Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0004381

Physical Location & Seq

Genomic Coordinates Reverse (-)

24836797 .. 24837504

Gene Structure 708 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG254800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGCACCAAATGCCGGAAGTTTTTGGGATTAGTCCTTTTCGACGGAGATGGCCGCAACCTGAAGCGCATAATGTTTGGTCAGAGTTGAATCAATTGACGGTCGATTCTCGTACTTCTAGTATACTACAAGCAGGGGAGGGTTGTGTTGCTGCGGAGGAAAGAAGCAACGATGTGTGTCGGGATTTGGTTCAGCCAGCAAAAGATACTCCCCGGGAAACTGCAGCAGAAAGAACAAATGGCTTGTTAAATAGGATTCTGACATCTCGAGCACTGCGCAGAGAGCAAAATCAGTTGGAACAACCTGAAATTGTGGATGTAACGCAAGACAACATTACTAGCCTTGATACAGGAGAAAACCGCGGGCTTCAGTCCATGCTACTTCGAAGAACACAATCACATAGAGCAACACTTTCTTCTCTGTCCTCTGCGTTGAGTTCTGCTGAAAGGTTGGTGGAGGCATATTTCCATAACCATCCTATTACACCTGCAGTTAGAAATCAAGAACCGCCTCCCCCAGTTGATGATAGAGACTCTTTCTCGAGTATTCAAGCTGTTATAAATTCAGAGAGTCAAATGGACACAGCTGTGGAAATTGATTCAATGGTTTCCCTTTCAGCTTCACCTTCCAGAAGAAGAAATGAAGCTTCAAGGGTTTCAGACATGGACAGTGGAGACTCCCGTGCCACAAGAAGGAGAAGACTGAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006515 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0030163 GO:0031984 GO:0032446 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051603 GO:0051716 GO:0051788 GO:0070647 GO:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2 zf-C3HC4_3

Protein Analysis

235

Amino Acids

26.37

Weight (kDa)

5.8

Isoelectric Point (pI)

83.11

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

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004381)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G58030 AT3G58030 AT3G58030 AT3G58030
fragaria_vesca	FvH4_6g22060
malus_domestica	MD02G1306100.v1.1 MD12G1055900.v1.1 MD14G1055900.v1.1 MD14G1056100.v1.1
prunus_persica	Prupe.7G079200_v2.0.a1
pyrus_communis	pycom12g04880
rosa_chinensis	RchiOBHm_Chr3g0479381 RchiOBHm_Chr3g0479391
rosa_laevigata	RLG00000023579
rosa_multiflora	Rmu_co8192992.1_g000001 Rmu_sc0000107.1_g000001 Rmu_sc0006208.1_g000003 Rmu_sc0006208.1_g000006
rosa_roxburghii	Rroxscaffold_6G00402310 Rroxscaffold_6G00402330 Rroxscaffold_6G00402350
rosa_rugosa	Rorug03G0174800 Rorug03G0174900
rosa_samantha	Rh3AG226000 Rh3AG226100 Rh3BG258700 Rh3BG258800 Rh3CG254800 Rh3CG255000 Rh3DG250300 Rh3DG250500
rosa_wichuraiana	Rw3G020180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	557
AarI	CACCTGC	1 cut(s)	493
Acc16I	TGCGCA	1 cut(s)	275
Acc36I	ACCTGC	1 cut(s)	493
AccI	GTMKAC	1 cut(s)	121
AccII	CGCG	1 cut(s)	360
AciI	CCGC	5 cut(s)	53, 152, 358, 360, 506
AcoI	YGGCCR	1 cut(s)	50
AcsI	RAATTY	1 cut(s)	559
AcuI	CTGAAG	2 cut(s)	81, 350
AfaI	GTAC	1 cut(s)	112
AfiI	CCNNNNNNNGG	2 cut(s)	13, 690
AgsI	TTSAA	4 cut(s)	88, 548, 600, 648
AleI	CACNNNNGTG	1 cut(s)	584
AluBI	AGCT	4 cut(s)	551, 584, 617, 644
AluI	AGCT	4 cut(s)	551, 584, 617, 644
Alw21I	GWGCWC	1 cut(s)	271
Alw26I	GTCTC	2 cut(s)	522, 666
Ama87I	CYCGRG	3 cut(s)	210, 264, 538
AoxI	GGCC	1 cut(s)	50
ApeKI	GCWGC	2 cut(s)	149, 221
ApoI	RAATTY	1 cut(s)	559
AspLEI	GCGC	2 cut(s)	67, 276
AsuC2I	CCSGG	2 cut(s)	211, 212
AsuHPI	GGTGA	1 cut(s)	612
AsuII	TTCGAA	1 cut(s)	382
AvaI	CYCGRG	3 cut(s)	210, 264, 538
BbsI	GAAGAC	1 cut(s)	703
Bbv12I	GWGCWC	1 cut(s)	271
BbvI	GCAGC	2 cut(s)	136, 233
BccI	CCATC	2 cut(s)	42, 480
BcnI	CCSGG	2 cut(s)	211, 212
BcoDI	GTCTC	2 cut(s)	522, 666
BfaI	CTAG	2 cut(s)	117, 336
BfmI	CTRYAG	2 cut(s)	219, 486
BfuAI	ACCTGC	1 cut(s)	493
BisI	GCNGC	3 cut(s)	53, 150, 222
BlsI	GCNGC	3 cut(s)	54, 151, 223
Bme1390I	CCNGG	2 cut(s)	211, 212
BmeT110I	CYCGRG	3 cut(s)	210, 264, 538
BmrFI	CCNGG	2 cut(s)	211, 212
BmrI	ACTGGG	1 cut(s)	509
BmuI	ACTGGG	1 cut(s)	509
BpiI	GAAGAC	1 cut(s)	703
Bpu14I	TTCGAA	1 cut(s)	382
BpuMI	CCSGG	2 cut(s)	211, 212
BsaJI	CCNNGG	3 cut(s)	209, 210, 358
Bsc4I	CCNNNNNNNGG	2 cut(s)	13, 690
Bse1I	ACTGG	1 cut(s)	515
BseDI	CCNNGG	3 cut(s)	209, 210, 358
BseGI	GGATG	2 cut(s)	319, 472
BseLI	CCNNNNNNNGG	2 cut(s)	13, 690
BseNI	ACTGG	1 cut(s)	515
BseXI	GCAGC	2 cut(s)	136, 233
Bsh1236I	CGCG	1 cut(s)	360
Bsh1285I	CGRYCG	1 cut(s)	102
BshFI	GGCC	1 cut(s)	52
BsiEI	CGRYCG	1 cut(s)	102
BsiHKAI	GWGCWC	1 cut(s)	271
BsiHKCI	CYCGRG	3 cut(s)	210, 264, 538
BsiSI	CCGG	2 cut(s)	14, 211
BslI	CCNNNNNNNGG	2 cut(s)	13, 690
BsmAI	GTCTC	2 cut(s)	522, 666
BsnI	GGCC	1 cut(s)	52
BsoBI	CYCGRG	3 cut(s)	210, 264, 538
Bsp119I	TTCGAA	1 cut(s)	382
Bsp1286I	GDGCHC	1 cut(s)	271
BspACI	CCGC	5 cut(s)	53, 152, 358, 360, 506
BspANI	GGCC	1 cut(s)	52
BspFNI	CGCG	1 cut(s)	360
BspMAI	CTGCAG	2 cut(s)	223, 490
BspMI	ACCTGC	1 cut(s)	493
BspT104I	TTCGAA	1 cut(s)	382
BsrI	ACTGG	1 cut(s)	515
BssECI	CCNNGG	3 cut(s)	209, 210, 358
BssNAI	GTATAC	1 cut(s)	122
Bst1107I	GTATAC	1 cut(s)	122
Bst4CI	ACNGT	2 cut(s)	100, 668
BstAPI	GCANNNNNTGC	1 cut(s)	10
BstBI	TTCGAA	1 cut(s)	382
BstC8I	GCNNGC	2 cut(s)	195, 362
BstDSI	CCRYGG	1 cut(s)	358
BstF5I	GGATG	2 cut(s)	319, 472
BstFNI	CGCG	1 cut(s)	360
BstHHI	GCGC	2 cut(s)	67, 276
BstMAI	GTCTC	2 cut(s)	522, 666
BstMCI	CGRYCG	1 cut(s)	102
BstMWI	GCNNNNNNNGC	2 cut(s)	10, 280
BstSCI	CCNGG	2 cut(s)	209, 210
BstSFI	CTRYAG	2 cut(s)	219, 486
BstUI	CGCG	1 cut(s)	360
BstV1I	GCAGC	2 cut(s)	136, 233
BstV2I	GAAGAC	1 cut(s)	703
BstZ17I	GTATAC	1 cut(s)	122
BsuRI	GGCC	1 cut(s)	52
BtgI	CCRYGG	1 cut(s)	358
BtsCI	GGATG	2 cut(s)	319, 472
BtsI	GCAGTG	1 cut(s)	269
BtsIMutI	CAGTG	2 cut(s)	269, 673
BveI	ACCTGC	1 cut(s)	493
Cac8I	GCNNGC	2 cut(s)	195, 362
CfoI	GCGC	2 cut(s)	67, 276
Cfr42I	CCGCGG	1 cut(s)	361
Cfr9I	CCCGGG	1 cut(s)	210
Csp6I	GTAC	1 cut(s)	111
CviAII	CATG	2 cut(s)	373, 661
CviJI	RGCY	9 cut(s)	52, 193, 240, 339, 364, 551, 584, 617, 644
CviKI_1	RGCY	9 cut(s)	52, 193, 240, 339, 364, 551, 584, 617, 644
CviQI	GTAC	1 cut(s)	111
EaeI	YGGCCR	1 cut(s)	50
Eco57I	CTGAAG	2 cut(s)	81, 350
Eco88I	CYCGRG	3 cut(s)	210, 264, 538
FaeI	CATG	2 cut(s)	376, 664
FaiI	YATR	8 cut(s)	69, 122, 374, 399, 460, 468, 557, 662
FatI	CATG	2 cut(s)	372, 660
FauI	CCCGC	1 cut(s)	353
FblI	GTMKAC	1 cut(s)	121
Fnu4HI	GCNGC	3 cut(s)	53, 150, 222
FokI	GGATG	2 cut(s)	326, 459
Fsp4HI	GCNGC	3 cut(s)	53, 150, 222
FspBI	CTAG	2 cut(s)	117, 336
FspI	TGCGCA	1 cut(s)	275
GlaI	GCGC	2 cut(s)	66, 275
GluI	GCNGC	3 cut(s)	53, 150, 222
HaeIII	GGCC	1 cut(s)	52
HapII	CCGG	2 cut(s)	14, 211
HhaI	GCGC	2 cut(s)	67, 276
Hin1II	CATG	2 cut(s)	376, 664
Hin6I	GCGC	2 cut(s)	65, 274
HinP1I	GCGC	2 cut(s)	65, 274
HindIII	AAGCTT	1 cut(s)	642
HinfI	GANTC	7 cut(s)	88, 104, 253, 530, 568, 596, 674
HpaII	CCGG	2 cut(s)	14, 211
HphI	GGTGA	1 cut(s)	612
Hpy166II	GTNNAC	1 cut(s)	122
Hpy188I	TCNGA	4 cut(s)	82, 258, 565, 658
Hpy188III	TCNNGA	5 cut(s)	179, 264, 500, 538, 627
Hpy8I	GTNNAC	1 cut(s)	122
Hpy99I	CGWCG	1 cut(s)	45
HpyAV	CCTTC	2 cut(s)	633, 684
HpyCH4III	ACNGT	2 cut(s)	100, 668
HpyCH4V	TGCA	3 cut(s)	4, 221, 488
HpyF10VI	GCNNNNNNNGC	2 cut(s)	10, 280
Hsp92II	CATG	2 cut(s)	376, 664
HspAI	GCGC	2 cut(s)	65, 274
KspI	CCGCGG	1 cut(s)	361
Lsp1109I	GCAGC	2 cut(s)	136, 233
MaeI	CTAG	2 cut(s)	117, 336
MaeIII	GTNAC	1 cut(s)	316
MboII	GAAGA	5 cut(s)	396, 405, 642, 645, 708
MfeI	CAATTG	1 cut(s)	92
MhlI	GDGCHC	1 cut(s)	271
MluCI	AATT	4 cut(s)	92, 306, 559, 591
MlyI	GAGTC	3 cut(s)	524, 577, 668
MmeI	TCCRAC	1 cut(s)	273
MnlI	CCTC	5 cut(s)	130, 148, 433, 448, 519
MseI	TTAA	1 cut(s)	245
MslI	CAYNNNNRTG	1 cut(s)	584
MspA1I	CMGCKG	2 cut(s)	360, 584
MspI	CCGG	2 cut(s)	14, 211
MspR9I	CCNGG	2 cut(s)	211, 212
MunI	CAATTG	1 cut(s)	92
MvnI	CGCG	1 cut(s)	360
MwoI	GCNNNNNNNGC	2 cut(s)	10, 280
NciI	CCSGG	2 cut(s)	211, 212
NlaIII	CATG	2 cut(s)	376, 664
NsbI	TGCGCA	1 cut(s)	275
NspV	TTCGAA	1 cut(s)	382
OliI	CACNNNNGTG	1 cut(s)	584
PaeR7I	CTCGAG	2 cut(s)	264, 538
PaqCI	CACCTGC	1 cut(s)	493
PfeI	GAWTC	4 cut(s)	88, 104, 253, 596
PkrI	GCNGC	3 cut(s)	54, 151, 223
PleI	GAGTC	3 cut(s)	524, 576, 668
PpsI	GAGTC	3 cut(s)	524, 576, 668
PsiI	TTATAA	1 cut(s)	557
PstI	CTGCAG	2 cut(s)	223, 490
PvuII	CAGCTG	1 cut(s)	584
RsaI	GTAC	1 cut(s)	112
RsaNI	GTAC	1 cut(s)	111
RseI	CAYNNNNRTG	1 cut(s)	584
SacII	CCGCGG	1 cut(s)	361
SaqAI	TTAA	1 cut(s)	245
SatI	GCNGC	3 cut(s)	53, 150, 222
SchI	GAGTC	3 cut(s)	524, 577, 668
ScrFI	CCNGG	2 cut(s)	211, 212
SduI	GDGCHC	1 cut(s)	271
SetI	ASST	9 cut(s)	61, 304, 449, 487, 553, 586, 619, 625, 646
SfcI	CTRYAG	2 cut(s)	219, 486
Sfr274I	CTCGAG	2 cut(s)	264, 538
Sfr303I	CCGCGG	1 cut(s)	361
SfuI	TTCGAA	1 cut(s)	382
SgrBI	CCGCGG	1 cut(s)	361
SlaI	CTCGAG	2 cut(s)	264, 538
SmaI	CCCGGG	1 cut(s)	212
SmiMI	CAYNNNNRTG	1 cut(s)	584
SmlI	CTYRAG	2 cut(s)	264, 538
SmoI	CTYRAG	2 cut(s)	264, 538
Sse9I	AATT	4 cut(s)	92, 306, 559, 591
SsiI	CCGC	5 cut(s)	53, 152, 358, 360, 506
SspMI	CTAG	2 cut(s)	117, 336
StyD4I	CCNGG	2 cut(s)	209, 210
TaaI	ACNGT	2 cut(s)	100, 668
TaqI	TCGA	5 cut(s)	40, 102, 265, 382, 539
TasI	AATT	4 cut(s)	92, 306, 559, 591
TauI	GCSGC	1 cut(s)	55
TfiI	GAWTC	4 cut(s)	88, 104, 253, 596
Tru1I	TTAA	1 cut(s)	245
Tru9I	TTAA	1 cut(s)	245
TscAI	CASTG	2 cut(s)	276, 673
TseI	GCWGC	2 cut(s)	149, 221
TspDTI	ATGAA	1 cut(s)	654
TspGWI	ACGGA	1 cut(s)	58
TspMI	CCCGGG	1 cut(s)	210
TspRI	CASTG	2 cut(s)	276, 673
XapI	RAATTY	1 cut(s)	559
XhoI	CTCGAG	2 cut(s)	264, 538
XmaI	CCCGGG	1 cut(s)	210
XmiI	GTMKAC	1 cut(s)	121
XspI	CTAG	2 cut(s)	117, 336

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