Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Reverse (-)

32144894 .. 32183297

Gene Structure 38404 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG161700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGCTGATGACAACCTCCGAATCTCACACTCCAGCCGAGAAAGGTTTCAAAGCTGTCACTTTTGACATGAGAGGAGTTGGGAGGTCAACTGGGAAGGCTTCTCTTACTGGGTTTGTAGAAATCAAGAATGTGATTGCTGGCTGCAAATTGGTCTCTAAGAATTTGTCTGCTAATAGAATTTTGCTTGTGGGTTCTTCTGCAGGTGTTCATGGTATTCAACGCGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACACACTCACTGCGCCCATGACAAGAACAAGTTCTACAAACAACTGGAAGATTGAAGATGCTGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACAGAATGAGCAAGAACAACTAAACGCGACCATGACCTCTGGGATGACACTGCTGAGTCCAATGAGGAAGGCATATGATGCATCTCTGGATATGAGCAAGATTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTGGTGGCACAGGCTACCCTGAGGTTTCTGTAAAACAACAACTAAGCATATCATTTTCAAACTATAGGATACCCAGTATACCATTCCATGTATCCGTTGTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006996 GO:0008150 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009658 GO:0009894 GO:0009987 GO:0010468 GO:0010608 GO:0016043 GO:0019219 GO:0019222 GO:0031323 GO:0031329 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043488 GO:0043565 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0071840 GO:0080090 GO:0097159 GO:1901363 GO:1903311

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCRF RF-1

Protein Analysis

216

Amino Acids

23.57

Weight (kDa)

9.2

Isoelectric Point (pI)

37.97

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

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Orthologous Genes (Group: OG0002122)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G57190
fragaria_vesca	FvH4_4g12020 FvH4_4g12020
prunus_persica	Prupe.7G049700_v2.0.a1 Prupe.7G049700_v2.0.a1 Prupe.7G049700_v2.0.a1
pyrus_communis	pycom12g07340
rosa_chinensis	RchiOBHm_Chr1g0343471 RchiOBHm_Chr2g0168541 RchiOBHm_Chr4g0409641 RchiOBHm_Chr5g0045081 RchiOBHm_Chr5g0071051 RchiOBHm_Chr6g0273161 RchiOBHm_Chr7g0240011
rosa_laevigata	RLG00000008537
rosa_multiflora	Rmu_sc0000652.1_g000001 Rmu_sc0002310.1_g000022 Rmu_sc0015305.1_g000010 Rmu_sc0015338.1_g000005 Rmu_sc0018973.1_g000001
rosa_roxburghii	Rroxscaffold_5G00354180
rosa_rugosa	Rorug04G0095700 Rorug04G0095800 Rorug05G0498600
rosa_samantha	Rh2BG617100 Rh2CG585200 Rh3DG274500 Rh4AG157300 Rh4BG156900 Rh4CG024300 Rh4CG167500 Rh4DG151200 Rh4DG161700 Rh5BG221000 Rh5BG274800 Rh5BG309900 Rh5CG332800 Rh5DG283000 Rh5DG320400
rosa_wichuraiana	Rw0G003500 Rw2G050080 Rw3G022130 Rw4G012870 Rw4G012980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	542
AarI	CACCTGC	1 cut(s)	191
AasI	GACNNNNNNGTC	1 cut(s)	249
Acc36I	ACCTGC	1 cut(s)	191
AccI	GTMKAC	1 cut(s)	625
AccII	CGCG	2 cut(s)	222, 398
AciI	CCGC	1 cut(s)	222
AcsI	RAATTY	2 cut(s)	160, 177
AflII	CTTAAG	1 cut(s)	503
AgsI	TTSAA	6 cut(s)	49, 218, 311, 362, 478, 606
AluBI	AGCT	5 cut(s)	53, 329, 358, 499, 548
AluI	AGCT	5 cut(s)	53, 329, 358, 499, 548
Alw26I	GTCTC	2 cut(s)	157, 257
AoxI	GGCC	1 cut(s)	339
ApeKI	GCWGC	1 cut(s)	141
ApoI	RAATTY	2 cut(s)	160, 177
Asp700I	GAANNNNTTC	2 cut(s)	44, 286
AspLEI	GCGC	1 cut(s)	271
AspS9I	GGNCC	2 cut(s)	340, 509
AvaII	GGWCC	1 cut(s)	509
AxyI	CCTNAGG	1 cut(s)	567
BbvI	GCAGC	1 cut(s)	128
BciVI	GTATCC	2 cut(s)	609, 649
BcoDI	GTCTC	2 cut(s)	157, 257
BfmI	CTRYAG	2 cut(s)	198, 610
BfrI	CTTAAG	1 cut(s)	503
BfuAI	ACCTGC	1 cut(s)	191
BfuI	GTATCC	2 cut(s)	609, 649
BglI	GCCNNNNNGGC	1 cut(s)	347
BisI	GCNGC	1 cut(s)	142
BlsI	GCNGC	1 cut(s)	143
Bme18I	GGWCC	1 cut(s)	509
BmgT120I	GGNCC	2 cut(s)	340, 509
BmiI	GGNNCC	2 cut(s)	342, 510
BmrI	ACTGGG	3 cut(s)	99, 117, 615
BmsI	GCATC	3 cut(s)	304, 439, 461
BmuI	ACTGGG	3 cut(s)	99, 117, 615
BpmI	CTGGAG	2 cut(s)	15, 374
BsaI	GGTCTC	1 cut(s)	157
Bse1I	ACTGG	5 cut(s)	94, 112, 305, 357, 621
Bse21I	CCTNAGG	1 cut(s)	567
BseGI	GGATG	1 cut(s)	420
BseMII	CTCAG	3 cut(s)	321, 416, 558
BseNI	ACTGG	5 cut(s)	94, 112, 305, 357, 621
BseRI	GAGGAG	1 cut(s)	87
BseXI	GCAGC	1 cut(s)	128
BseYI	CCCAGC	1 cut(s)	245
Bsh1236I	CGCG	2 cut(s)	222, 398
BshFI	GGCC	1 cut(s)	341
BslFI	GGGAC	1 cut(s)	522
BsmAI	GTCTC	2 cut(s)	157, 257
BsmFI	GGGAC	1 cut(s)	522
BsnI	GGCC	1 cut(s)	341
Bso31I	GGTCTC	1 cut(s)	157
BspACI	CCGC	1 cut(s)	222
BspANI	GGCC	1 cut(s)	341
BspCNI	CTCAG	3 cut(s)	322, 417, 559
BspFNI	CGCG	2 cut(s)	222, 398
BspLI	GGNNCC	2 cut(s)	342, 510
BspMAI	CTGCAG	1 cut(s)	202
BspMI	ACCTGC	1 cut(s)	191
BspTI	CTTAAG	1 cut(s)	503
BspTNI	GGTCTC	1 cut(s)	157
BsrI	ACTGG	5 cut(s)	94, 112, 305, 357, 621
BssNAI	GTATAC	1 cut(s)	626
Bst1107I	GTATAC	1 cut(s)	626
BstAFI	CTTAAG	1 cut(s)	503
BstAPI	GCANNNNNTGC	1 cut(s)	449
BstC8I	GCNNGC	1 cut(s)	139
BstDEI	CTNAG	5 cut(s)	156, 330, 425, 567, 590
BstF5I	GGATG	1 cut(s)	420
BstFNI	CGCG	2 cut(s)	222, 398
BstHHI	GCGC	1 cut(s)	271
BstMAI	GTCTC	2 cut(s)	157, 257
BstMWI	GCNNNNNNNGC	2 cut(s)	347, 449
BstNSI	RCATGY	1 cut(s)	534
BstSFI	CTRYAG	2 cut(s)	198, 610
BstUI	CGCG	2 cut(s)	222, 398
BstV1I	GCAGC	1 cut(s)	128
BstZ17I	GTATAC	1 cut(s)	626
Bsu36I	CCTNAGG	1 cut(s)	567
BsuI	GTATCC	2 cut(s)	609, 649
BsuRI	GGCC	1 cut(s)	341
BtsCI	GGATG	1 cut(s)	420
BtsI	GCAGTG	2 cut(s)	264, 419
BtsIMutI	CAGTG	3 cut(s)	264, 350, 419
BveI	ACCTGC	1 cut(s)	191
Cac8I	GCNNGC	1 cut(s)	139
CfoI	GCGC	1 cut(s)	271
Cfr13I	GGNCC	2 cut(s)	340, 509
CviAII	CATG	7 cut(s)	67, 209, 274, 403, 520, 531, 635
DdeI	CTNAG	5 cut(s)	156, 330, 425, 567, 590
DrdI	GACNNNNNNGTC	1 cut(s)	249
DseDI	GACNNNNNNGTC	1 cut(s)	249
Eco31I	GGTCTC	1 cut(s)	157
Eco47I	GGWCC	1 cut(s)	509
Eco81I	CCTNAGG	1 cut(s)	567
EcoT22I	ATGCAT	1 cut(s)	454
FaeI	CATG	7 cut(s)	70, 212, 277, 406, 523, 534, 638
FaqI	GGGAC	1 cut(s)	522
FatI	CATG	7 cut(s)	66, 208, 273, 402, 519, 530, 634
FauNDI	CATATG	2 cut(s)	445, 514
FblI	GTMKAC	1 cut(s)	625
Fnu4HI	GCNGC	1 cut(s)	142
FokI	GGATG	1 cut(s)	427
Fsp4HI	GCNGC	1 cut(s)	142
GlaI	GCGC	1 cut(s)	270
GluI	GCNGC	1 cut(s)	142
GsaI	CCCAGC	1 cut(s)	249
GsuI	CTGGAG	2 cut(s)	15, 374
HaeIII	GGCC	1 cut(s)	341
HhaI	GCGC	1 cut(s)	271
Hin1II	CATG	7 cut(s)	70, 212, 277, 406, 523, 534, 638
Hin6I	GCGC	1 cut(s)	269
HinP1I	GCGC	1 cut(s)	269
HincII	GTYRAC	1 cut(s)	87
HindII	GTYRAC	1 cut(s)	87
HindIII	AAGCTT	1 cut(s)	497
HinfI	GANTC	2 cut(s)	20, 427
Hpy166II	GTNNAC	2 cut(s)	87, 626
Hpy188I	TCNGA	2 cut(s)	19, 326
Hpy188III	TCNNGA	2 cut(s)	124, 458
Hpy8I	GTNNAC	2 cut(s)	87, 626
HpyAV	CCTTC	2 cut(s)	88, 433
HpyCH4V	TGCA	3 cut(s)	144, 200, 452
HpyF10VI	GCNNNNNNNGC	2 cut(s)	347, 449
HpyF3I	CTNAG	5 cut(s)	156, 330, 425, 567, 590
Hsp92II	CATG	7 cut(s)	70, 212, 277, 406, 523, 534, 638
HspAI	GCGC	1 cut(s)	269
LmnI	GCTCC	2 cut(s)	355, 527
Lsp1109I	GCAGC	1 cut(s)	128
LweI	GCATC	3 cut(s)	304, 439, 461
MaeIII	GTNAC	1 cut(s)	55
MboII	GAAGA	5 cut(s)	186, 316, 323, 374, 377
MluCI	AATT	4 cut(s)	146, 160, 177, 537
MlyI	GAGTC	1 cut(s)	436
MnlI	CCTC	7 cut(s)	25, 65, 75, 418, 429, 517, 562
Mph1103I	ATGCAT	1 cut(s)	454
MroXI	GAANNNNTTC	2 cut(s)	44, 286
MseI	TTAA	1 cut(s)	504
MspCI	CTTAAG	1 cut(s)	503
MvnI	CGCG	2 cut(s)	222, 398
MwoI	GCNNNNNNNGC	2 cut(s)	347, 449
NdeI	CATATG	2 cut(s)	445, 514
NlaIII	CATG	7 cut(s)	70, 212, 277, 406, 523, 534, 638
NlaIV	GGNNCC	2 cut(s)	342, 510
NmeAIII	GCCGAG	1 cut(s)	61
NmuCI	GTSAC	1 cut(s)	55
NsiI	ATGCAT	1 cut(s)	454
NspI	RCATGY	1 cut(s)	534
PaqCI	CACCTGC	1 cut(s)	191
PdmI	GAANNNNTTC	2 cut(s)	44, 286
PfeI	GAWTC	1 cut(s)	20
PkrI	GCNGC	1 cut(s)	143
PleI	GAGTC	1 cut(s)	435
PpsI	GAGTC	1 cut(s)	435
PsiI	TTATAA	1 cut(s)	542
PspFI	CCCAGC	1 cut(s)	245
PspN4I	GGNNCC	2 cut(s)	342, 510
PspPI	GGNCC	2 cut(s)	340, 509
PsrI	GAACNNNNNNTAC	2 cut(s)	274, 306
PstI	CTGCAG	1 cut(s)	202
SaqAI	TTAA	1 cut(s)	504
SatI	GCNGC	1 cut(s)	142
Sau96I	GGNCC	2 cut(s)	340, 509
SchI	GAGTC	1 cut(s)	436
SfaNI	GCATC	3 cut(s)	304, 439, 461
SfcI	CTRYAG	2 cut(s)	198, 610
SinI	GGWCC	1 cut(s)	509
SmlI	CTYRAG	1 cut(s)	503
SmoI	CTYRAG	1 cut(s)	503
Sse9I	AATT	4 cut(s)	146, 160, 177, 537
SsiI	CCGC	1 cut(s)	222
TasI	AATT	4 cut(s)	146, 160, 177, 537
TfiI	GAWTC	1 cut(s)	20
Tru1I	TTAA	1 cut(s)	504
Tru9I	TTAA	1 cut(s)	504
TscAI	CASTG	3 cut(s)	271, 357, 426
TseFI	GTSAC	1 cut(s)	55
TseI	GCWGC	1 cut(s)	141
Tsp45I	GTSAC	1 cut(s)	55
TspDTI	ATGAA	1 cut(s)	197
TspGWI	ACGGA	1 cut(s)	631
TspRI	CASTG	3 cut(s)	271, 357, 426
Vha464I	CTTAAG	1 cut(s)	503
VpaK11BI	GGWCC	1 cut(s)	509
XapI	RAATTY	2 cut(s)	160, 177
XceI	RCATGY	1 cut(s)	534
XmiI	GTMKAC	1 cut(s)	625
XmnI	GAANNNNTTC	2 cut(s)	44, 286
Zsp2I	ATGCAT	1 cut(s)	454

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