Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0000543

Physical Location & Seq

Genomic Coordinates Reverse (-)

53417119 .. 53429475

Gene Structure 12357 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG401600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGTATGCCAGGAACCGGGCTGTGGAAACGTGTTCAAATTTGCTTCAGAGCTGCGGAAGCACGAGAACTCTCATGAAATCAAATCTTCTTCAACATGTGAAGGCTGTACACCTCCAACAGAAATCCTTCGCTTGTAGCTTCTCAGGCTGTGGTAAGACATTCTCATACAAGCACGTGAGAGATAAGCATGAGAAGTCTGGATATCATGTATATGCCTATGGGGATTTTGAAGAGGCTGATGAGCAATTCCGGTCTAGGCCAAGGGGTGGGCGTAAGAGGAAGTGTCTGACAGTAGAAATGCTTGTACGAAAAAGGGTTACTCCACCAGATCAATTCGGCCCAGAGACAGAGTTCCTTTCCCAGTTCTTCTCACAAGAGGAGGAAGACGAAGAGGACAGATTTGATGTTGAAGATGTGATGTTACTTAAGGAGTTGTTCAGATTGAGTGGAATACTCTATGATCCTGGTTCACCTGAAGTTTTGGATTCGGCATTTGAGGATGTCACTTCACAGATAATTATCCAATTGCAGCACATGGTGGAAGAGCTTGTATCCACTGTAGAGGAGGAACGTATGAGCTGA

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

193

Amino Acids

22.33

Weight (kDa)

5.33

Isoelectric Point (pI)

64.18

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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB7I	CCANNNNNTGG	1 cut(s)	266
AciI	CCGC	1 cut(s)	54
AclWI	GGATC	1 cut(s)	455
AcsI	RAATTY	1 cut(s)	37
AcuI	CTGAAG	2 cut(s)	29, 495
AcvI	CACGTG	1 cut(s)	175
AdeI	CACNNNGTG	1 cut(s)	538
AfaI	GTAC	2 cut(s)	108, 306
AfiI	CCNNNNNNNGG	3 cut(s)	15, 22, 266
AflII	CTTAAG	1 cut(s)	425
AflIII	ACRYGT	2 cut(s)	29, 94
AgsI	TTSAA	4 cut(s)	36, 92, 230, 410
AjnI	CCWGG	2 cut(s)	8, 463
AluBI	AGCT	4 cut(s)	51, 138, 547, 579
AluI	AGCT	4 cut(s)	51, 138, 547, 579
Alw26I	GTCTC	1 cut(s)	338
AlwI	GGATC	1 cut(s)	455
AoxI	GGCC	2 cut(s)	257, 337
ApeKI	GCWGC	2 cut(s)	51, 529
ApoI	RAATTY	1 cut(s)	37
Asp700I	GAANNNNTTC	1 cut(s)	125
AspS9I	GGNCC	1 cut(s)	338
AsuC2I	CCSGG	1 cut(s)	17
AsuHPI	GGTGA	1 cut(s)	462
BauI	CACGAG	1 cut(s)	61
BbrPI	CACGTG	1 cut(s)	175
BbsI	GAAGAC	1 cut(s)	390
BbvI	GCAGC	2 cut(s)	38, 541
BciT130I	CCWGG	2 cut(s)	10, 465
BciVI	GTATCC	1 cut(s)	562
BcnI	CCSGG	1 cut(s)	17
BcoDI	GTCTC	1 cut(s)	338
BfaI	CTAG	1 cut(s)	255
BfmI	CTRYAG	1 cut(s)	558
BfrI	CTTAAG	1 cut(s)	425
BfuI	GTATCC	1 cut(s)	562
BisI	GCNGC	2 cut(s)	52, 530
BlsI	GCNGC	2 cut(s)	53, 531
Bme1390I	CCNGG	3 cut(s)	10, 17, 465
BmgT120I	GGNCC	1 cut(s)	338
BmiI	GGNNCC	1 cut(s)	14
BmrFI	CCNGG	3 cut(s)	10, 17, 465
BmrI	ACTGGG	1 cut(s)	355
BmuI	ACTGGG	1 cut(s)	355
BpiI	GAAGAC	1 cut(s)	390
BpuMI	CCSGG	1 cut(s)	17
BsaAI	YACGTR	1 cut(s)	175
BsaBI	GATNNNNATC	1 cut(s)	518
BsaJI	CCNNGG	1 cut(s)	260
BsaWI	WCCGGW	1 cut(s)	249
Bsc4I	CCNNNNNNNGG	3 cut(s)	15, 22, 266
Bse1I	ACTGG	1 cut(s)	361
Bse8I	GATNNNNATC	1 cut(s)	518
BseBI	CCWGG	2 cut(s)	10, 465
BseDI	CCNNGG	1 cut(s)	260
BseGI	GGATG	1 cut(s)	505
BseJI	GATNNNNATC	1 cut(s)	518
BseLI	CCNNNNNNNGG	3 cut(s)	15, 22, 266
BseMII	CTCAG	1 cut(s)	156
BseNI	ACTGG	1 cut(s)	361
BseRI	GAGGAG	2 cut(s)	392, 578
BseXI	GCAGC	2 cut(s)	38, 541
BshFI	GGCC	2 cut(s)	259, 339
BsiSI	CCGG	2 cut(s)	16, 250
BslI	CCNNNNNNNGG	3 cut(s)	15, 22, 266
BsmAI	GTCTC	1 cut(s)	338
BsnI	GGCC	2 cut(s)	259, 339
Bsp1407I	TGTACA	1 cut(s)	106
Bsp143I	GATC	2 cut(s)	328, 460
BspACI	CCGC	1 cut(s)	54
BspANI	GGCC	2 cut(s)	259, 339
BspCNI	CTCAG	1 cut(s)	155
BspHI	TCATGA	1 cut(s)	72
BspLI	GGNNCC	1 cut(s)	14
BspPI	GGATC	1 cut(s)	455
BspQI	GCTCTTC	1 cut(s)	537
BspTI	CTTAAG	1 cut(s)	425
BsrGI	TGTACA	1 cut(s)	106
BsrI	ACTGG	1 cut(s)	361
BssECI	CCNNGG	1 cut(s)	260
BssMI	GATC	2 cut(s)	328, 460
BssSI	CACGAG	1 cut(s)	61
BssT1I	CCWWGG	1 cut(s)	260
Bst2BI	CACGAG	1 cut(s)	61
Bst2UI	CCWGG	2 cut(s)	10, 465
Bst4CI	ACNGT	2 cut(s)	292, 559
Bst6I	CTCTTC	3 cut(s)	225, 384, 537
BstAFI	CTTAAG	1 cut(s)	425
BstAUI	TGTACA	1 cut(s)	106
BstBAI	YACGTR	1 cut(s)	175
BstDEI	CTNAG	1 cut(s)	142
BstF5I	GGATG	1 cut(s)	505
BstKTI	GATC	2 cut(s)	331, 463
BstMAI	GTCTC	1 cut(s)	338
BstMBI	GATC	2 cut(s)	328, 460
BstMWI	GCNNNNNNNGC	2 cut(s)	57, 144
BstNI	CCWGG	2 cut(s)	10, 465
BstNSI	RCATGY	1 cut(s)	98
BstSCI	CCNGG	3 cut(s)	8, 15, 463
BstSFI	CTRYAG	1 cut(s)	558
BstV1I	GCAGC	2 cut(s)	38, 541
BstV2I	GAAGAC	1 cut(s)	390
BsuI	GTATCC	1 cut(s)	562
BsuRI	GGCC	2 cut(s)	259, 339
BtsCI	GGATG	1 cut(s)	505
BtsIMutI	CAGTG	1 cut(s)	555
CciI	TCATGA	1 cut(s)	72
Cfr13I	GGNCC	1 cut(s)	338
Csp6I	GTAC	2 cut(s)	107, 305
CviAII	CATG	5 cut(s)	73, 95, 188, 206, 535
CviQI	GTAC	2 cut(s)	107, 305
DdeI	CTNAG	1 cut(s)	142
DpnI	GATC	2 cut(s)	330, 462
DpnII	GATC	2 cut(s)	328, 460
DraIII	CACNNNGTG	1 cut(s)	538
Eam1104I	CTCTTC	3 cut(s)	225, 384, 537
EarI	CTCTTC	3 cut(s)	225, 384, 537
Eco130I	CCWWGG	1 cut(s)	260
Eco32I	GATATC	1 cut(s)	203
Eco57I	CTGAAG	2 cut(s)	29, 495
Eco72I	CACGTG	1 cut(s)	175
EcoRII	CCWGG	2 cut(s)	8, 463
EcoRV	GATATC	1 cut(s)	203
EcoT14I	CCWWGG	1 cut(s)	260
ErhI	CCWWGG	1 cut(s)	260
FaeI	CATG	5 cut(s)	76, 98, 191, 209, 538
FatI	CATG	5 cut(s)	72, 94, 187, 205, 534
Fnu4HI	GCNGC	2 cut(s)	52, 530
FokI	GGATG	1 cut(s)	512
Fsp4HI	GCNGC	2 cut(s)	52, 530
FspBI	CTAG	1 cut(s)	255
GluI	GCNGC	2 cut(s)	52, 530
HaeIII	GGCC	2 cut(s)	259, 339
HapII	CCGG	2 cut(s)	16, 250
Hin1II	CATG	5 cut(s)	76, 98, 191, 209, 538
HinfI	GANTC	1 cut(s)	485
HpaII	CCGG	2 cut(s)	16, 250
HphI	GGTGA	1 cut(s)	462
Hpy166II	GTNNAC	2 cut(s)	109, 470
Hpy188I	TCNGA	3 cut(s)	48, 288, 440
Hpy188III	TCNNGA	2 cut(s)	73, 198
Hpy8I	GTNNAC	2 cut(s)	109, 470
HpyAV	CCTTC	2 cut(s)	94, 136
HpyCH4III	ACNGT	2 cut(s)	292, 559
HpyCH4IV	ACGT	3 cut(s)	29, 174, 571
HpyCH4V	TGCA	1 cut(s)	529
HpyF10VI	GCNNNNNNNGC	2 cut(s)	57, 144
HpyF3I	CTNAG	1 cut(s)	142
HpySE526I	ACGT	3 cut(s)	29, 174, 571
Hsp92II	CATG	5 cut(s)	76, 98, 191, 209, 538
Kzo9I	GATC	2 cut(s)	328, 460
LguI	GCTCTTC	1 cut(s)	537
Lsp1109I	GCAGC	2 cut(s)	38, 541
MaeI	CTAG	1 cut(s)	255
MaeII	ACGT	3 cut(s)	29, 174, 571
MaeIII	GTNAC	3 cut(s)	316, 420, 502
MalI	GATC	2 cut(s)	330, 462
MboI	GATC	2 cut(s)	328, 460
MboII	GAAGA	8 cut(s)	77, 80, 242, 358, 395, 401, 422, 554
MfeI	CAATTG	1 cut(s)	524
MluCI	AATT	5 cut(s)	37, 245, 332, 516, 524
MmeI	TCCRAC	1 cut(s)	139
MnlI	CCTC	9 cut(s)	122, 226, 270, 370, 373, 385, 490, 556, 559
MroXI	GAANNNNTTC	1 cut(s)	125
MseI	TTAA	1 cut(s)	426
MslI	CAYNNNNRTG	1 cut(s)	210
MspCI	CTTAAG	1 cut(s)	425
MspI	CCGG	2 cut(s)	16, 250
MspR9I	CCNGG	3 cut(s)	10, 17, 465
MunI	CAATTG	1 cut(s)	524
MvaI	CCWGG	2 cut(s)	10, 465
MwoI	GCNNNNNNNGC	2 cut(s)	57, 144
NciI	CCSGG	1 cut(s)	17
NdeII	GATC	2 cut(s)	328, 460
NlaIII	CATG	5 cut(s)	76, 98, 191, 209, 538
NlaIV	GGNNCC	1 cut(s)	14
NmuCI	GTSAC	1 cut(s)	502
NspI	RCATGY	1 cut(s)	98
PagI	TCATGA	1 cut(s)	72
PciI	ACATGT	1 cut(s)	94
PciSI	GCTCTTC	1 cut(s)	537
PdmI	GAANNNNTTC	1 cut(s)	125
PfeI	GAWTC	1 cut(s)	485
PflMI	CCANNNNNTGG	1 cut(s)	266
PkrI	GCNGC	2 cut(s)	53, 531
PmaCI	CACGTG	1 cut(s)	175
PmlI	CACGTG	1 cut(s)	175
Ppu21I	YACGTR	1 cut(s)	175
PscI	ACATGT	1 cut(s)	94
Psp6I	CCWGG	2 cut(s)	8, 463
PspCI	CACGTG	1 cut(s)	175
PspGI	CCWGG	2 cut(s)	8, 463
PspN4I	GGNNCC	1 cut(s)	14
PspPI	GGNCC	1 cut(s)	338
RsaI	GTAC	2 cut(s)	108, 306
RsaNI	GTAC	2 cut(s)	107, 305
RseI	CAYNNNNRTG	1 cut(s)	210
SapI	GCTCTTC	1 cut(s)	537
SaqAI	TTAA	1 cut(s)	426
SatI	GCNGC	2 cut(s)	52, 530
Sau3AI	GATC	2 cut(s)	328, 460
Sau96I	GGNCC	1 cut(s)	338
ScrFI	CCNGG	3 cut(s)	10, 17, 465
SetI	ASST	9 cut(s)	32, 53, 114, 140, 177, 475, 549, 574, 581
SfcI	CTRYAG	1 cut(s)	558
SmiMI	CAYNNNNRTG	1 cut(s)	210
SmlI	CTYRAG	1 cut(s)	425
SmoI	CTYRAG	1 cut(s)	425
Sse9I	AATT	5 cut(s)	37, 245, 332, 516, 524
SsiI	CCGC	1 cut(s)	54
SspMI	CTAG	1 cut(s)	255
StyD4I	CCNGG	3 cut(s)	8, 15, 463
StyI	CCWWGG	1 cut(s)	260
TaaI	ACNGT	2 cut(s)	292, 559
TaiI	ACGT	3 cut(s)	32, 177, 574
TasI	AATT	5 cut(s)	37, 245, 332, 516, 524
TatI	WGTACW	1 cut(s)	106
TfiI	GAWTC	1 cut(s)	485
Tru1I	TTAA	1 cut(s)	426
Tru9I	TTAA	1 cut(s)	426
TscAI	CASTG	1 cut(s)	562
TseFI	GTSAC	1 cut(s)	502
TseI	GCWGC	2 cut(s)	51, 529
Tsp45I	GTSAC	1 cut(s)	502
TspDTI	ATGAA	1 cut(s)	89
TspRI	CASTG	1 cut(s)	562
Van91I	CCANNNNNTGG	1 cut(s)	266
Vha464I	CTTAAG	1 cut(s)	425
XapI	RAATTY	1 cut(s)	37
XceI	RCATGY	1 cut(s)	98
XmnI	GAANNNNTTC	1 cut(s)	125
XspI	CTAG	1 cut(s)	255

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