Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Reverse (-)

83972946 .. 83976086

Gene Structure 3141 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG617100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGACAACCTCCGAATCTCACACTCCAGCCGAGAAAGGTTTCAAAGCTGTCACTTTTGACATGAGAGGAGTTGGGAGGTCAACTGGGAAGGCTTCTCTTACTGGGTTTGTAGAAATCAAGGATGTGATTGCTGGCTACAAATTGGTCTCTAAGAATTTGTCTGCTAATAGAATTTTGCTTGTGGGTTCTTCTGCAGGTGTTCATGGTATTCAACGCGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACACACTCACTGCGCCCATGACAAGAACAAGTTCTACAAACAACTGGATTGAAGATGTTGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACGGAATGAGCAAGAACAACTGATACACGACCATGACCTTTGGGATGACACTGCTGAGTCCAATGAGGTTCTTGCCAACTTGGCTGATAGTGTTAGAGTGGTTGATGCTCTCAGAGACTTGACATATAAGGCTGAAGAAGCAAAACTTATTACACAGTTAGCAGAGATATATGCTATCAATTATGGGCTTTTTAGGAAGGCATATGATGCATCTCTAGATATGAGCAAGATTTTGAATAAATATGAGATTTCCAAGCTTCTTAAGGGACCATATGACATGGAGGGAGCATGTCTAATTATAAAAGCTAGTGGCACAGGCTACCCTGAGGTTTCTGTAAAACAACAACTAAGCATGTATACCAAATGGGCCAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACGAATGGTGGCATCAAGTCAGCAACTATTGAGTTTGCTTTTGGTTATCTATCAGGAGAGGTAGGTGTGCACTACATCATAAATTCTAAAAACGGATCTGCTGTGCATGAGTTGAGGTTCTGTTAA

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

300

Amino Acids

33.19

Weight (kDa)

6.68

Isoelectric Point (pI)

36.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	120 - 284	4.5e-15	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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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)	662
AarI	CACCTGC	1 cut(s)	185
AasI	GACNNNNNNGTC	1 cut(s)	243
Acc36I	ACCTGC	1 cut(s)	185
AccI	GTMKAC	1 cut(s)	719
AccII	CGCG	1 cut(s)	216
AciI	CCGC	1 cut(s)	216
AclWI	GGATC	1 cut(s)	880
AcsI	RAATTY	3 cut(s)	154, 171, 859
AcuI	CTGAAG	1 cut(s)	516
AflII	CTTAAG	1 cut(s)	623
AgsI	TTSAA	5 cut(s)	43, 212, 302, 353, 598
AluBI	AGCT	6 cut(s)	47, 320, 349, 619, 668, 739
AluI	AGCT	6 cut(s)	47, 320, 349, 619, 668, 739
Alw21I	GWGCWC	1 cut(s)	849
Alw26I	GTCTC	3 cut(s)	151, 251, 471
Alw44I	GTGCAC	1 cut(s)	845
AlwI	GGATC	1 cut(s)	880
AoxI	GGCC	2 cut(s)	330, 729
ApaLI	GTGCAC	1 cut(s)	845
ApoI	RAATTY	3 cut(s)	154, 171, 859
Asp700I	GAANNNNTTC	2 cut(s)	38, 280
AspLEI	GCGC	1 cut(s)	265
AspS9I	GGNCC	3 cut(s)	331, 629, 729
AvaII	GGWCC	1 cut(s)	629
AxyI	CCTNAGG	1 cut(s)	687
BaeGI	GKGCMC	1 cut(s)	849
Bbv12I	GWGCWC	1 cut(s)	849
BcoDI	GTCTC	3 cut(s)	151, 251, 471
BfaI	CTAG	3 cut(s)	578, 669, 740
BfmI	CTRYAG	1 cut(s)	192
BfrI	CTTAAG	1 cut(s)	623
BfuAI	ACCTGC	1 cut(s)	185
BglI	GCCNNNNNGGC	2 cut(s)	338, 443
Bme18I	GGWCC	1 cut(s)	629
BmgT120I	GGNCC	3 cut(s)	331, 629, 729
BmiI	GGNNCC	2 cut(s)	333, 630
BmrI	ACTGGG	2 cut(s)	93, 111
BmsI	GCATC	5 cut(s)	457, 559, 581, 756, 798
BmuI	ACTGGG	2 cut(s)	93, 111
BpmI	CTGGAG	2 cut(s)	9, 365
BsaI	GGTCTC	1 cut(s)	151
Bse1I	ACTGG	4 cut(s)	88, 106, 299, 348
Bse21I	CCTNAGG	1 cut(s)	687
BseGI	GGATG	2 cut(s)	127, 412
BseMII	CTCAG	4 cut(s)	312, 408, 487, 678
BseNI	ACTGG	4 cut(s)	88, 106, 299, 348
BseRI	GAGGAG	1 cut(s)	81
BseSI	GKGCMC	1 cut(s)	849
BseYI	CCCAGC	1 cut(s)	239
Bsh1236I	CGCG	1 cut(s)	216
BshFI	GGCC	2 cut(s)	332, 731
BsiHKAI	GWGCWC	1 cut(s)	849
BslFI	GGGAC	1 cut(s)	642
BsmAI	GTCTC	3 cut(s)	151, 251, 471
BsmFI	GGGAC	1 cut(s)	642
BsmI	GAATGC	1 cut(s)	769
BsnI	GGCC	2 cut(s)	332, 731
Bso31I	GGTCTC	1 cut(s)	151
Bsp1286I	GDGCHC	1 cut(s)	849
Bsp143I	GATC	1 cut(s)	872
BspACI	CCGC	1 cut(s)	216
BspANI	GGCC	2 cut(s)	332, 731
BspCNI	CTCAG	4 cut(s)	313, 409, 486, 679
BspFNI	CGCG	1 cut(s)	216
BspLI	GGNNCC	2 cut(s)	333, 630
BspMAI	CTGCAG	1 cut(s)	196
BspMI	ACCTGC	1 cut(s)	185
BspPI	GGATC	1 cut(s)	880
BspTI	CTTAAG	1 cut(s)	623
BspTNI	GGTCTC	1 cut(s)	151
BsrI	ACTGG	4 cut(s)	88, 106, 299, 348
BssMI	GATC	1 cut(s)	872
BssNAI	GTATAC	1 cut(s)	720
Bst1107I	GTATAC	1 cut(s)	720
Bst4CI	ACNGT	1 cut(s)	519
BstAFI	CTTAAG	1 cut(s)	623
BstAPI	GCANNNNNTGC	1 cut(s)	569
BstC8I	GCNNGC	1 cut(s)	133
BstDEI	CTNAG	6 cut(s)	150, 321, 417, 473, 687, 710
BstF5I	GGATG	2 cut(s)	127, 412
BstFNI	CGCG	1 cut(s)	216
BstHHI	GCGC	1 cut(s)	265
BstKTI	GATC	1 cut(s)	875
BstMAI	GTCTC	3 cut(s)	151, 251, 471
BstMBI	GATC	1 cut(s)	872
BstMWI	GCNNNNNNNGC	4 cut(s)	338, 443, 500, 569
BstNSI	RCATGY	2 cut(s)	654, 718
BstSFI	CTRYAG	1 cut(s)	192
BstSLI	GKGCMC	1 cut(s)	849
BstUI	CGCG	1 cut(s)	216
BstX2I	RGATCY	1 cut(s)	872
BstYI	RGATCY	1 cut(s)	872
BstZ17I	GTATAC	1 cut(s)	720
Bsu36I	CCTNAGG	1 cut(s)	687
BsuRI	GGCC	2 cut(s)	332, 731
BtsCI	GGATG	2 cut(s)	127, 412
BtsI	GCAGTG	2 cut(s)	258, 411
BtsIMutI	CAGTG	3 cut(s)	258, 341, 411
BveI	ACCTGC	1 cut(s)	185
Cac8I	GCNNGC	1 cut(s)	133
CfoI	GCGC	1 cut(s)	265
Cfr13I	GGNCC	3 cut(s)	331, 629, 729
CviAII	CATG	8 cut(s)	61, 203, 268, 395, 640, 651, 715, 884
DdeI	CTNAG	6 cut(s)	150, 321, 417, 473, 687, 710
DpnI	GATC	1 cut(s)	874
DpnII	GATC	1 cut(s)	872
DrdI	GACNNNNNNGTC	1 cut(s)	243
DseDI	GACNNNNNNGTC	1 cut(s)	243
Eco31I	GGTCTC	1 cut(s)	151
Eco47I	GGWCC	1 cut(s)	629
Eco57I	CTGAAG	1 cut(s)	516
Eco81I	CCTNAGG	1 cut(s)	687
EcoT22I	ATGCAT	2 cut(s)	574, 771
FaeI	CATG	8 cut(s)	64, 206, 271, 398, 643, 654, 718, 887
FalI	AAGNNNNNCTT	2 cut(s)	492, 524
FaqI	GGGAC	1 cut(s)	642
FatI	CATG	8 cut(s)	60, 202, 267, 394, 639, 650, 714, 883
FauNDI	CATATG	2 cut(s)	565, 634
FblI	GTMKAC	1 cut(s)	719
FokI	GGATG	2 cut(s)	134, 419
FspBI	CTAG	3 cut(s)	578, 669, 740
GlaI	GCGC	1 cut(s)	264
GsaI	CCCAGC	1 cut(s)	243
GsuI	CTGGAG	2 cut(s)	9, 365
HaeIII	GGCC	2 cut(s)	332, 731
HhaI	GCGC	1 cut(s)	265
Hin1II	CATG	8 cut(s)	64, 206, 271, 398, 643, 654, 718, 887
Hin6I	GCGC	1 cut(s)	263
HinP1I	GCGC	1 cut(s)	263
HincII	GTYRAC	1 cut(s)	81
HindII	GTYRAC	1 cut(s)	81
HindIII	AAGCTT	1 cut(s)	617
HinfI	GANTC	2 cut(s)	14, 419
Hpy166II	GTNNAC	3 cut(s)	81, 720, 847
Hpy188I	TCNGA	3 cut(s)	13, 317, 476
Hpy188III	TCNNGA	2 cut(s)	578, 831
Hpy8I	GTNNAC	3 cut(s)	81, 720, 847
HpyAV	CCTTC	3 cut(s)	82, 553, 747
HpyCH4III	ACNGT	1 cut(s)	519
HpyCH4V	TGCA	5 cut(s)	194, 572, 769, 847, 883
HpyF10VI	GCNNNNNNNGC	4 cut(s)	338, 443, 500, 569
HpyF3I	CTNAG	6 cut(s)	150, 321, 417, 473, 687, 710
Hsp92II	CATG	8 cut(s)	64, 206, 271, 398, 643, 654, 718, 887
HspAI	GCGC	1 cut(s)	263
Kzo9I	GATC	1 cut(s)	872
LmnI	GCTCC	2 cut(s)	346, 647
LweI	GCATC	5 cut(s)	457, 559, 581, 756, 798
MaeI	CTAG	3 cut(s)	578, 669, 740
MaeIII	GTNAC	2 cut(s)	49, 743
MalI	GATC	1 cut(s)	874
MboI	GATC	1 cut(s)	872
MboII	GAAGA	6 cut(s)	180, 314, 365, 368, 509, 765
MflI	RGATCY	1 cut(s)	872
MhlI	GDGCHC	1 cut(s)	849
MluCI	AATT	6 cut(s)	140, 154, 171, 541, 657, 859
MlyI	GAGTC	1 cut(s)	428
MnlI	CCTC	8 cut(s)	19, 59, 69, 421, 637, 682, 829, 885
Mph1103I	ATGCAT	2 cut(s)	574, 771
MroXI	GAANNNNTTC	2 cut(s)	38, 280
MseI	TTAA	2 cut(s)	624, 901
MslI	CAYNNNNRTG	1 cut(s)	393
MspCI	CTTAAG	1 cut(s)	623
Mva1269I	GAATGC	1 cut(s)	769
MvnI	CGCG	1 cut(s)	216
MwoI	GCNNNNNNNGC	4 cut(s)	338, 443, 500, 569
NdeI	CATATG	2 cut(s)	565, 634
NdeII	GATC	1 cut(s)	872
NlaIII	CATG	8 cut(s)	64, 206, 271, 398, 643, 654, 718, 887
NlaIV	GGNNCC	2 cut(s)	333, 630
NmeAIII	GCCGAG	1 cut(s)	55
NmuCI	GTSAC	1 cut(s)	49
NsiI	ATGCAT	2 cut(s)	574, 771
NspI	RCATGY	2 cut(s)	654, 718
PaqCI	CACCTGC	1 cut(s)	185
PctI	GAATGC	1 cut(s)	769
PdmI	GAANNNNTTC	2 cut(s)	38, 280
PfeI	GAWTC	1 cut(s)	14
PleI	GAGTC	1 cut(s)	427
PpsI	GAGTC	1 cut(s)	427
PsiI	TTATAA	1 cut(s)	662
PspFI	CCCAGC	1 cut(s)	239
PspN4I	GGNNCC	2 cut(s)	333, 630
PspPI	GGNCC	3 cut(s)	331, 629, 729
PsrI	GAACNNNNNNTAC	4 cut(s)	268, 300, 369, 401
PstI	CTGCAG	1 cut(s)	196
PsuI	RGATCY	1 cut(s)	872
RseI	CAYNNNNRTG	1 cut(s)	393
SaqAI	TTAA	2 cut(s)	624, 901
Sau3AI	GATC	1 cut(s)	872
Sau96I	GGNCC	3 cut(s)	331, 629, 729
SchI	GAGTC	1 cut(s)	428
SduI	GDGCHC	1 cut(s)	849
SfaNI	GCATC	5 cut(s)	457, 559, 581, 756, 798
SfcI	CTRYAG	1 cut(s)	192
SinI	GGWCC	1 cut(s)	629
SmiMI	CAYNNNNRTG	1 cut(s)	393
SmlI	CTYRAG	1 cut(s)	623
SmoI	CTYRAG	1 cut(s)	623
Sse9I	AATT	6 cut(s)	140, 154, 171, 541, 657, 859
SsiI	CCGC	1 cut(s)	216
SspMI	CTAG	3 cut(s)	578, 669, 740
TaaI	ACNGT	1 cut(s)	519
TasI	AATT	6 cut(s)	140, 154, 171, 541, 657, 859
TfiI	GAWTC	1 cut(s)	14
Tru1I	TTAA	2 cut(s)	624, 901
Tru9I	TTAA	2 cut(s)	624, 901
TscAI	CASTG	3 cut(s)	265, 348, 418
TseFI	GTSAC	1 cut(s)	49
Tsp45I	GTSAC	1 cut(s)	49
TspDTI	ATGAA	1 cut(s)	191
TspGWI	ACGGA	2 cut(s)	379, 885
TspRI	CASTG	3 cut(s)	265, 348, 418
Vha464I	CTTAAG	1 cut(s)	623
VneI	GTGCAC	1 cut(s)	845
VpaK11BI	GGWCC	1 cut(s)	629
XapI	RAATTY	3 cut(s)	154, 171, 859
XbaI	TCTAGA	1 cut(s)	577
XceI	RCATGY	2 cut(s)	654, 718
XmiI	GTMKAC	1 cut(s)	719
XmnI	GAANNNNTTC	2 cut(s)	38, 280
XspI	CTAG	3 cut(s)	578, 669, 740
Zsp2I	ATGCAT	2 cut(s)	574, 771

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