Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0011471

Physical Location & Seq

Genomic Coordinates Forward (+)

444787 .. 449652

Gene Structure 4866 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG006900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGTTTATAATTTTGATGGAATTCTCAATTGAAATTCTATGTATAACGAGGTGTGTTTATTGCCAGGCTATTGCCACTGCAAGAATGAAGGGGGAGTTCCCAGAAAGAATTGGACAACCTGAATGCCAGTATTACCTGAAGACAGGAACTTGCAAGTTCGGAGCGACATGCAAGTTTCATCATCCTAGAGACAAGGCAGGAATTGCTGGAAGAGTTGCCTTAAATATCTTAGGCTATCCACTTCGACCGAATGAGATTGAATGTGCATATTATTTACGAACTGGACAATGCAAGTTTGCAAGCACTTGTAAATTCCACCATCCACAACCTACTAATATGATGGTTTCATTAAGTGGTTCTCCTGTATATCCTACTGTTCAATCTCCAACTACACCTGGTCAGCAGTCATACCCGGGAGGAGTTACAAACTGGTCAAGAGCATCTTTTATTCCCAGTCCGCGTTGGCAAGGTCCATCAAGTTATGCTCCTCTTATTGTTCCTCAGGGAGTGGTATCAGTCCCGGGATGGAGCCCATACAGTGGCCAGGTCGGCTCCATTTCAACATCAGAGGGGCAGCAGCAAACGATAGGAAGTAGTCAGGTTTATGGAACTCCACGCCAACGTGAACCGGAAAATTCAGGATCTCAAGGGGCCTTTTCTTCATACCGGTCTGGCTCCATTCCTGTAGGGTTCTATGCATTGCAGAGGGAAAATGTATTTCCTGAGAGACCTGGCCAACCAGAGTGCCAGTTTTACATGAAGACAGGTGATTGTAAGTTTGGTGCGGTTTGTAGGTTCCATCATCCTAGGGAGCGATTAATTCCTGCTCCAGATTGTGTTTTGAGTCCAATAGGCCTTCCTTTGCGACCGGGAGAACCTTTGTGCATCTTTTATTCTCGTTATGGTATCTGTAAGTTTGGTCCGAGTTGCAAGTTTGACCACCCTATGGGTATCTTCACTTATAACCTTTCTGCTTCATCTTCGGCTGAGAGCCCTGTGCGGCGTTTGTTGGGGTCAACATCAGGCAGCACTTCATTAAATTTATCATCAGAAGGTCTAGTTGAAGCAGGATCAACAAAGCCAAGGAGACTTTCACTATCAGAGCCTAGGCAGATGCCTTCTGCAGATGAAAATATTGACACAGAGGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0003729 GO:0003824 GO:0004518 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006417 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010313 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0016787 GO:0016788 GO:0017148 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032268 GO:0032269 GO:0034248 GO:0034249 GO:0034641 GO:0043170 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048027 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:2000112 GO:2000113

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

383

Amino Acids

42.01

Weight (kDa)

8.73

Isoelectric Point (pI)

61.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	39 - 63	4.3e-10	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	87 - 109	1.5e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	244 - 270	5.7e-09	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	290 - 316	1.4e-10	Zinc finger C-x8-C-x5-C-x3-H type (and similar)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011471)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02830 AT3G02830
fragaria_vesca	FvH4_6g00570 FvH4_6g00570
malus_domestica	MD04G1244100.v1.1 MD12G1259900.v1.1
prunus_persica	Prupe.6G360600_v2.0.a1
pyrus_communis	pycom04g21500 pycom12g23800
rosa_chinensis	RchiOBHm_Chr3g0447961
rosa_laevigata	RLG00000025957
rosa_multiflora	Rmu_co8476507.1_g000001
rosa_roxburghii	Rroxscaffold_6G00426150
rosa_rugosa	Rorug02G0607300 Rorug02G0607400
rosa_samantha	Rh3AG006600 Rh3BG006300 Rh3CG006500 Rh3DG006900
rosa_wichuraiana	Rw3G000530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	8, 963
AccB7I	CCANNNNNTGG	2 cut(s)	539, 946
AccII	CGCG	1 cut(s)	460
AciI	CCGC	3 cut(s)	458, 785, 1000
AclWI	GGATC	2 cut(s)	649, 1078
AcoI	YGGCCR	2 cut(s)	541, 733
AcsI	RAATTY	5 cut(s)	20, 33, 311, 634, 1039
AcuI	CTGAAG	1 cut(s)	158
AfiI	CCNNNNNNNGG	2 cut(s)	539, 946
AgeI	ACCGGT	1 cut(s)	666
AgsI	TTSAA	5 cut(s)	32, 260, 380, 561, 1064
AjnI	CCWGG	4 cut(s)	63, 394, 543, 730
AjuI	GAANNNNNNNTTGG	2 cut(s)	1075, 1107
Alw26I	GTCTC	3 cut(s)	183, 721, 1081
AlwI	GGATC	2 cut(s)	649, 1078
Ama87I	CYCGRG	2 cut(s)	412, 520
AoxI	GGCC	4 cut(s)	541, 651, 733, 853
ApeKI	GCWGC	3 cut(s)	574, 577, 1026
ApoI	RAATTY	5 cut(s)	20, 33, 311, 634, 1039
AseI	ATTAAT	1 cut(s)	818
AsiGI	ACCGGT	1 cut(s)	666
AspA2I	CCTAGG	2 cut(s)	806, 1106
AspS9I	GGNCC	3 cut(s)	470, 651, 920
AsuC2I	CCSGG	5 cut(s)	413, 414, 521, 522, 870
AsuHPI	GGTGA	1 cut(s)	779
AvaI	CYCGRG	2 cut(s)	412, 520
AvaII	GGWCC	2 cut(s)	470, 920
AvrII	CCTAGG	2 cut(s)	806, 1106
AxyI	CCTNAGG	1 cut(s)	501
BalI	TGGCCA	2 cut(s)	543, 735
BanII	GRGCYC	2 cut(s)	533, 995
BbsI	GAAGAC	2 cut(s)	146, 767
BbvI	GCAGC	3 cut(s)	586, 589, 1038
BccI	CCATC	6 cut(s)	10, 327, 334, 481, 519, 807
BciT130I	CCWGG	4 cut(s)	65, 396, 545, 732
BcnI	CCSGG	5 cut(s)	413, 414, 521, 522, 870
BcoDI	GTCTC	3 cut(s)	183, 721, 1081
BfaI	CTAG	4 cut(s)	186, 807, 1058, 1107
BfmI	CTRYAG	2 cut(s)	684, 1122
BglI	GCCNNNNNGGC	1 cut(s)	549
BisI	GCNGC	4 cut(s)	575, 578, 1001, 1027
BlnI	CCTAGG	2 cut(s)	806, 1106
BlsI	GCNGC	4 cut(s)	576, 579, 1002, 1028
Bme1390I	CCNGG	9 cut(s)	65, 396, 413, 414, 521, 522, 545, 732, 870
Bme18I	GGWCC	2 cut(s)	470, 920
BmeT110I	CYCGRG	2 cut(s)	412, 520
BmgT120I	GGNCC	3 cut(s)	470, 651, 920
BmiI	GGNNCC	5 cut(s)	530, 553, 652, 676, 797
BmrFI	CCNGG	9 cut(s)	65, 396, 413, 414, 521, 522, 545, 732, 870
BmrI	ACTGGG	1 cut(s)	447
BmsI	GCATC	3 cut(s)	449, 894, 1104
BmuI	ACTGGG	1 cut(s)	447
BpiI	GAAGAC	2 cut(s)	146, 767
BpmI	CTGGAG	1 cut(s)	813
BpuEI	CTTGAG	1 cut(s)	630
BpuMI	CCSGG	5 cut(s)	413, 414, 521, 522, 870
BsaI	GGTCTC	1 cut(s)	721
BsaJI	CCNNGG	5 cut(s)	412, 520, 806, 1082, 1106
BsaWI	WCCGGW	2 cut(s)	628, 666
Bsc4I	CCNNNNNNNGG	2 cut(s)	539, 946
Bse118I	RCCGGY	1 cut(s)	666
Bse1I	ACTGG	5 cut(s)	127, 286, 434, 453, 748
Bse21I	CCTNAGG	1 cut(s)	501
Bse3DI	GCAATG	1 cut(s)	698
BseBI	CCWGG	4 cut(s)	65, 396, 545, 732
BseDI	CCNNGG	5 cut(s)	412, 520, 806, 1082, 1106
BseGI	GGATG	4 cut(s)	181, 319, 530, 802
BseLI	CCNNNNNNNGG	2 cut(s)	539, 946
BseMI	GCAATG	1 cut(s)	698
BseMII	CTCAG	3 cut(s)	515, 714, 978
BseNI	ACTGG	5 cut(s)	127, 286, 434, 453, 748
BseRI	GAGGAG	2 cut(s)	432, 477
BseXI	GCAGC	3 cut(s)	586, 589, 1038
Bsh1236I	CGCG	1 cut(s)	460
Bsh1285I	CGRYCG	2 cut(s)	248, 869
BshFI	GGCC	4 cut(s)	543, 653, 735, 855
BshTI	ACCGGT	1 cut(s)	666
BsiEI	CGRYCG	2 cut(s)	248, 869
BsiHKCI	CYCGRG	2 cut(s)	412, 520
BsiSI	CCGG	5 cut(s)	413, 521, 629, 667, 869
BslFI	GGGAC	1 cut(s)	503
BslI	CCNNNNNNNGG	2 cut(s)	539, 946
BsmAI	GTCTC	3 cut(s)	183, 721, 1081
BsmFI	GGGAC	1 cut(s)	503
BsmI	GAATGC	1 cut(s)	128
BsnI	GGCC	4 cut(s)	543, 653, 735, 855
Bso31I	GGTCTC	1 cut(s)	721
BsoBI	CYCGRG	2 cut(s)	412, 520
Bsp1286I	GDGCHC	2 cut(s)	533, 995
Bsp143I	GATC	2 cut(s)	641, 1070
BspACI	CCGC	3 cut(s)	458, 785, 1000
BspANI	GGCC	4 cut(s)	543, 653, 735, 855
BspCNI	CTCAG	3 cut(s)	514, 715, 979
BspFNI	CGCG	1 cut(s)	460
BspLI	GGNNCC	5 cut(s)	530, 553, 652, 676, 797
BspMAI	CTGCAG	1 cut(s)	1126
BspPI	GGATC	2 cut(s)	649, 1078
BspTNI	GGTCTC	1 cut(s)	721
BsrDI	GCAATG	1 cut(s)	698
BsrFI	RCCGGY	1 cut(s)	666
BsrI	ACTGG	5 cut(s)	127, 286, 434, 453, 748
BssAI	RCCGGY	1 cut(s)	666
BssECI	CCNNGG	5 cut(s)	412, 520, 806, 1082, 1106
BssMI	GATC	2 cut(s)	641, 1070
BssT1I	CCWWGG	3 cut(s)	806, 1082, 1106
Bst2UI	CCWGG	4 cut(s)	65, 396, 545, 732
Bst4CI	ACNGT	2 cut(s)	376, 539
Bst6I	CTCTTC	1 cut(s)	205
BstAPI	GCANNNNNTGC	1 cut(s)	203
BstC8I	GCNNGC	1 cut(s)	301
BstDEI	CTNAG	4 cut(s)	229, 501, 723, 987
BstF5I	GGATG	4 cut(s)	181, 319, 530, 802
BstFNI	CGCG	1 cut(s)	460
BstKTI	GATC	2 cut(s)	644, 1073
BstMAI	GTCTC	3 cut(s)	183, 721, 1081
BstMBI	GATC	2 cut(s)	641, 1070
BstMCI	CGRYCG	2 cut(s)	248, 869
BstMWI	GCNNNNNNNGC	2 cut(s)	203, 549
BstNI	CCWGG	4 cut(s)	65, 396, 545, 732
BstNSI	RCATGY	1 cut(s)	171
BstSCI	CCNGG	9 cut(s)	63, 394, 411, 412, 519, 520, 543, 730, 868
BstSFI	CTRYAG	2 cut(s)	684, 1122
BstUI	CGCG	1 cut(s)	460
BstV1I	GCAGC	3 cut(s)	586, 589, 1038
BstV2I	GAAGAC	2 cut(s)	146, 767
BstX2I	RGATCY	1 cut(s)	641
BstYI	RGATCY	1 cut(s)	641
Bsu36I	CCTNAGG	1 cut(s)	501
BsuRI	GGCC	4 cut(s)	543, 653, 735, 855
BtsCI	GGATG	4 cut(s)	181, 319, 530, 802
BtsI	GCAGTG	1 cut(s)	75
BtsIMutI	CAGTG	2 cut(s)	75, 544
Cac8I	GCNNGC	1 cut(s)	301
Cfr10I	RCCGGY	1 cut(s)	666
Cfr13I	GGNCC	3 cut(s)	470, 651, 920
Cfr9I	CCCGGG	2 cut(s)	412, 520
CsiI	ACCWGGT	1 cut(s)	394
CspAI	ACCGGT	1 cut(s)	666
CviAII	CATG	2 cut(s)	168, 757
DdeI	CTNAG	4 cut(s)	229, 501, 723, 987
DpnI	GATC	2 cut(s)	643, 1072
DpnII	GATC	2 cut(s)	641, 1070
EaeI	YGGCCR	2 cut(s)	541, 733
Eam1104I	CTCTTC	1 cut(s)	205
EarI	CTCTTC	1 cut(s)	205
Eco130I	CCWWGG	3 cut(s)	806, 1082, 1106
Eco147I	AGGCCT	1 cut(s)	855
Eco24I	GRGCYC	2 cut(s)	533, 995
Eco31I	GGTCTC	1 cut(s)	721
Eco47I	GGWCC	2 cut(s)	470, 920
Eco57I	CTGAAG	1 cut(s)	158
Eco81I	CCTNAGG	1 cut(s)	501
Eco88I	CYCGRG	2 cut(s)	412, 520
EcoO109I	RGGNCCY	1 cut(s)	651
EcoRI	GAATTC	1 cut(s)	20
EcoRII	CCWGG	4 cut(s)	63, 394, 543, 730
EcoT14I	CCWWGG	3 cut(s)	806, 1082, 1106
EcoT22I	ATGCAT	1 cut(s)	700
EcoT38I	GRGCYC	2 cut(s)	533, 995
ErhI	CCWWGG	3 cut(s)	806, 1082, 1106
FaeI	CATG	2 cut(s)	171, 760
FalI	AAGNNNNNCTT	2 cut(s)	427, 459
FaqI	GGGAC	1 cut(s)	503
FatI	CATG	2 cut(s)	167, 756
Fnu4HI	GCNGC	4 cut(s)	575, 578, 1001, 1027
FokI	GGATG	4 cut(s)	168, 306, 537, 789
FriOI	GRGCYC	2 cut(s)	533, 995
Fsp4HI	GCNGC	4 cut(s)	575, 578, 1001, 1027
FspBI	CTAG	4 cut(s)	186, 807, 1058, 1107
GluI	GCNGC	4 cut(s)	575, 578, 1001, 1027
GsuI	CTGGAG	1 cut(s)	813
HaeIII	GGCC	4 cut(s)	543, 653, 735, 855
HapII	CCGG	5 cut(s)	413, 521, 629, 667, 869
Hin1II	CATG	2 cut(s)	171, 760
HincII	GTYRAC	1 cut(s)	1017
HindII	GTYRAC	1 cut(s)	1017
HinfI	GANTC	1 cut(s)	844
HpaII	CCGG	5 cut(s)	413, 521, 629, 667, 869
HphI	GGTGA	1 cut(s)	779
Hpy166II	GTNNAC	2 cut(s)	626, 1017
Hpy188I	TCNGA	5 cut(s)	161, 568, 924, 1051, 1102
Hpy188III	TCNNGA	4 cut(s)	435, 639, 722, 830
Hpy8I	GTNNAC	2 cut(s)	626, 1017
HpyAV	CCTTC	4 cut(s)	82, 866, 1046, 1128
HpyCH4III	ACNGT	2 cut(s)	376, 539
HpyCH4IV	ACGT	1 cut(s)	622
HpyF10VI	GCNNNNNNNGC	2 cut(s)	203, 549
HpyF3I	CTNAG	4 cut(s)	229, 501, 723, 987
HpySE526I	ACGT	1 cut(s)	622
Hsp92II	CATG	2 cut(s)	171, 760
Kzo9I	GATC	2 cut(s)	641, 1070
LmnI	GCTCC	7 cut(s)	161, 490, 528, 557, 680, 811, 832
Lsp1109I	GCAGC	3 cut(s)	586, 589, 1038
LweI	GCATC	3 cut(s)	449, 894, 1104
MabI	ACCWGGT	1 cut(s)	394
MaeI	CTAG	4 cut(s)	186, 807, 1058, 1107
MaeII	ACGT	1 cut(s)	622
MaeIII	GTNAC	1 cut(s)	421
MalI	GATC	2 cut(s)	643, 1072
MboI	GATC	2 cut(s)	641, 1070
MboII	GAAGA	6 cut(s)	151, 222, 651, 772, 946, 972
MfeI	CAATTG	1 cut(s)	27
MflI	RGATCY	1 cut(s)	641
MhlI	GDGCHC	2 cut(s)	533, 995
MlsI	TGGCCA	2 cut(s)	543, 735
MluNI	TGGCCA	2 cut(s)	543, 735
MlyI	GAGTC	1 cut(s)	853
MmeI	TCCRAC	1 cut(s)	410
MnlI	CCTC	7 cut(s)	42, 410, 498, 510, 562, 699, 1138
Mox20I	TGGCCA	2 cut(s)	543, 735
Mph1103I	ATGCAT	1 cut(s)	700
MscI	TGGCCA	2 cut(s)	543, 735
MseI	TTAA	4 cut(s)	221, 350, 818, 1037
Msp20I	TGGCCA	2 cut(s)	543, 735
MspI	CCGG	5 cut(s)	413, 521, 629, 667, 869
MspR9I	CCNGG	9 cut(s)	65, 396, 413, 414, 521, 522, 545, 732, 870
MunI	CAATTG	1 cut(s)	27
Mva1269I	GAATGC	1 cut(s)	128
MvaI	CCWGG	4 cut(s)	65, 396, 545, 732
MvnI	CGCG	1 cut(s)	460
MwoI	GCNNNNNNNGC	2 cut(s)	203, 549
NciI	CCSGG	5 cut(s)	413, 414, 521, 522, 870
NdeII	GATC	2 cut(s)	641, 1070
NlaIII	CATG	2 cut(s)	171, 760
NlaIV	GGNNCC	5 cut(s)	530, 553, 652, 676, 797
NsiI	ATGCAT	1 cut(s)	700
NspI	RCATGY	1 cut(s)	171
PceI	AGGCCT	1 cut(s)	855
PctI	GAATGC	1 cut(s)	128
PflMI	CCANNNNNTGG	2 cut(s)	539, 946
PinAI	ACCGGT	1 cut(s)	666
PkrI	GCNGC	4 cut(s)	576, 579, 1002, 1028
PleI	GAGTC	1 cut(s)	852
PpsI	GAGTC	1 cut(s)	852
PshBI	ATTAAT	1 cut(s)	818
PsiI	TTATAA	2 cut(s)	8, 963
Psp6I	CCWGG	4 cut(s)	63, 394, 543, 730
PspGI	CCWGG	4 cut(s)	63, 394, 543, 730
PspN4I	GGNNCC	5 cut(s)	530, 553, 652, 676, 797
PspPI	GGNCC	3 cut(s)	470, 651, 920
PstI	CTGCAG	1 cut(s)	1126
PsuI	RGATCY	1 cut(s)	641
SaqAI	TTAA	4 cut(s)	221, 350, 818, 1037
SatI	GCNGC	4 cut(s)	575, 578, 1001, 1027
Sau3AI	GATC	2 cut(s)	641, 1070
Sau96I	GGNCC	3 cut(s)	470, 651, 920
SchI	GAGTC	1 cut(s)	853
ScrFI	CCNGG	9 cut(s)	65, 396, 413, 414, 521, 522, 545, 732, 870
SduI	GDGCHC	2 cut(s)	533, 995
SexAI	ACCWGGT	1 cut(s)	394
SfaNI	GCATC	3 cut(s)	449, 894, 1104
SfcI	CTRYAG	2 cut(s)	684, 1122
SinI	GGWCC	2 cut(s)	470, 920
SmaI	CCCGGG	2 cut(s)	414, 522
SmlI	CTYRAG	1 cut(s)	645
SmoI	CTYRAG	1 cut(s)	645
SseBI	AGGCCT	1 cut(s)	855
SsiI	CCGC	3 cut(s)	458, 785, 1000
SspI	AATATT	1 cut(s)	1135
SspMI	CTAG	4 cut(s)	186, 807, 1058, 1107
StuI	AGGCCT	1 cut(s)	855
StyD4I	CCNGG	9 cut(s)	63, 394, 411, 412, 519, 520, 543, 730, 868
StyI	CCWWGG	3 cut(s)	806, 1082, 1106
TaaI	ACNGT	2 cut(s)	376, 539
TaiI	ACGT	1 cut(s)	625
TaqI	TCGA	1 cut(s)	244
TaqII	GACCGA	1 cut(s)	262
TauI	GCSGC	1 cut(s)	1003
Tru1I	TTAA	4 cut(s)	221, 350, 818, 1037
Tru9I	TTAA	4 cut(s)	221, 350, 818, 1037
TscAI	CASTG	2 cut(s)	82, 544
TseI	GCWGC	3 cut(s)	574, 577, 1026
TspDTI	ATGAA	8 cut(s)	101, 167, 336, 651, 773, 966, 1023, 1143
TspMI	CCCGGG	2 cut(s)	412, 520
TspRI	CASTG	2 cut(s)	82, 544
Van91I	CCANNNNNTGG	2 cut(s)	539, 946
VpaK11BI	GGWCC	2 cut(s)	470, 920
VspI	ATTAAT	1 cut(s)	818
XapI	RAATTY	5 cut(s)	20, 33, 311, 634, 1039
XceI	RCATGY	1 cut(s)	171
XmaI	CCCGGG	2 cut(s)	412, 520
XmaJI	CCTAGG	2 cut(s)	806, 1106
XspI	CTAG	4 cut(s)	186, 807, 1058, 1107
Zsp2I	ATGCAT	1 cut(s)	700

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