Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Reverse (-)

4637616 .. 4641480

Gene Structure 3865 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG024300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGGTATTCTTTTTGTTTTACTTTTTTGCTCTGGCTTGTATAAAGTTGCTGAGAAGGTGTTCATGGTATTCAATGCAGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACACACTCACTGCGCCCATGACATGAACAGGTTCTACAAACAACTGGGATTATTTTCATTGAAAAAGAAGATTGAAGATGCTGTTCTCCGAGCTAAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAAGACGGAATGAGCAAGAACAACTGATACGCAACTATGACCTCTGGGATGACACTGCTGAGTCCAATGAGGTTCTTGCCAAATTAGCTGATAGTGTTAGAGTGGTTGATGCTCTCAGAGACTTGACATATAAGGTTTCGGTAAAACAACGACTAAGCATGTATACCAAATGGGCCAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACGAATGGTGGCATCAAGTCAGCAACTATTGAGTTTGCTTTTGGTTGTCTATCAGGAGAGGCAGGTGTGCACTACATCATAAATTCTAAAAACGGATCTGCTGTGCATGAGGTACAACTCTGTCTTGTTGATATCAATCCAATATTAAAGTTCAGAACTGTCGAATTTTCTTTTCCTAAAAAAAGAAGTCAATGGTGTCTGAAAAGAAAAAAAATGCTATGGAGTATGGATTATGATATTGCAAGTAAAGTGATAACAGGATAG

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

240

Amino Acids

27.92

Weight (kDa)

9.64

Isoelectric Point (pI)

49.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	131 - 178	5.4e-07	PCRF domain

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: 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)
AarI	CACCTGC	1 cut(s)	512
AasI	GACNNNNNNGTC	1 cut(s)	103
Acc36I	ACCTGC	1 cut(s)	512
AccI	GTMKAC	1 cut(s)	401
AclWI	GGATC	1 cut(s)	562
AcsI	RAATTY	2 cut(s)	541, 623
AfaI	GTAC	1 cut(s)	573
AgsI	TTSAA	4 cut(s)	72, 172, 185, 236
AluBI	AGCT	4 cut(s)	203, 232, 326, 421
AluI	AGCT	4 cut(s)	203, 232, 326, 421
Alw21I	GWGCWC	1 cut(s)	531
Alw26I	GTCTC	2 cut(s)	111, 351
Alw44I	GTGCAC	1 cut(s)	527
AlwI	GGATC	1 cut(s)	562
AoxI	GGCC	2 cut(s)	213, 411
ApaLI	GTGCAC	1 cut(s)	527
ApoI	RAATTY	2 cut(s)	541, 623
Asp700I	GAANNNNTTC	2 cut(s)	58, 140
AspLEI	GCGC	1 cut(s)	125
AspS9I	GGNCC	2 cut(s)	214, 411
BaeGI	GKGCMC	1 cut(s)	531
Bbv12I	GWGCWC	1 cut(s)	531
BcoDI	GTCTC	2 cut(s)	111, 351
BfaI	CTAG	1 cut(s)	422
BfuAI	ACCTGC	1 cut(s)	512
BglI	GCCNNNNNGGC	1 cut(s)	221
BmgT120I	GGNCC	2 cut(s)	214, 411
BmiI	GGNNCC	1 cut(s)	216
BmrI	ACTGGG	1 cut(s)	164
BmsI	GCATC	4 cut(s)	178, 337, 438, 480
BmuI	ACTGGG	1 cut(s)	164
BpmI	CTGGAG	1 cut(s)	248
BsaBI	GATNNNNATC	1 cut(s)	594
Bse1I	ACTGG	2 cut(s)	159, 231
Bse8I	GATNNNNATC	1 cut(s)	594
BseGI	GGATG	1 cut(s)	292
BseJI	GATNNNNATC	1 cut(s)	594
BseMII	CTCAG	3 cut(s)	41, 288, 367
BseNI	ACTGG	2 cut(s)	159, 231
BseSI	GKGCMC	1 cut(s)	531
BseYI	CCCAGC	1 cut(s)	99
BshFI	GGCC	2 cut(s)	215, 413
BsiHKAI	GWGCWC	1 cut(s)	531
BsmAI	GTCTC	2 cut(s)	111, 351
BsmI	GAATGC	1 cut(s)	451
BsnI	GGCC	2 cut(s)	215, 413
Bsp1286I	GDGCHC	1 cut(s)	531
Bsp143I	GATC	1 cut(s)	554
BspANI	GGCC	2 cut(s)	215, 413
BspCNI	CTCAG	3 cut(s)	42, 289, 366
BspLI	GGNNCC	1 cut(s)	216
BspMI	ACCTGC	1 cut(s)	512
BspPI	GGATC	1 cut(s)	562
BsrI	ACTGG	2 cut(s)	159, 231
BssMI	GATC	1 cut(s)	554
BssNAI	GTATAC	1 cut(s)	402
Bst1107I	GTATAC	1 cut(s)	402
Bst4CI	ACNGT	1 cut(s)	619
BstDEI	CTNAG	5 cut(s)	50, 204, 297, 353, 392
BstF5I	GGATG	1 cut(s)	292
BstHHI	GCGC	1 cut(s)	125
BstKTI	GATC	1 cut(s)	557
BstMAI	GTCTC	2 cut(s)	111, 351
BstMBI	GATC	1 cut(s)	554
BstMWI	GCNNNNNNNGC	2 cut(s)	221, 323
BstNSI	RCATGY	1 cut(s)	400
BstSLI	GKGCMC	1 cut(s)	531
BstX2I	RGATCY	1 cut(s)	554
BstYI	RGATCY	1 cut(s)	554
BstZ17I	GTATAC	1 cut(s)	402
BsuRI	GGCC	2 cut(s)	215, 413
BtsCI	GGATG	1 cut(s)	292
BtsI	GCAGTG	2 cut(s)	118, 291
BtsIMutI	CAGTG	3 cut(s)	118, 224, 291
BveI	ACCTGC	1 cut(s)	512
CfoI	GCGC	1 cut(s)	125
Cfr13I	GGNCC	2 cut(s)	214, 411
Csp6I	GTAC	1 cut(s)	572
CviAII	CATG	5 cut(s)	63, 128, 133, 397, 566
CviJI	RGCY	7 cut(s)	35, 203, 215, 232, 326, 413, 421
CviKI_1	RGCY	7 cut(s)	35, 203, 215, 232, 326, 413, 421
CviQI	GTAC	1 cut(s)	572
DdeI	CTNAG	5 cut(s)	50, 204, 297, 353, 392
DpnI	GATC	1 cut(s)	556
DpnII	GATC	1 cut(s)	554
DrdI	GACNNNNNNGTC	1 cut(s)	103
DseDI	GACNNNNNNGTC	1 cut(s)	103
Eco32I	GATATC	1 cut(s)	592
EcoRV	GATATC	1 cut(s)	592
EcoT22I	ATGCAT	1 cut(s)	453
FaeI	CATG	5 cut(s)	66, 131, 136, 400, 569
FatI	CATG	5 cut(s)	62, 127, 132, 396, 565
FblI	GTMKAC	1 cut(s)	401
FokI	GGATG	1 cut(s)	299
FspBI	CTAG	1 cut(s)	422
GlaI	GCGC	1 cut(s)	124
GsaI	CCCAGC	1 cut(s)	103
GsuI	CTGGAG	1 cut(s)	248
HaeIII	GGCC	2 cut(s)	215, 413
HhaI	GCGC	1 cut(s)	125
Hin1II	CATG	5 cut(s)	66, 131, 136, 400, 569
Hin6I	GCGC	1 cut(s)	123
HinP1I	GCGC	1 cut(s)	123
HinfI	GANTC	1 cut(s)	299
Hpy166II	GTNNAC	2 cut(s)	402, 529
Hpy188I	TCNGA	4 cut(s)	200, 356, 614, 660
Hpy188III	TCNNGA	1 cut(s)	513
Hpy8I	GTNNAC	2 cut(s)	402, 529
HpyAV	CCTTC	2 cut(s)	48, 429
HpyCH4III	ACNGT	1 cut(s)	619
HpyCH4V	TGCA	5 cut(s)	76, 451, 529, 565, 701
HpyF10VI	GCNNNNNNNGC	2 cut(s)	221, 323
HpyF3I	CTNAG	5 cut(s)	50, 204, 297, 353, 392
Hsp92II	CATG	5 cut(s)	66, 131, 136, 400, 569
HspAI	GCGC	1 cut(s)	123
Kzo9I	GATC	1 cut(s)	554
LmnI	GCTCC	1 cut(s)	229
LweI	GCATC	4 cut(s)	178, 337, 438, 480
MaeI	CTAG	1 cut(s)	422
MaeIII	GTNAC	1 cut(s)	425
MalI	GATC	1 cut(s)	556
MboI	GATC	1 cut(s)	554
MboII	GAAGA	4 cut(s)	190, 197, 248, 447
MflI	RGATCY	1 cut(s)	554
MhlI	GDGCHC	1 cut(s)	531
MluCI	AATT	3 cut(s)	320, 541, 623
MlyI	GAGTC	1 cut(s)	308
MnlI	CCTC	4 cut(s)	290, 301, 511, 562
Mph1103I	ATGCAT	1 cut(s)	453
MroXI	GAANNNNTTC	2 cut(s)	58, 140
MseI	TTAA	1 cut(s)	605
Mva1269I	GAATGC	1 cut(s)	451
MwoI	GCNNNNNNNGC	2 cut(s)	221, 323
NdeII	GATC	1 cut(s)	554
NlaIII	CATG	5 cut(s)	66, 131, 136, 400, 569
NlaIV	GGNNCC	1 cut(s)	216
NsiI	ATGCAT	1 cut(s)	453
NspI	RCATGY	1 cut(s)	400
PaqCI	CACCTGC	1 cut(s)	512
PctI	GAATGC	1 cut(s)	451
PdmI	GAANNNNTTC	2 cut(s)	58, 140
PleI	GAGTC	1 cut(s)	307
PpsI	GAGTC	1 cut(s)	307
PspFI	CCCAGC	1 cut(s)	99
PspN4I	GGNNCC	1 cut(s)	216
PspPI	GGNCC	2 cut(s)	214, 411
PsrI	GAACNNNNNNTAC	4 cut(s)	128, 160, 249, 281
PsuI	RGATCY	1 cut(s)	554
RsaI	GTAC	1 cut(s)	573
RsaNI	GTAC	1 cut(s)	572
SaqAI	TTAA	1 cut(s)	605
Sau3AI	GATC	1 cut(s)	554
Sau96I	GGNCC	2 cut(s)	214, 411
SchI	GAGTC	1 cut(s)	308
SduI	GDGCHC	1 cut(s)	531
SfaNI	GCATC	4 cut(s)	178, 337, 438, 480
Sse9I	AATT	3 cut(s)	320, 541, 623
SspI	AATATT	1 cut(s)	603
SspMI	CTAG	1 cut(s)	422
TaaI	ACNGT	1 cut(s)	619
TaqI	TCGA	1 cut(s)	621
TasI	AATT	3 cut(s)	320, 541, 623
Tru1I	TTAA	1 cut(s)	605
Tru9I	TTAA	1 cut(s)	605
TscAI	CASTG	3 cut(s)	125, 231, 298
TspDTI	ATGAA	3 cut(s)	51, 149, 156
TspGWI	ACGGA	2 cut(s)	259, 567
TspRI	CASTG	3 cut(s)	125, 231, 298
VneI	GTGCAC	1 cut(s)	527
XapI	RAATTY	2 cut(s)	541, 623
XceI	RCATGY	1 cut(s)	400
XmiI	GTMKAC	1 cut(s)	401
XmnI	GAANNNNTTC	2 cut(s)	58, 140
XspI	CTAG	1 cut(s)	422
Zsp2I	ATGCAT	1 cut(s)	453

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