACTTGTGAGATATGTGGGAAGAAGGAGTGGAAAAAGAACATCAAAAGCCATCTCCGTACTCATGAAGAGGGAGGTTCTTCATTGGAAATTAAATGTGATTATAAGGGTTGTCTTCTCACATTTTCAAAAAAATCAAATCTTCTTCAACACGTGAAGGCTGTACACCTCCAACAAAAACCCTTCGCTTGTAGCTTCTCAGGCTGTGGCAAGACATTCTCGTACAAGCACGTGAGAGATAAGCATGAGAAGTCTGGATGTCATGTATATGCCTATGTGAGTGCCATGTTCTTGGAGCATTCAATCCCTCTTCTACTGGATTTTTACATATATGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000182 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006355 GO:0008097 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0019843 GO:0022613 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0042254 GO:0042273 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071840 GO:0080084 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR zf-C2H2

Protein Analysis

379

Amino Acids

43.56

Weight (kDa)

8.53

Isoelectric Point (pI)

54.87

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

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Orthologous Genes (Group: OG0000543)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G72050 AT1G72050 AT1G72050 AT1G72050
fragaria_vesca	FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g27520 FvH4_1g27520 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190
malus_domestica	MD02G1048300.v1.1 MD15G1186600.v1.1 MD15G1411000.v1.1
prunus_persica	Prupe.1G551600_v2.0.a1 Prupe.1G551600_v2.0.a1 Prupe.1G551600_v2.0.a1 Prupe.1G551600_v2.0.a1 Prupe.7G229900_v2.0.a1 Prupe.7G229900_v2.0.a1
pyrus_communis	pycom02g04050 pycom15g36580
rosa_chinensis	RchiOBHm_Chr2g0090581 RchiOBHm_Chr2g0090591 RchiOBHm_Chr2g0120581 RchiOBHm_Chr5g0055971 RchiOBHm_Chr7g0228681 RchiOBHm_Chr7g0228721 RchiOBHm_Chr7g0228771
rosa_laevigata	RLG00000001547 RLG00000016122 RLG00000035039
rosa_multiflora	Rmu_co8222532.1_g000001 Rmu_co8474195.1_g000001 Rmu_sc0001581.1_g000005 Rmu_sc0004514.1_g000033 Rmu_sc0015624.1_g000002
rosa_roxburghii	Rroxscaffold_1G00024300 Rroxscaffold_2G00151010 Rroxscaffold_3G00230860 Rroxscaffold_3G00230910
rosa_rugosa	Rorug02G0009300 Rorug02G0009300 Rorug05G0296700 Rorug07G0251500 Rorug07G0251600 Rorug07G0251700 Rorug07G0251800
rosa_samantha	Rh2AG054400 Rh2BG053700 Rh2CG055900 Rh2DG054800 Rh5BG378200 Rh5CG401600 Rh7AG403700 Rh7AG404000 Rh7AG404600 Rh7AG405100 Rh7BG384300 Rh7CG422800 Rh7DG399300
rosa_wichuraiana	Rw2G004740 Rw2G022930 Rw5G034520 Rw7G033550 Rw7G033570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	906
Acc36I	ACCTGC	1 cut(s)	208
AccII	CGCG	1 cut(s)	277
AciI	CCGC	2 cut(s)	34, 676
AclWI	GGATC	4 cut(s)	280, 284, 297, 374
AcsI	RAATTY	3 cut(s)	533, 572, 659
AcuI	CTGAAG	2 cut(s)	230, 467
AcvI	CACGTG	2 cut(s)	955, 1033
AdeI	CACNNNGTG	1 cut(s)	395
AfaI	GTAC	5 cut(s)	343, 400, 862, 966, 1025
AfiI	CCNNNNNNNGG	3 cut(s)	345, 644, 784
AflII	CTTAAG	1 cut(s)	770
AflIII	ACRYGT	3 cut(s)	167, 248, 952
AgsI	TTSAA	8 cut(s)	193, 469, 545, 608, 658, 930, 950, 1104
AjnI	CCWGG	5 cut(s)	96, 344, 630, 637, 783
AluBI	AGCT	5 cut(s)	368, 499, 673, 703, 996
AluI	AGCT	5 cut(s)	368, 499, 673, 703, 996
Alw26I	GTCTC	2 cut(s)	18, 347
AlwI	GGATC	4 cut(s)	280, 284, 297, 374
AoxI	GGCC	4 cut(s)	11, 410, 717, 786
ApeKI	GCWGC	3 cut(s)	214, 619, 673
ApoI	RAATTY	3 cut(s)	533, 572, 659
AspS9I	GGNCC	3 cut(s)	336, 460, 775
AsuII	TTCGAA	1 cut(s)	668
AvaII	GGWCC	3 cut(s)	336, 460, 775
BamHI	GGATCC	1 cut(s)	289
BauI	CACGAG	1 cut(s)	683
BbrPI	CACGTG	2 cut(s)	955, 1033
BbsI	GAAGAC	2 cut(s)	80, 908
BbvI	GCAGC	3 cut(s)	226, 631, 660
BccI	CCATC	3 cut(s)	112, 379, 861
BciT130I	CCWGG	5 cut(s)	98, 346, 632, 639, 785
BcoDI	GTCTC	2 cut(s)	18, 347
BfaI	CTAG	2 cut(s)	186, 600
BfmI	CTRYAG	1 cut(s)	61
BfrI	CTTAAG	1 cut(s)	770
BfuAI	ACCTGC	1 cut(s)	208
BglII	AGATCT	1 cut(s)	65
BisI	GCNGC	3 cut(s)	215, 620, 674
BlpI	GCTNAGC	1 cut(s)	102
BlsI	GCNGC	3 cut(s)	216, 621, 675
Bme1390I	CCNGG	5 cut(s)	98, 346, 632, 639, 785
Bme18I	GGWCC	3 cut(s)	336, 460, 775
BmgT120I	GGNCC	3 cut(s)	336, 460, 775
BmiI	GGNNCC	2 cut(s)	291, 636
BmrFI	CCNGG	5 cut(s)	98, 346, 632, 639, 785
BpiI	GAAGAC	2 cut(s)	80, 908
Bpu1102I	GCTNAGC	1 cut(s)	102
Bpu14I	TTCGAA	1 cut(s)	668
BpuEI	CTTGAG	2 cut(s)	257, 350
Bsa29I	ATCGAT	1 cut(s)	429
BsaAI	YACGTR	2 cut(s)	955, 1033
BsaI	GGTCTC	1 cut(s)	347
BsaJI	CCNNGG	2 cut(s)	345, 490
Bsc4I	CCNNNNNNNGG	3 cut(s)	345, 644, 784
Bse1I	ACTGG	2 cut(s)	339, 1122
Bse3DI	GCAATG	1 cut(s)	770
BseBI	CCWGG	5 cut(s)	98, 346, 632, 639, 785
BseCI	ATCGAT	1 cut(s)	429
BseDI	CCNNGG	2 cut(s)	345, 490
BseGI	GGATG	4 cut(s)	10, 93, 118, 1064
BseLI	CCNNNNNNNGG	3 cut(s)	345, 644, 784
BseMI	GCAATG	1 cut(s)	770
BseMII	CTCAG	3 cut(s)	116, 723, 1014
BseNI	ACTGG	2 cut(s)	339, 1122
BseXI	GCAGC	3 cut(s)	226, 631, 660
BsgI	GTGCAG	1 cut(s)	186
Bsh1236I	CGCG	1 cut(s)	277
BshFI	GGCC	4 cut(s)	13, 412, 719, 788
BshVI	ATCGAT	1 cut(s)	429
BslI	CCNNNNNNNGG	3 cut(s)	345, 644, 784
BsmAI	GTCTC	2 cut(s)	18, 347
BsmI	GAATGC	1 cut(s)	1099
BsnI	GGCC	4 cut(s)	13, 412, 719, 788
Bso31I	GGTCTC	1 cut(s)	347
Bsp119I	TTCGAA	1 cut(s)	668
Bsp1407I	TGTACA	1 cut(s)	964
Bsp143I	GATC	4 cut(s)	65, 272, 289, 379
Bsp1720I	GCTNAGC	1 cut(s)	102
BspACI	CCGC	2 cut(s)	34, 676
BspANI	GGCC	4 cut(s)	13, 412, 719, 788
BspCNI	CTCAG	3 cut(s)	115, 722, 1013
BspDI	ATCGAT	1 cut(s)	429
BspFNI	CGCG	1 cut(s)	277
BspHI	TCATGA	2 cut(s)	136, 865
BspLI	GGNNCC	2 cut(s)	291, 636
BspMI	ACCTGC	1 cut(s)	208
BspPI	GGATC	4 cut(s)	280, 284, 297, 374
BspT104I	TTCGAA	1 cut(s)	668
BspTI	CTTAAG	1 cut(s)	770
BspTNI	GGTCTC	1 cut(s)	347
BsrDI	GCAATG	1 cut(s)	770
BsrGI	TGTACA	1 cut(s)	964
BsrI	ACTGG	2 cut(s)	339, 1122
BssECI	CCNNGG	2 cut(s)	345, 490
BssMI	GATC	4 cut(s)	65, 272, 289, 379
BssSI	CACGAG	1 cut(s)	683
BssT1I	CCWWGG	1 cut(s)	490
Bst2BI	CACGAG	1 cut(s)	683
Bst2UI	CCWGG	5 cut(s)	98, 346, 632, 639, 785
Bst4CI	ACNGT	4 cut(s)	53, 473, 524, 581
Bst6I	CTCTTC	3 cut(s)	551, 864, 1116
BstAFI	CTTAAG	1 cut(s)	770
BstAPI	GCANNNNNTGC	1 cut(s)	220
BstAUI	TGTACA	1 cut(s)	964
BstBAI	YACGTR	2 cut(s)	955, 1033
BstBI	TTCGAA	1 cut(s)	668
BstC8I	GCNNGC	1 cut(s)	790
BstDEI	CTNAG	4 cut(s)	69, 102, 709, 1000
BstF5I	GGATG	4 cut(s)	10, 93, 118, 1064
BstFNI	CGCG	1 cut(s)	277
BstKTI	GATC	4 cut(s)	68, 275, 292, 382
BstMAI	GTCTC	2 cut(s)	18, 347
BstMBI	GATC	4 cut(s)	65, 272, 289, 379
BstMWI	GCNNNNNNNGC	3 cut(s)	220, 679, 1002
BstNI	CCWGG	5 cut(s)	98, 346, 632, 639, 785
BstNSI	RCATGY	4 cut(s)	171, 252, 566, 626
BstSCI	CCNGG	5 cut(s)	96, 344, 630, 637, 783
BstSFI	CTRYAG	1 cut(s)	61
BstUI	CGCG	1 cut(s)	277
BstV1I	GCAGC	3 cut(s)	226, 631, 660
BstV2I	GAAGAC	2 cut(s)	80, 908
BstX2I	RGATCY	2 cut(s)	65, 289
BstXI	CCANNNNNNTGG	2 cut(s)	638, 1093
BstYI	RGATCY	2 cut(s)	65, 289
Bsu15I	ATCGAT	1 cut(s)	429
BsuRI	GGCC	4 cut(s)	13, 412, 719, 788
BsuTUI	ATCGAT	1 cut(s)	429
BtsCI	GGATG	4 cut(s)	10, 93, 118, 1064
BtsI	GCAGTG	1 cut(s)	400
BtsIMutI	CAGTG	3 cut(s)	400, 586, 717
BveI	ACCTGC	1 cut(s)	208
Cac8I	GCNNGC	1 cut(s)	790
CciI	TCATGA	2 cut(s)	136, 865
Cfr13I	GGNCC	3 cut(s)	336, 460, 775
ClaI	ATCGAT	1 cut(s)	429
CsiI	ACCWGGT	1 cut(s)	637
Csp6I	GTAC	5 cut(s)	342, 399, 861, 965, 1024
CviQI	GTAC	5 cut(s)	342, 399, 861, 965, 1024
DdeI	CTNAG	4 cut(s)	69, 102, 709, 1000
DpnI	GATC	4 cut(s)	67, 274, 291, 381
DpnII	GATC	4 cut(s)	65, 272, 289, 379
DraIII	CACNNNGTG	1 cut(s)	395
Eam1104I	CTCTTC	3 cut(s)	551, 864, 1116
EarI	CTCTTC	3 cut(s)	551, 864, 1116
Eco130I	CCWWGG	1 cut(s)	490
Eco147I	AGGCCT	2 cut(s)	719, 788
Eco31I	GGTCTC	1 cut(s)	347
Eco47I	GGWCC	3 cut(s)	336, 460, 775
Eco57I	CTGAAG	2 cut(s)	230, 467
Eco72I	CACGTG	2 cut(s)	955, 1033
EcoRII	CCWGG	5 cut(s)	96, 344, 630, 637, 783
EcoT14I	CCWWGG	1 cut(s)	490
ErhI	CCWWGG	1 cut(s)	490
FauNDI	CATATG	2 cut(s)	219, 415
Fnu4HI	GCNGC	3 cut(s)	215, 620, 674
FokI	GGATG	4 cut(s)	17, 80, 125, 1071
Fsp4HI	GCNGC	3 cut(s)	215, 620, 674
FspBI	CTAG	2 cut(s)	186, 600
GluI	GCNGC	3 cut(s)	215, 620, 674
HaeIII	GGCC	4 cut(s)	13, 412, 719, 788
HinfI	GANTC	5 cut(s)	57, 76, 242, 689, 707
Hpy166II	GTNNAC	2 cut(s)	336, 967
Hpy188I	TCNGA	5 cut(s)	23, 81, 210, 615, 730
Hpy188III	TCNNGA	4 cut(s)	137, 193, 866, 1056
Hpy8I	GTNNAC	2 cut(s)	336, 967
HpyAV	CCTTC	7 cut(s)	124, 602, 603, 730, 820, 952, 994
HpyCH4III	ACNGT	4 cut(s)	53, 473, 524, 581
HpyCH4IV	ACGT	3 cut(s)	552, 954, 1032
HpyCH4V	TGCA	3 cut(s)	203, 223, 423
HpyF10VI	GCNNNNNNNGC	3 cut(s)	220, 679, 1002
HpyF3I	CTNAG	4 cut(s)	69, 102, 709, 1000
HpySE526I	ACGT	3 cut(s)	552, 954, 1032
Kzo9I	GATC	4 cut(s)	65, 272, 289, 379
LmnI	GCTCC	2 cut(s)	373, 1096
Lsp1109I	GCAGC	3 cut(s)	226, 631, 660
MabI	ACCWGGT	1 cut(s)	637
MaeI	CTAG	2 cut(s)	186, 600
MaeII	ACGT	3 cut(s)	552, 954, 1032
MaeIII	GTNAC	1 cut(s)	548
MalI	GATC	4 cut(s)	67, 274, 291, 381
MboI	GATC	4 cut(s)	65, 272, 289, 379
MfeI	CAATTG	1 cut(s)	513
MflI	RGATCY	2 cut(s)	65, 289
MluCI	AATT	5 cut(s)	513, 533, 572, 659, 891
MlyI	GAGTC	2 cut(s)	70, 701
MmeI	TCCRAC	1 cut(s)	997
MseI	TTAA	5 cut(s)	254, 504, 699, 771, 894
MslI	CAYNNNNRTG	2 cut(s)	111, 1068
MspCI	CTTAAG	1 cut(s)	770
MspR9I	CCNGG	5 cut(s)	98, 346, 632, 639, 785
MunI	CAATTG	1 cut(s)	513
Mva1269I	GAATGC	1 cut(s)	1099
MvaI	CCWGG	5 cut(s)	98, 346, 632, 639, 785
MvnI	CGCG	1 cut(s)	277
MwoI	GCNNNNNNNGC	3 cut(s)	220, 679, 1002
NdeI	CATATG	2 cut(s)	219, 415
NdeII	GATC	4 cut(s)	65, 272, 289, 379
NlaIV	GGNNCC	2 cut(s)	291, 636
NspI	RCATGY	4 cut(s)	171, 252, 566, 626
NspV	TTCGAA	1 cut(s)	668
PagI	TCATGA	2 cut(s)	136, 865
PceI	AGGCCT	2 cut(s)	719, 788
PciI	ACATGT	2 cut(s)	167, 248
PctI	GAATGC	1 cut(s)	1099
PfeI	GAWTC	3 cut(s)	57, 242, 689
PkrI	GCNGC	3 cut(s)	216, 621, 675
PleI	GAGTC	2 cut(s)	70, 701
PmaCI	CACGTG	2 cut(s)	955, 1033
PmlI	CACGTG	2 cut(s)	955, 1033
PpsI	GAGTC	2 cut(s)	70, 701
Ppu21I	YACGTR	2 cut(s)	955, 1033
PscI	ACATGT	2 cut(s)	167, 248
PsiI	TTATAA	1 cut(s)	906
Psp6I	CCWGG	5 cut(s)	96, 344, 630, 637, 783
PspCI	CACGTG	2 cut(s)	955, 1033
PspGI	CCWGG	5 cut(s)	96, 344, 630, 637, 783
PspN4I	GGNNCC	2 cut(s)	291, 636
PspPI	GGNCC	3 cut(s)	336, 460, 775
PsuI	RGATCY	2 cut(s)	65, 289
RsaI	GTAC	5 cut(s)	343, 400, 862, 966, 1025
RsaNI	GTAC	5 cut(s)	342, 399, 861, 965, 1024
RseI	CAYNNNNRTG	2 cut(s)	111, 1068
SaqAI	TTAA	5 cut(s)	254, 504, 699, 771, 894
SatI	GCNGC	3 cut(s)	215, 620, 674
Sau3AI	GATC	4 cut(s)	65, 272, 289, 379
Sau96I	GGNCC	3 cut(s)	336, 460, 775
SchI	GAGTC	2 cut(s)	70, 701
ScrFI	CCNGG	5 cut(s)	98, 346, 632, 639, 785
SexAI	ACCWGGT	1 cut(s)	637
SfcI	CTRYAG	1 cut(s)	61
SfuI	TTCGAA	1 cut(s)	668
SinI	GGWCC	3 cut(s)	336, 460, 775
SmiMI	CAYNNNNRTG	2 cut(s)	111, 1068
SmlI	CTYRAG	3 cut(s)	236, 329, 770
SmoI	CTYRAG	3 cut(s)	236, 329, 770
Sse9I	AATT	5 cut(s)	513, 533, 572, 659, 891
SseBI	AGGCCT	2 cut(s)	719, 788
SsiI	CCGC	2 cut(s)	34, 676
SspI	AATATT	1 cut(s)	749
SspMI	CTAG	2 cut(s)	186, 600
StuI	AGGCCT	2 cut(s)	719, 788
StyD4I	CCNGG	5 cut(s)	96, 344, 630, 637, 783
StyI	CCWWGG	1 cut(s)	490
TaaI	ACNGT	4 cut(s)	53, 473, 524, 581
TaiI	ACGT	3 cut(s)	555, 957, 1035
TaqI	TCGA	2 cut(s)	429, 668
TasI	AATT	5 cut(s)	513, 533, 572, 659, 891
TatI	WGTACW	1 cut(s)	964
TfiI	GAWTC	3 cut(s)	57, 242, 689
Tru1I	TTAA	5 cut(s)	254, 504, 699, 771, 894
Tru9I	TTAA	5 cut(s)	254, 504, 699, 771, 894
TscAI	CASTG	3 cut(s)	400, 586, 717
TseI	GCWGC	3 cut(s)	214, 619, 673
TspDTI	ATGAA	3 cut(s)	758, 873, 882
TspGWI	ACGGA	1 cut(s)	848
TspRI	CASTG	3 cut(s)	400, 586, 717
Vha464I	CTTAAG	1 cut(s)	770
VpaK11BI	GGWCC	3 cut(s)	336, 460, 775
XapI	RAATTY	3 cut(s)	533, 572, 659
XceI	RCATGY	4 cut(s)	171, 252, 566, 626
XspI	CTAG	2 cut(s)	186, 600

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