Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002122

Physical Location & Seq

Genomic Coordinates Forward (+)

34777915 .. 34782293

Gene Structure 4379 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG283000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1017 bp

ATGACAACCTCCGAATCTCACACTCCAGCCGAGAAAGGTTTCAAAGCTGTCACTTTTGACATGAGAGGAGTTGGGAGGTCAACTGGGAAGGCTTTTCTTACTGGGCTTGTAGAAATCAAGGATGTGATTACTGGCTGCAAATTGGTATCTAAGAATTTGTCTGCTAATAGAATTTTGCTTGTGGGTTCTTCTACAAGTGTTCATGGTATTCAACGCGGAAACATTCCAAGAGAAAGACCCAGCAGTCTCTACACACTCACTGCGCCCATGACAAGAACAAGTTCTACAAACAACTGGATTGAAGATGCTGTTCTCCGAGCTGAGATGTTGGCCCCATTGGCACTGGAGCTTGAAGAAGAAAGACGGAATGAGCAAGAACAACTGATACGCGACCATGACCTCTGGGATGACACTGCTGAGTCCAATGAGGTTCTTACCAAATTGGCTGATAGTGTTAGAGTGGTTGATGCTCTCAGAGACTTGACATATAAGGTTTCTGTAAAACAACAACTAAGCATGTATACCAAATGGGCCAGAAAGCTAGGTTACAAAGGAAGGGTAGTAGAGATGCATTCTTCCACGAATGGTGGCATCAAGTCAGCAACTATTCAGTTTGCTTTTGGTTATCTATCAGGAGAGGCAGGTGTGCACTACATCATAAATTCTAAAAATGGATCTGCTGTGCATGAGTTTTTTGGTTTCGGTGGAGGTTTGATGGATCCGTGTCTGGATATGTTTTTGGGTCTTGATGTTCTGGGTGATGGAGGTACTGAAATTTCCGCATCGATCCATGGAGGTGGAGGGGGTTTCTGTCATCTGCTATTCACGTTGTCGGCGACGAAGCTATCAATCTTAGGGGGCGGCCAGGGTTTCTGTCTTTTGATGCTTGCGTCAAAGACAACGATGCTCGTGTTGGCTGTTGGGTCGCCGGCAAGAGTGGGTGATGTAAGATTGATTGCAGGAGTGGGCAAGTCGGTGGAAATGGTTTCGACGGTGGTAGTCACGGGGATCTGGTAG

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

338

Amino Acids

36.28

Weight (kDa)

7.09

Isoelectric Point (pI)

31.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	171 - 218	3.3e-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)

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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	632
AasI	GACNNNNNNGTC	1 cut(s)	243
Acc36I	ACCTGC	1 cut(s)	632
AccI	GTMKAC	1 cut(s)	521
AccII	CGCG	2 cut(s)	216, 390
AciI	CCGC	3 cut(s)	216, 780, 861
AclWI	GGATC	5 cut(s)	682, 713, 726, 781, 1016
AcoI	YGGCCR	1 cut(s)	862
AcsI	RAATTY	4 cut(s)	154, 171, 661, 774
AfaI	GTAC	1 cut(s)	769
AgsI	TTSAA	4 cut(s)	43, 212, 302, 353
AjnI	CCWGG	1 cut(s)	864
AluBI	AGCT	5 cut(s)	47, 320, 349, 541, 844
AluI	AGCT	5 cut(s)	47, 320, 349, 541, 844
Alw21I	GWGCWC	1 cut(s)	651
Alw26I	GTCTC	2 cut(s)	251, 471
Alw44I	GTGCAC	1 cut(s)	647
AlwI	GGATC	5 cut(s)	682, 713, 726, 781, 1016
AoxI	GGCC	3 cut(s)	330, 531, 862
ApaLI	GTGCAC	1 cut(s)	647
ApeKI	GCWGC	1 cut(s)	135
ApoI	RAATTY	4 cut(s)	154, 171, 661, 774
Asp700I	GAANNNNTTC	2 cut(s)	38, 280
AspLEI	GCGC	1 cut(s)	265
AspS9I	GGNCC	2 cut(s)	331, 531
AsuHPI	GGTGA	2 cut(s)	770, 953
BaeGI	GKGCMC	1 cut(s)	651
BamHI	GGATCC	1 cut(s)	718
BauI	CACGAG	1 cut(s)	908
Bbv12I	GWGCWC	1 cut(s)	651
BbvI	GCAGC	1 cut(s)	122
BccI	CCATC	2 cut(s)	709, 755
BciT130I	CCWGG	1 cut(s)	866
BcoDI	GTCTC	2 cut(s)	251, 471
BfaI	CTAG	1 cut(s)	542
BfuAI	ACCTGC	1 cut(s)	632
BglI	GCCNNNNNGGC	1 cut(s)	338
BisI	GCNGC	2 cut(s)	136, 862
BlsI	GCNGC	2 cut(s)	137, 863
Bme1390I	CCNGG	1 cut(s)	866
BmgT120I	GGNCC	2 cut(s)	331, 531
BmiI	GGNNCC	2 cut(s)	333, 720
BmrFI	CCNGG	1 cut(s)	866
BmrI	ACTGGG	2 cut(s)	93, 111
BmsI	GCATC	7 cut(s)	295, 457, 558, 600, 791, 873, 894
BmuI	ACTGGG	2 cut(s)	93, 111
BpmI	CTGGAG	2 cut(s)	9, 365
Bsa29I	ATCGAT	1 cut(s)	785
BsaJI	CCNNGG	2 cut(s)	790, 865
Bse118I	RCCGGY	1 cut(s)	928
Bse1I	ACTGG	5 cut(s)	88, 106, 136, 299, 348
BseBI	CCWGG	1 cut(s)	866
BseCI	ATCGAT	1 cut(s)	785
BseDI	CCNNGG	2 cut(s)	790, 865
BseGI	GGATG	2 cut(s)	127, 412
BseMII	CTCAG	3 cut(s)	312, 408, 487
BseNI	ACTGG	5 cut(s)	88, 106, 136, 299, 348
BseRI	GAGGAG	1 cut(s)	81
BseSI	GKGCMC	1 cut(s)	651
BseXI	GCAGC	1 cut(s)	122
BseYI	CCCAGC	1 cut(s)	239
Bsh1236I	CGCG	2 cut(s)	216, 390
BshFI	GGCC	3 cut(s)	332, 533, 864
BshVI	ATCGAT	1 cut(s)	785
BsiHKAI	GWGCWC	1 cut(s)	651
BsiSI	CCGG	1 cut(s)	929
BsmAI	GTCTC	2 cut(s)	251, 471
BsmI	GAATGC	1 cut(s)	571
BsnI	GGCC	3 cut(s)	332, 533, 864
Bsp1286I	GDGCHC	1 cut(s)	651
Bsp143I	GATC	4 cut(s)	674, 718, 786, 1008
Bsp19I	CCATGG	1 cut(s)	790
BspACI	CCGC	3 cut(s)	216, 780, 861
BspANI	GGCC	3 cut(s)	332, 533, 864
BspCNI	CTCAG	3 cut(s)	313, 409, 486
BspDI	ATCGAT	1 cut(s)	785
BspFNI	CGCG	2 cut(s)	216, 390
BspLI	GGNNCC	2 cut(s)	333, 720
BspMI	ACCTGC	1 cut(s)	632
BspPI	GGATC	5 cut(s)	682, 713, 726, 781, 1016
BsrFI	RCCGGY	1 cut(s)	928
BsrI	ACTGG	5 cut(s)	88, 106, 136, 299, 348
BssAI	RCCGGY	1 cut(s)	928
BssECI	CCNNGG	2 cut(s)	790, 865
BssMI	GATC	4 cut(s)	674, 718, 786, 1008
BssNAI	GTATAC	1 cut(s)	522
BssSI	CACGAG	1 cut(s)	908
BssT1I	CCWWGG	1 cut(s)	790
Bst1107I	GTATAC	1 cut(s)	522
Bst2BI	CACGAG	1 cut(s)	908
Bst2UI	CCWGG	1 cut(s)	866
Bst4CI	ACNGT	1 cut(s)	994
BstC8I	GCNNGC	2 cut(s)	888, 930
BstDEI	CTNAG	6 cut(s)	150, 321, 417, 473, 512, 853
BstDSI	CCRYGG	1 cut(s)	790
BstF5I	GGATG	2 cut(s)	127, 412
BstFNI	CGCG	2 cut(s)	216, 390
BstHHI	GCGC	1 cut(s)	265
BstKTI	GATC	4 cut(s)	677, 721, 789, 1011
BstMAI	GTCTC	2 cut(s)	251, 471
BstMBI	GATC	4 cut(s)	674, 718, 786, 1008
BstMWI	GCNNNNNNNGC	1 cut(s)	338
BstNI	CCWGG	1 cut(s)	866
BstNSI	RCATGY	1 cut(s)	520
BstSCI	CCNGG	1 cut(s)	864
BstSLI	GKGCMC	1 cut(s)	651
BstUI	CGCG	2 cut(s)	216, 390
BstV1I	GCAGC	1 cut(s)	122
BstX2I	RGATCY	3 cut(s)	674, 718, 1008
BstXI	CCANNNNNNTGG	1 cut(s)	797
BstYI	RGATCY	3 cut(s)	674, 718, 1008
BstZ17I	GTATAC	1 cut(s)	522
Bsu15I	ATCGAT	1 cut(s)	785
BsuRI	GGCC	3 cut(s)	332, 533, 864
BsuTUI	ATCGAT	1 cut(s)	785
BtgI	CCRYGG	1 cut(s)	790
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)	632
Cac8I	GCNNGC	2 cut(s)	888, 930
CfoI	GCGC	1 cut(s)	265
Cfr10I	RCCGGY	1 cut(s)	928
Cfr13I	GGNCC	2 cut(s)	331, 531
ClaI	ATCGAT	1 cut(s)	785
CseI	GACGC	1 cut(s)	879
Csp6I	GTAC	1 cut(s)	768
CviAII	CATG	7 cut(s)	61, 203, 268, 395, 517, 686, 791
CviQI	GTAC	1 cut(s)	768
DdeI	CTNAG	6 cut(s)	150, 321, 417, 473, 512, 853
DpnI	GATC	4 cut(s)	676, 720, 788, 1010
DpnII	GATC	4 cut(s)	674, 718, 786, 1008
DrdI	GACNNNNNNGTC	1 cut(s)	243
DseDI	GACNNNNNNGTC	1 cut(s)	243
EaeI	YGGCCR	1 cut(s)	862
Eco130I	CCWWGG	1 cut(s)	790
EcoRII	CCWGG	1 cut(s)	864
EcoT14I	CCWWGG	1 cut(s)	790
EcoT22I	ATGCAT	1 cut(s)	573
ErhI	CCWWGG	1 cut(s)	790
FaeI	CATG	7 cut(s)	64, 206, 271, 398, 520, 689, 794
FatI	CATG	7 cut(s)	60, 202, 267, 394, 516, 685, 790
FblI	GTMKAC	1 cut(s)	521
Fnu4HI	GCNGC	2 cut(s)	136, 862
FokI	GGATG	2 cut(s)	134, 419
Fsp4HI	GCNGC	2 cut(s)	136, 862
FspBI	CTAG	1 cut(s)	542
GlaI	GCGC	1 cut(s)	264
GluI	GCNGC	2 cut(s)	136, 862
GsaI	CCCAGC	1 cut(s)	243
GsuI	CTGGAG	2 cut(s)	9, 365
HaeIII	GGCC	3 cut(s)	332, 533, 864
HapII	CCGG	1 cut(s)	929
HgaI	GACGC	1 cut(s)	879
HhaI	GCGC	1 cut(s)	265
Hin1II	CATG	7 cut(s)	64, 206, 271, 398, 520, 689, 794
Hin6I	GCGC	1 cut(s)	263
HinP1I	GCGC	1 cut(s)	263
HincII	GTYRAC	1 cut(s)	81
HindII	GTYRAC	1 cut(s)	81
HinfI	GANTC	2 cut(s)	14, 419
HpaII	CCGG	1 cut(s)	929
HphI	GGTGA	2 cut(s)	770, 953
Hpy166II	GTNNAC	3 cut(s)	81, 522, 649
Hpy188I	TCNGA	3 cut(s)	13, 317, 476
Hpy188III	TCNNGA	3 cut(s)	633, 728, 746
Hpy8I	GTNNAC	3 cut(s)	81, 522, 649
Hpy99I	CGWCG	2 cut(s)	841, 994
HpyAV	CCTTC	2 cut(s)	82, 549
HpyCH4III	ACNGT	1 cut(s)	994
HpyCH4IV	ACGT	1 cut(s)	827
HpyCH4V	TGCA	5 cut(s)	138, 571, 649, 685, 959
HpyF10VI	GCNNNNNNNGC	1 cut(s)	338
HpyF3I	CTNAG	6 cut(s)	150, 321, 417, 473, 512, 853
HpySE526I	ACGT	1 cut(s)	827
Hsp92II	CATG	7 cut(s)	64, 206, 271, 398, 520, 689, 794
HspAI	GCGC	1 cut(s)	263
KroI	GCCGGC	1 cut(s)	928
KroNI	GCCGGC	1 cut(s)	930
Kzo9I	GATC	4 cut(s)	674, 718, 786, 1008
LmnI	GCTCC	1 cut(s)	346
Lsp1109I	GCAGC	1 cut(s)	122
LweI	GCATC	7 cut(s)	295, 457, 558, 600, 791, 873, 894
MaeI	CTAG	1 cut(s)	542
MaeII	ACGT	1 cut(s)	827
MaeIII	GTNAC	3 cut(s)	49, 545, 1000
MalI	GATC	4 cut(s)	676, 720, 788, 1010
MboI	GATC	4 cut(s)	674, 718, 786, 1008
MboII	GAAGA	5 cut(s)	180, 314, 365, 368, 567
MflI	RGATCY	3 cut(s)	674, 718, 1008
MhlI	GDGCHC	1 cut(s)	651
MluCI	AATT	6 cut(s)	140, 154, 171, 440, 661, 774
MlyI	GAGTC	1 cut(s)	428
Mph1103I	ATGCAT	1 cut(s)	573
MroNI	GCCGGC	1 cut(s)	928
MroXI	GAANNNNTTC	2 cut(s)	38, 280
MslI	CAYNNNNRTG	1 cut(s)	795
MspI	CCGG	1 cut(s)	929
MspR9I	CCNGG	1 cut(s)	866
Mva1269I	GAATGC	1 cut(s)	571
MvaI	CCWGG	1 cut(s)	866
MvnI	CGCG	2 cut(s)	216, 390
MwoI	GCNNNNNNNGC	1 cut(s)	338
NaeI	GCCGGC	1 cut(s)	930
NcoI	CCATGG	1 cut(s)	790
NdeII	GATC	4 cut(s)	674, 718, 786, 1008
NgoMIV	GCCGGC	1 cut(s)	928
NlaIII	CATG	7 cut(s)	64, 206, 271, 398, 520, 689, 794
NlaIV	GGNNCC	2 cut(s)	333, 720
NmeAIII	GCCGAG	1 cut(s)	55
NmuCI	GTSAC	2 cut(s)	49, 1000
NsiI	ATGCAT	1 cut(s)	573
NspI	RCATGY	1 cut(s)	520
PaqCI	CACCTGC	1 cut(s)	632
PcsI	WCGNNNNNNNCGW	1 cut(s)	833
PctI	GAATGC	1 cut(s)	571
PdiI	GCCGGC	1 cut(s)	930
PdmI	GAANNNNTTC	2 cut(s)	38, 280
PfeI	GAWTC	1 cut(s)	14
PkrI	GCNGC	2 cut(s)	137, 863
PleI	GAGTC	1 cut(s)	427
PpsI	GAGTC	1 cut(s)	427
Psp6I	CCWGG	1 cut(s)	864
PspFI	CCCAGC	1 cut(s)	239
PspGI	CCWGG	1 cut(s)	864
PspN4I	GGNNCC	2 cut(s)	333, 720
PspPI	GGNCC	2 cut(s)	331, 531
PsrI	GAACNNNNNNTAC	4 cut(s)	268, 300, 369, 401
PsuI	RGATCY	3 cut(s)	674, 718, 1008
RsaI	GTAC	1 cut(s)	769
RsaNI	GTAC	1 cut(s)	768
RseI	CAYNNNNRTG	1 cut(s)	795
SatI	GCNGC	2 cut(s)	136, 862
Sau3AI	GATC	4 cut(s)	674, 718, 786, 1008
Sau96I	GGNCC	2 cut(s)	331, 531
SchI	GAGTC	1 cut(s)	428
ScrFI	CCNGG	1 cut(s)	866
SduI	GDGCHC	1 cut(s)	651
SfaNI	GCATC	7 cut(s)	295, 457, 558, 600, 791, 873, 894
SmiMI	CAYNNNNRTG	1 cut(s)	795
Sse9I	AATT	6 cut(s)	140, 154, 171, 440, 661, 774
SsiI	CCGC	3 cut(s)	216, 780, 861
SspMI	CTAG	1 cut(s)	542
StyD4I	CCNGG	1 cut(s)	864
StyI	CCWWGG	1 cut(s)	790
TaaI	ACNGT	1 cut(s)	994
TaiI	ACGT	1 cut(s)	830
TaqI	TCGA	2 cut(s)	785, 989
TasI	AATT	6 cut(s)	140, 154, 171, 440, 661, 774
TauI	GCSGC	1 cut(s)	864
TfiI	GAWTC	1 cut(s)	14
TscAI	CASTG	3 cut(s)	265, 348, 418
TseFI	GTSAC	2 cut(s)	49, 1000
TseI	GCWGC	1 cut(s)	135
Tsp45I	GTSAC	2 cut(s)	49, 1000
TspDTI	ATGAA	1 cut(s)	191
TspGWI	ACGGA	2 cut(s)	379, 711
TspRI	CASTG	3 cut(s)	265, 348, 418
VneI	GTGCAC	1 cut(s)	647
XapI	RAATTY	4 cut(s)	154, 171, 661, 774
XceI	RCATGY	1 cut(s)	520
XmiI	GTMKAC	1 cut(s)	521
XmnI	GAANNNNTTC	2 cut(s)	38, 280
XspI	CTAG	1 cut(s)	542
Zsp2I	ATGCAT	1 cut(s)	573

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