Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0006077

Physical Location & Seq

Genomic Coordinates Forward (+)

37452145 .. 37453257

Gene Structure 1113 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG336000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGCAGATTCCGGTGGAAATGCAGAACCTGGAGAAGTTTGCAACTTCTTCAGGAAGCCAACAACAAAGAGAAATTTCAGAAAGCGTACTTCTGAAGCTGAGGACAATGAGGAATCAAATTCTGGGAGTGCGGTATTACCAAGTCAAAGAAAAGCTGCAAAGCCTGATGGCAAGTTGTTTTTTTCTAGTGGACCCTCTAAGAGCTCTGCATCTGATGATGGGAAAGTAATTTTTGAGTTTAAGTCTTCAAAAGAAATCCAAGTTGAACACGATAGCAGAGCAACAGCGACACTGGAGACTGAGACTGAGTTCTCTAGAGATGCCCGGGCAGTTCGAGAGAGAGTTCTTAAGCAGTCAGAGGAGGCCTTGAAGGGAACCGGGAAAAGCACAGGCAATGAAAAACTGTATAAAGGGCTCCATGGATATACTGATCACAAGGCTGGGTTTCGTAGAGAGCTAACAGTGGCCAGTGAAAAAGCGGGAGGTTCCCATGGGCCTCTCAGGGCTTCTGCACACATCAGGGCTTCCACACGATTTGATTATCAGCCAGATATCTGTAAGGATTACAAAGAGACTGGTTACTGCGGGTATGGAGATTCCTGCAAGTTTATGCATGATCGTGGGGACTACAAGTCTGGCTGGCAGATGGAAAGGGAGTGGGATGAAGCAGAGAAAGTCAGGAAGAGAAATTTAGCTTTGCGTGAGGCTGGTGAGGAAGTTGATGACGACGATGACGACGACGACGATGACGATGACTCGTTACCCTTTGCATGTTTCATCTGCAGACAAACTTTTGTTGATCCTGTTGTAACCAAGTGCAACCACTACTTCTGCGAGCACTGTGCACTAAAGCATCATTCAAAGAACAAGAAGTGCTTTGTGTGCAACAAGCCGACTCTTGGCATTTTCAATACAGCTCATGAAATACGCAAAAGGATAGCTGCAGAGGGCAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016071 GO:0016074 GO:0032991 GO:0034247 GO:0034470 GO:0034641 GO:0034660 GO:0043144 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0071704 GO:0090304 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3 zf-CCCH

Protein Analysis

318

Amino Acids

35.74

Weight (kDa)

6.44

Isoelectric Point (pI)

37.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	181 - 206	5e-10	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_DUS3L	PF25585	183 - 211	3.4e-06	DUS3L CCCH zinc finger domain
zf-C3HC4_3	PF13920	257 - 299	3e-08	Zinc finger, C3HC4 type (RING finger)

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: OG0006077)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G01350
fragaria_vesca	FvH4_6g10411 FvH4_6g10411
malus_domestica	MD01G1079100.v1.1 MD04G1169800.v1.1 MD07G1148000.v1.1
prunus_persica	Prupe.6G288300_v2.0.a1 Prupe.6G288300_v2.0.a1 Prupe.6G288300_v2.0.a1 Prupe.6G288300_v2.0.a1
pyrus_communis	pycom01g10740 pycom04g15070 pycom07g14690
rosa_chinensis	RchiOBHm_Chr3g0492261
rosa_laevigata	RLG00000022787
rosa_multiflora	Rmu_sc0002530.1_g000012 Rmu_sc0003579.1_g000008
rosa_roxburghii	Rroxscaffold_6G00392460
rosa_rugosa	Rorug03G0252800 Rorug03G0252900 Rorug03G0253000
rosa_samantha	Rh3AG302800 Rh3BG338400 Rh3BG338800 Rh3CG336000 Rh3DG338000
rosa_wichuraiana	Rw3G026710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	131, 479, 585
AclWI	GGATC	1 cut(s)	794
AcoI	YGGCCR	1 cut(s)	465
AcsI	RAATTY	3 cut(s)	73, 118, 688
AcuI	CTGAAG	2 cut(s)	34, 114
AfaI	GTAC	1 cut(s)	88
AfiI	CCNNNNNNNGG	1 cut(s)	899
AflII	CTTAAG	1 cut(s)	347
AgsI	TTSAA	5 cut(s)	249, 266, 370, 861, 910
AhdI	GACNNNNNGTC	1 cut(s)	631
AjnI	CCWGG	1 cut(s)	28
AluBI	AGCT	7 cut(s)	98, 155, 204, 457, 695, 917, 941
AluI	AGCT	7 cut(s)	98, 155, 204, 457, 695, 917, 941
Alw21I	GWGCWC	3 cut(s)	206, 840, 847
Alw26I	GTCTC	3 cut(s)	290, 296, 566
Alw44I	GTGCAC	1 cut(s)	843
AlwI	GGATC	1 cut(s)	794
AlwNI	CAGNNNCTG	1 cut(s)	29
Ama87I	CYCGRG	1 cut(s)	324
AoxI	GGCC	3 cut(s)	363, 465, 494
ApaLI	GTGCAC	1 cut(s)	843
ApeKI	GCWGC	2 cut(s)	155, 941
ApoI	RAATTY	3 cut(s)	73, 118, 688
AspS9I	GGNCC	2 cut(s)	191, 494
AsuC2I	CCSGG	3 cut(s)	325, 326, 379
AsuHPI	GGTGA	1 cut(s)	722
AvaI	CYCGRG	1 cut(s)	324
AvaII	GGWCC	1 cut(s)	191
BaeGI	GKGCMC	1 cut(s)	847
BalI	TGGCCA	1 cut(s)	467
BanII	GRGCYC	2 cut(s)	206, 417
BbsI	GAAGAC	1 cut(s)	237
Bbv12I	GWGCWC	3 cut(s)	206, 840, 847
BbvCI	CCTCAGC	1 cut(s)	99
BbvI	GCAGC	2 cut(s)	142, 928
BccI	CCATC	3 cut(s)	161, 212, 640
BcgI	CGANNNNNNTGC	2 cut(s)	824, 858
BciT130I	CCWGG	1 cut(s)	30
BclI	TGATCA	1 cut(s)	430
BcnI	CCSGG	3 cut(s)	325, 326, 379
BcoDI	GTCTC	3 cut(s)	290, 296, 566
BfaI	CTAG	2 cut(s)	186, 315
BfmI	CTRYAG	2 cut(s)	781, 942
BfrI	CTTAAG	1 cut(s)	347
BisI	GCNGC	2 cut(s)	156, 942
BlsI	GCNGC	2 cut(s)	157, 943
Bme1390I	CCNGG	4 cut(s)	30, 325, 326, 379
Bme18I	GGWCC	1 cut(s)	191
BmeRI	GACNNNNNGTC	1 cut(s)	631
BmeT110I	CYCGRG	1 cut(s)	324
BmgT120I	GGNCC	2 cut(s)	191, 494
BmiI	GGNNCC	4 cut(s)	193, 376, 416, 487
BmrFI	CCNGG	4 cut(s)	30, 325, 326, 379
BmsI	GCATC	3 cut(s)	218, 310, 862
BpiI	GAAGAC	1 cut(s)	237
BpmI	CTGGAG	2 cut(s)	51, 314
Bpu10I	CCTNAGC	1 cut(s)	99
BpuMI	CCSGG	3 cut(s)	325, 326, 379
BsaJI	CCNNGG	3 cut(s)	324, 418, 490
BsaWI	WCCGGW	1 cut(s)	11
Bsc4I	CCNNNNNNNGG	1 cut(s)	899
Bse1I	ACTGG	3 cut(s)	297, 468, 580
Bse3DI	GCAATG	1 cut(s)	400
BseBI	CCWGG	1 cut(s)	30
BseDI	CCNNGG	3 cut(s)	324, 418, 490
BseGI	GGATG	1 cut(s)	667
BseLI	CCNNNNNNNGG	1 cut(s)	899
BseMI	GCAATG	1 cut(s)	400
BseMII	CTCAG	4 cut(s)	90, 291, 297, 514
BseNI	ACTGG	3 cut(s)	297, 468, 580
BseRI	GAGGAG	1 cut(s)	374
BseSI	GKGCMC	1 cut(s)	847
BseXI	GCAGC	2 cut(s)	142, 928
BseYI	CCCAGC	1 cut(s)	440
BsgI	GTGCAG	1 cut(s)	495
BshFI	GGCC	3 cut(s)	365, 467, 496
BsiHKAI	GWGCWC	3 cut(s)	206, 840, 847
BsiHKCI	CYCGRG	1 cut(s)	324
BsiSI	CCGG	3 cut(s)	12, 325, 378
BslFI	GGGAC	1 cut(s)	638
BslI	CCNNNNNNNGG	1 cut(s)	899
BsmAI	GTCTC	3 cut(s)	290, 296, 566
BsmFI	GGGAC	1 cut(s)	638
BsnI	GGCC	3 cut(s)	365, 467, 496
BsoBI	CYCGRG	1 cut(s)	324
Bsp1286I	GDGCHC	4 cut(s)	206, 417, 840, 847
Bsp143I	GATC	3 cut(s)	430, 616, 799
Bsp19I	CCATGG	2 cut(s)	418, 490
BspACI	CCGC	3 cut(s)	131, 479, 585
BspANI	GGCC	3 cut(s)	365, 467, 496
BspCNI	CTCAG	4 cut(s)	91, 292, 298, 513
BspHI	TCATGA	1 cut(s)	919
BspLI	GGNNCC	4 cut(s)	193, 376, 416, 487
BspMAI	CTGCAG	2 cut(s)	785, 946
BspPI	GGATC	1 cut(s)	794
BspTI	CTTAAG	1 cut(s)	347
BsrDI	GCAATG	1 cut(s)	400
BsrI	ACTGG	3 cut(s)	297, 468, 580
BssECI	CCNNGG	3 cut(s)	324, 418, 490
BssMI	GATC	3 cut(s)	430, 616, 799
BssT1I	CCWWGG	2 cut(s)	418, 490
Bst2UI	CCWGG	1 cut(s)	30
Bst4CI	ACNGT	3 cut(s)	405, 463, 842
Bst6I	CTCTTC	1 cut(s)	677
BstAFI	CTTAAG	1 cut(s)	347
BstC8I	GCNNGC	2 cut(s)	641, 836
BstDEI	CTNAG	5 cut(s)	99, 198, 300, 306, 500
BstDSI	CCRYGG	2 cut(s)	418, 490
BstF5I	GGATG	1 cut(s)	667
BstKTI	GATC	3 cut(s)	433, 619, 802
BstMAI	GTCTC	3 cut(s)	290, 296, 566
BstMBI	GATC	3 cut(s)	430, 616, 799
BstMWI	GCNNNNNNNGC	1 cut(s)	882
BstNI	CCWGG	1 cut(s)	30
BstNSI	RCATGY	1 cut(s)	774
BstSCI	CCNGG	4 cut(s)	28, 323, 324, 377
BstSFI	CTRYAG	2 cut(s)	781, 942
BstSLI	GKGCMC	1 cut(s)	847
BstV1I	GCAGC	2 cut(s)	142, 928
BstV2I	GAAGAC	1 cut(s)	237
BsuRI	GGCC	3 cut(s)	365, 467, 496
BtgI	CCRYGG	2 cut(s)	418, 490
BtsCI	GGATG	1 cut(s)	667
BtsIMutI	CAGTG	4 cut(s)	290, 468, 475, 838
Cac8I	GCNNGC	2 cut(s)	641, 836
CaiI	CAGNNNCTG	1 cut(s)	29
CciI	TCATGA	1 cut(s)	919
Cfr13I	GGNCC	2 cut(s)	191, 494
Cfr9I	CCCGGG	1 cut(s)	324
Csp6I	GTAC	1 cut(s)	87
CspCI	CAANNNNNGTGG	2 cut(s)	517, 552
CviAII	CATG	5 cut(s)	419, 491, 614, 771, 920
CviQI	GTAC	1 cut(s)	87
DdeI	CTNAG	5 cut(s)	99, 198, 300, 306, 500
DpnI	GATC	3 cut(s)	432, 618, 801
DpnII	GATC	3 cut(s)	430, 616, 799
DriI	GACNNNNNGTC	1 cut(s)	631
EaeI	YGGCCR	1 cut(s)	465
Eam1104I	CTCTTC	1 cut(s)	677
Eam1105I	GACNNNNNGTC	1 cut(s)	631
EarI	CTCTTC	1 cut(s)	677
Ecl136II	GAGCTC	1 cut(s)	204
Eco130I	CCWWGG	2 cut(s)	418, 490
Eco147I	AGGCCT	1 cut(s)	365
Eco24I	GRGCYC	2 cut(s)	206, 417
Eco32I	GATATC	1 cut(s)	553
Eco47I	GGWCC	1 cut(s)	191
Eco53kI	GAGCTC	1 cut(s)	204
Eco57I	CTGAAG	2 cut(s)	34, 114
Eco88I	CYCGRG	1 cut(s)	324
EcoICRI	GAGCTC	1 cut(s)	204
EcoRII	CCWGG	1 cut(s)	28
EcoRV	GATATC	1 cut(s)	553
EcoT14I	CCWWGG	2 cut(s)	418, 490
EcoT22I	ATGCAT	1 cut(s)	615
EcoT38I	GRGCYC	2 cut(s)	206, 417
ErhI	CCWWGG	2 cut(s)	418, 490
FaeI	CATG	5 cut(s)	422, 494, 617, 774, 923
FaiI	YATR	9 cut(s)	408, 420, 426, 492, 591, 611, 615, 772, 921
FalI	AAGNNNNNCTT	2 cut(s)	860, 892
FaqI	GGGAC	1 cut(s)	638
FatI	CATG	5 cut(s)	418, 490, 613, 770, 919
FauI	CCCGC	2 cut(s)	472, 578
FbaI	TGATCA	1 cut(s)	430
Fnu4HI	GCNGC	2 cut(s)	156, 942
FokI	GGATG	1 cut(s)	674
FriOI	GRGCYC	2 cut(s)	206, 417
Fsp4HI	GCNGC	2 cut(s)	156, 942
FspBI	CTAG	2 cut(s)	186, 315
GluI	GCNGC	2 cut(s)	156, 942
GsaI	CCCAGC	1 cut(s)	444
GsuI	CTGGAG	2 cut(s)	51, 314
HaeIII	GGCC	3 cut(s)	365, 467, 496
HapII	CCGG	3 cut(s)	12, 325, 378
Hin1II	CATG	5 cut(s)	422, 494, 617, 774, 923
HinfI	GANTC	5 cut(s)	8, 113, 596, 755, 895
HpaII	CCGG	3 cut(s)	12, 325, 378
HphI	GGTGA	1 cut(s)	722
Hpy166II	GTNNAC	2 cut(s)	191, 845
Hpy188I	TCNGA	4 cut(s)	80, 94, 214, 358
Hpy188III	TCNNGA	5 cut(s)	52, 315, 335, 679, 920
Hpy8I	GTNNAC	2 cut(s)	191, 845
Hpy99I	CGWCG	4 cut(s)	731, 740, 743, 746
HpyAV	CCTTC	1 cut(s)	364
HpyCH4III	ACNGT	3 cut(s)	405, 463, 842
HpyF10VI	GCNNNNNNNGC	1 cut(s)	882
HpyF3I	CTNAG	5 cut(s)	99, 198, 300, 306, 500
Hsp92II	CATG	5 cut(s)	422, 494, 617, 774, 923
Ksp22I	TGATCA	1 cut(s)	430
Kzo9I	GATC	3 cut(s)	430, 616, 799
LmnI	GCTCC	1 cut(s)	420
Lsp1109I	GCAGC	2 cut(s)	142, 928
LweI	GCATC	3 cut(s)	218, 310, 862
MaeI	CTAG	2 cut(s)	186, 315
MaeIII	GTNAC	3 cut(s)	578, 759, 808
MalI	GATC	3 cut(s)	432, 618, 801
MboI	GATC	3 cut(s)	430, 616, 799
MboII	GAAGA	3 cut(s)	40, 237, 694
MhlI	GDGCHC	4 cut(s)	206, 417, 840, 847
MlsI	TGGCCA	1 cut(s)	467
MluCI	AATT	4 cut(s)	73, 118, 228, 688
MluNI	TGGCCA	1 cut(s)	467
MlyI	GAGTC	2 cut(s)	749, 889
Mox20I	TGGCCA	1 cut(s)	467
Mph1103I	ATGCAT	1 cut(s)	615
MscI	TGGCCA	1 cut(s)	467
MseI	TTAA	2 cut(s)	240, 348
MslI	CAYNNNNRTG	1 cut(s)	618
Msp20I	TGGCCA	1 cut(s)	467
MspCI	CTTAAG	1 cut(s)	347
MspI	CCGG	3 cut(s)	12, 325, 378
MspR9I	CCNGG	4 cut(s)	30, 325, 326, 379
MvaI	CCWGG	1 cut(s)	30
MwoI	GCNNNNNNNGC	1 cut(s)	882
NciI	CCSGG	3 cut(s)	325, 326, 379
NcoI	CCATGG	2 cut(s)	418, 490
NdeII	GATC	3 cut(s)	430, 616, 799
NlaIII	CATG	5 cut(s)	422, 494, 617, 774, 923
NlaIV	GGNNCC	4 cut(s)	193, 376, 416, 487
NsiI	ATGCAT	1 cut(s)	615
NspI	RCATGY	1 cut(s)	774
PagI	TCATGA	1 cut(s)	919
PceI	AGGCCT	1 cut(s)	365
PcsI	WCGNNNNNNNCGW	4 cut(s)	732, 735, 741, 747
PfeI	GAWTC	3 cut(s)	8, 113, 596
PkrI	GCNGC	2 cut(s)	157, 943
PleI	GAGTC	2 cut(s)	749, 889
PpsI	GAGTC	2 cut(s)	749, 889
Psp124BI	GAGCTC	1 cut(s)	206
Psp6I	CCWGG	1 cut(s)	28
PspFI	CCCAGC	1 cut(s)	440
PspGI	CCWGG	1 cut(s)	28
PspN4I	GGNNCC	4 cut(s)	193, 376, 416, 487
PspPI	GGNCC	2 cut(s)	191, 494
PstI	CTGCAG	2 cut(s)	785, 946
PstNI	CAGNNNCTG	1 cut(s)	29
RsaI	GTAC	1 cut(s)	88
RsaNI	GTAC	1 cut(s)	87
RseI	CAYNNNNRTG	1 cut(s)	618
SacI	GAGCTC	1 cut(s)	206
SaqAI	TTAA	2 cut(s)	240, 348
SatI	GCNGC	2 cut(s)	156, 942
Sau3AI	GATC	3 cut(s)	430, 616, 799
Sau96I	GGNCC	2 cut(s)	191, 494
SchI	GAGTC	2 cut(s)	749, 889
ScrFI	CCNGG	4 cut(s)	30, 325, 326, 379
SduI	GDGCHC	4 cut(s)	206, 417, 840, 847
SetI	ASST	9 cut(s)	31, 100, 157, 206, 459, 487, 697, 919, 943
SfaNI	GCATC	3 cut(s)	218, 310, 862
SfcI	CTRYAG	2 cut(s)	781, 942
SinI	GGWCC	1 cut(s)	191
SmaI	CCCGGG	1 cut(s)	326
SmiMI	CAYNNNNRTG	1 cut(s)	618
SmlI	CTYRAG	1 cut(s)	347
SmoI	CTYRAG	1 cut(s)	347
SrfI	GCCCGGGC	1 cut(s)	326
Sse9I	AATT	4 cut(s)	73, 118, 228, 688
SseBI	AGGCCT	1 cut(s)	365
SsiI	CCGC	3 cut(s)	131, 479, 585
SspMI	CTAG	2 cut(s)	186, 315
SstI	GAGCTC	1 cut(s)	206
StuI	AGGCCT	1 cut(s)	365
StyD4I	CCNGG	4 cut(s)	28, 323, 324, 377
StyI	CCWWGG	2 cut(s)	418, 490
TaaI	ACNGT	3 cut(s)	405, 463, 842
TaqI	TCGA	1 cut(s)	334
TasI	AATT	4 cut(s)	73, 118, 228, 688
TfiI	GAWTC	3 cut(s)	8, 113, 596
Tru1I	TTAA	2 cut(s)	240, 348
Tru9I	TTAA	2 cut(s)	240, 348
TscAI	CASTG	4 cut(s)	297, 468, 475, 845
TseI	GCWGC	2 cut(s)	155, 941
TspDTI	ATGAA	4 cut(s)	411, 678, 766, 936
TspMI	CCCGGG	1 cut(s)	324
TspRI	CASTG	4 cut(s)	297, 468, 475, 845
Vha464I	CTTAAG	1 cut(s)	347
VneI	GTGCAC	1 cut(s)	843
VpaK11BI	GGWCC	1 cut(s)	191
XapI	RAATTY	3 cut(s)	73, 118, 688
XbaI	TCTAGA	1 cut(s)	314
XceI	RCATGY	1 cut(s)	774
XmaI	CCCGGG	1 cut(s)	324
XspI	CTAG	2 cut(s)	186, 315
Zsp2I	ATGCAT	1 cut(s)	615

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