Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0007795

Physical Location & Seq

Genomic Coordinates Reverse (-)

128305 .. 130249

Gene Structure 1945 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG001400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1320 bp

ATGGAGAATAGTCATAATATGATGACGGAACCAGTGATGATTTTGGATTTAAACCAACAACCTGTAGAGCAACCTCATGATTCGGTCACTGGCTTACACTCCATACTGAATGAGCTAGAAACCGCCCAAGGACGCATTGAAGAGCGTATCAGACAGCTCGAAGCAGTCACCGCTAGGCAGCGTCAGAGGTGGAGGCAAGCTCTTGTTTCCCCTCAACTTGTGAATATCACTCCGCCTGCTGATACACCAAACGAACAACACATTCACAGTCGGGATGATGATGCTCTTGCCAATGCTGCGAGAGAAAGAGACACAACAATAGAGACTGGGAAAACCAACATAACTGAGAGTACCCATTTGATAGCCAAGGCACTCGCGATGGATACAAATCCTAAGAGGGTGGAGCCTCGTATTGGGAGCTTCTTCGACTGTAATATATGCTTGGACATGGCAACAGATCCTATATTGACATGCTGCGGTCATTTGTTTTGTTGGCCATGCTTCTATCAGTTGTCTTATGCTGATTCAAATGCAAAGGAATGCCCTGTGTGCAAAGGAGAAGTGACTGATGCAAGTATAATTCCAGTTTACGGGCACGGTGATGGTAACAGTTCTCAAAAGTCAAAGGAATTTGTTTCCGAGGCCCCTCCTAGGCCCCGTGCAGCCAGGATTGAGGGTGTGAGGCAGCAGCTCATTAGGCGAGGGCCATCTTCCGTAATTGAACACAGGATTCAGCTACTAGTTGGTGCATTGGGGGAGAGAAGACAGACACAGGATTTTTTTGGTTCTCATATCAATGCAATGGCTGAAAGATCTAGTTTCTTTACCAGCCGGTATCCATCACCTGCCACCGAAACATCAAGCACCCAGCACCATGATTCACTTCAAGTTTCAAGATTATTGATGCAAAGAGCTGCTTCAGTTTCTTCCCTTTCATCAGCACTGAATGCTGCAATGGATTCAGAAAGATTAGTTGAGGATGATCTCGAGGCATATAGTAATGATCCCCGCATGAGAAGAAACCGCCAGCAATCTCCAAGTAATGATAATGGAGTTACATCTTCAAATATTGCTACAATTATACAACCAGAAAACCTGACGTCTGATACGGCTGCCGAAATCAATTCAGATGTGCTTCCAGCTGCTTCCTTTTTAAGGAGTTTTCCTGCTAGTGTGGGCTTGGAAGACCAGACAGTGAATTCAGAAATAGATTCAACATTTCGATCTTCATCTTCGAGGAGAAGAAGTAGTTTTCAGAGAGGCTCTGGTGTGAATAATAATCAGCATTCATCTGAACCCAGAAGGAGAAGGTTGAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 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:0019538 GO:0019899 GO:0030163 GO:0031984 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 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:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4_3 zf-RING_5

Protein Analysis

439

Amino Acids

48.88

Weight (kDa)

6.04

Isoelectric Point (pI)

72.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_5	PF14634	143 - 185	8.2e-08	zinc-RING finger domain
zf-C3HC4_3	PF13920	144 - 190	2.9e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	144 - 182	3.8e-07	RING-type zinc-finger
zf-C3HC4_2	PF13923	144 - 184	9.6e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	144 - 184	2.2e-06	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: OG0007795)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G44410
fragaria_vesca	FvH4_7g00150 FvH4_7g00150 FvH4_7g00150
malus_domestica	MD02G1318800.v1.1 MD07G1002400.v1.1
prunus_persica	Prupe.2G003800_v2.0.a1 Prupe.2G003800_v2.0.a1 Prupe.2G003800_v2.0.a1
pyrus_communis	pycom02g26710 pycom07g00240
rosa_chinensis	RchiOBHm_Chr1g0313401
rosa_laevigata	RLG00000030800
rosa_multiflora	Rmu_sc0000035.1_g000030 Rmu_sc0000035.1_g000044
rosa_roxburghii	Rroxscaffold_4G00332220
rosa_rugosa	RorugPtG0004700.1
rosa_samantha	Rh1AG003200 Rh1BG000200 Rh1CG001400 Rh1CG007600 Rh1DG002700 Rh1DG003100
rosa_wichuraiana	Rw1G000200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	853
AatII	GACGTC	1 cut(s)	1103
Acc36I	ACCTGC	1 cut(s)	853
AccII	CGCG	1 cut(s)	377
AciI	CCGC	6 cut(s)	123, 171, 233, 477, 1009, 1024
AclWI	GGATC	2 cut(s)	452, 998
AcoI	YGGCCR	1 cut(s)	494
AcsI	RAATTY	2 cut(s)	629, 1198
AcuI	CTGAAG	1 cut(s)	903
AcyI	GRCGYC	1 cut(s)	1100
AfaI	GTAC	1 cut(s)	352
AfiI	CCNNNNNNNGG	4 cut(s)	413, 590, 651, 1155
AgsI	TTSAA	7 cut(s)	140, 528, 722, 887, 894, 1065, 1215
AhlI	ACTAGT	1 cut(s)	739
AjnI	CCWGG	1 cut(s)	665
AluBI	AGCT	8 cut(s)	115, 157, 200, 420, 691, 736, 914, 1142
AluI	AGCT	8 cut(s)	115, 157, 200, 420, 691, 736, 914, 1142
Alw26I	GTCTC	2 cut(s)	303, 317
AlwI	GGATC	2 cut(s)	452, 998
Ama87I	CYCGRG	1 cut(s)	986
AoxI	GGCC	4 cut(s)	494, 642, 653, 704
ApoI	RAATTY	2 cut(s)	629, 1198
AspA2I	CCTAGG	1 cut(s)	650
AspS9I	GGNCC	3 cut(s)	643, 654, 704
AsuHPI	GGTGA	3 cut(s)	160, 611, 834
AvaI	CYCGRG	1 cut(s)	986
AvrII	CCTAGG	1 cut(s)	650
BaeGI	GKGCMC	1 cut(s)	597
BalI	TGGCCA	1 cut(s)	496
BbsI	GAAGAC	2 cut(s)	769, 1191
BccI	CCATC	4 cut(s)	373, 596, 715, 847
BceAI	ACGGC	1 cut(s)	1125
BciT130I	CCWGG	1 cut(s)	667
BciVI	GTATCC	2 cut(s)	376, 846
BcoDI	GTCTC	2 cut(s)	303, 317
BcuI	ACTAGT	1 cut(s)	739
BfaI	CTAG	6 cut(s)	116, 174, 651, 740, 816, 1170
BfmI	CTRYAG	1 cut(s)	63
BfuAI	ACCTGC	1 cut(s)	853
BfuI	GTATCC	2 cut(s)	376, 846
BglII	AGATCT	1 cut(s)	812
BlnI	CCTAGG	1 cut(s)	650
Bme1390I	CCNGG	1 cut(s)	667
BmeT110I	CYCGRG	1 cut(s)	986
BmgT120I	GGNCC	3 cut(s)	643, 654, 704
BmiI	GGNNCC	4 cut(s)	30, 405, 645, 656
BmrFI	CCNGG	1 cut(s)	667
BmrI	ACTGGG	1 cut(s)	336
BmsI	GCATC	3 cut(s)	271, 559, 894
BmuI	ACTGGG	1 cut(s)	336
BpiI	GAAGAC	2 cut(s)	769, 1191
BplI	GAGNNNNNCTC	2 cut(s)	184, 216
BsaBI	GATNNNNATC	2 cut(s)	387, 1228
BsaHI	GRCGYC	1 cut(s)	1100
BsaJI	CCNNGG	4 cut(s)	127, 366, 639, 650
BsaXI	ACNNNNNCTCC	2 cut(s)	1231, 1261
Bsc4I	CCNNNNNNNGG	4 cut(s)	413, 590, 651, 1155
Bse118I	RCCGGY	1 cut(s)	831
Bse1I	ACTGG	4 cut(s)	32, 94, 331, 584
Bse3DI	GCAATG	2 cut(s)	807, 960
Bse8I	GATNNNNATC	2 cut(s)	387, 1228
BseBI	CCWGG	1 cut(s)	667
BseDI	CCNNGG	4 cut(s)	127, 366, 639, 650
BseGI	GGATG	2 cut(s)	280, 985
BseJI	GATNNNNATC	2 cut(s)	387, 1228
BseLI	CCNNNNNNNGG	4 cut(s)	413, 590, 651, 1155
BseMI	GCAATG	2 cut(s)	807, 960
BseMII	CTCAG	1 cut(s)	336
BseNI	ACTGG	4 cut(s)	32, 94, 331, 584
BseRI	GAGGAG	1 cut(s)	1252
BseSI	GKGCMC	1 cut(s)	597
BseYI	CCCAGC	1 cut(s)	867
BsgI	GTGCAG	1 cut(s)	681
Bsh1236I	CGCG	1 cut(s)	377
BshFI	GGCC	4 cut(s)	496, 644, 655, 706
BsiHKCI	CYCGRG	1 cut(s)	986
BsiSI	CCGG	1 cut(s)	832
BslI	CCNNNNNNNGG	4 cut(s)	413, 590, 651, 1155
BsmAI	GTCTC	2 cut(s)	303, 317
BsmI	GAATGC	3 cut(s)	545, 952, 1285
BsnI	GGCC	4 cut(s)	496, 644, 655, 706
BsoBI	CYCGRG	1 cut(s)	986
Bsp1286I	GDGCHC	1 cut(s)	597
Bsp143I	GATC	5 cut(s)	457, 812, 982, 1003, 1223
Bsp68I	TCGCGA	1 cut(s)	377
BspACI	CCGC	6 cut(s)	123, 171, 233, 477, 1009, 1024
BspANI	GGCC	4 cut(s)	496, 644, 655, 706
BspCNI	CTCAG	1 cut(s)	337
BspFNI	CGCG	1 cut(s)	377
BspHI	TCATGA	1 cut(s)	76
BspLI	GGNNCC	4 cut(s)	30, 405, 645, 656
BspMI	ACCTGC	1 cut(s)	853
BspPI	GGATC	2 cut(s)	452, 998
BspQI	GCTCTTC	1 cut(s)	135
BsrDI	GCAATG	2 cut(s)	807, 960
BsrFI	RCCGGY	1 cut(s)	831
BsrI	ACTGG	4 cut(s)	32, 94, 331, 584
BssAI	RCCGGY	1 cut(s)	831
BssECI	CCNNGG	4 cut(s)	127, 366, 639, 650
BssMI	GATC	5 cut(s)	457, 812, 982, 1003, 1223
BssNI	GRCGYC	1 cut(s)	1100
BssT1I	CCWWGG	3 cut(s)	127, 366, 650
Bst2UI	CCWGG	1 cut(s)	667
Bst4CI	ACNGT	5 cut(s)	269, 431, 599, 611, 1195
Bst6I	CTCTTC	1 cut(s)	135
BstACI	GRCGYC	1 cut(s)	1100
BstAPI	GCANNNNNTGC	1 cut(s)	947
BstC8I	GCNNGC	3 cut(s)	198, 237, 1028
BstDEI	CTNAG	2 cut(s)	345, 393
BstENI	CCTNNNNNAGG	1 cut(s)	1153
BstF5I	GGATG	2 cut(s)	280, 985
BstFNI	CGCG	1 cut(s)	377
BstKTI	GATC	5 cut(s)	460, 815, 985, 1006, 1226
BstMAI	GTCTC	2 cut(s)	303, 317
BstMBI	GATC	5 cut(s)	457, 812, 982, 1003, 1223
BstMWI	GCNNNNNNNGC	5 cut(s)	170, 296, 549, 697, 947
BstNI	CCWGG	1 cut(s)	667
BstNSI	RCATGY	1 cut(s)	474
BstSCI	CCNGG	1 cut(s)	665
BstSFI	CTRYAG	1 cut(s)	63
BstSLI	GKGCMC	1 cut(s)	597
BstUI	CGCG	1 cut(s)	377
BstV2I	GAAGAC	2 cut(s)	769, 1191
BstX2I	RGATCY	2 cut(s)	457, 812
BstYI	RGATCY	2 cut(s)	457, 812
BsuI	GTATCC	2 cut(s)	376, 846
BsuRI	GGCC	4 cut(s)	496, 644, 655, 706
BtgZI	GCGATG	1 cut(s)	392
BtsCI	GGATG	2 cut(s)	280, 985
BtsIMutI	CAGTG	4 cut(s)	39, 87, 941, 1200
BtuMI	TCGCGA	1 cut(s)	377
BveI	ACCTGC	1 cut(s)	853
Cac8I	GCNNGC	3 cut(s)	198, 237, 1028
CciI	TCATGA	1 cut(s)	76
Cfr10I	RCCGGY	1 cut(s)	831
Cfr13I	GGNCC	3 cut(s)	643, 654, 704
CseI	GACGC	2 cut(s)	141, 170
Csp6I	GTAC	1 cut(s)	351
CviAII	CATG	6 cut(s)	77, 448, 471, 498, 875, 1012
CviQI	GTAC	1 cut(s)	351
DdeI	CTNAG	2 cut(s)	345, 393
DpnI	GATC	5 cut(s)	459, 814, 984, 1005, 1225
DpnII	GATC	5 cut(s)	457, 812, 982, 1003, 1223
DraI	TTTAAA	1 cut(s)	51
EaeI	YGGCCR	1 cut(s)	494
Eam1104I	CTCTTC	1 cut(s)	135
EarI	CTCTTC	1 cut(s)	135
EciI	GGCGGA	1 cut(s)	222
Eco130I	CCWWGG	3 cut(s)	127, 366, 650
Eco57I	CTGAAG	1 cut(s)	903
Eco88I	CYCGRG	1 cut(s)	986
EcoNI	CCTNNNNNAGG	1 cut(s)	1153
EcoO109I	RGGNCCY	2 cut(s)	643, 654
EcoRI	GAATTC	1 cut(s)	1198
EcoRII	CCWGG	1 cut(s)	665
EcoT14I	CCWWGG	3 cut(s)	127, 366, 650
ErhI	CCWWGG	3 cut(s)	127, 366, 650
FaeI	CATG	6 cut(s)	80, 451, 474, 501, 878, 1015
FalI	AAGNNNNNCTT	2 cut(s)	901, 933
FatI	CATG	6 cut(s)	76, 447, 470, 497, 874, 1011
FauI	CCCGC	1 cut(s)	1016
FokI	GGATG	2 cut(s)	287, 992
FspBI	CTAG	6 cut(s)	116, 174, 651, 740, 816, 1170
GsaI	CCCAGC	1 cut(s)	871
HaeIII	GGCC	4 cut(s)	496, 644, 655, 706
HapII	CCGG	1 cut(s)	832
HgaI	GACGC	2 cut(s)	141, 170
Hin1I	GRCGYC	1 cut(s)	1100
Hin1II	CATG	6 cut(s)	80, 451, 474, 501, 878, 1015
HinfI	GANTC	6 cut(s)	80, 524, 730, 878, 959, 1211
HpaII	CCGG	1 cut(s)	832
HphI	GGTGA	3 cut(s)	160, 611, 834
Hpy166II	GTNNAC	1 cut(s)	589
Hpy188I	TCNGA	9 cut(s)	152, 186, 640, 964, 1105, 1129, 1204, 1257, 1294
Hpy188III	TCNNGA	5 cut(s)	77, 272, 376, 894, 986
Hpy8I	GTNNAC	1 cut(s)	589
HpyAV	CCTTC	2 cut(s)	1296, 1302
HpyCH4III	ACNGT	5 cut(s)	269, 431, 599, 611, 1195
HpyCH4IV	ACGT	1 cut(s)	1100
HpyCH4V	TGCA	8 cut(s)	533, 552, 572, 662, 749, 800, 907, 953
HpyF10VI	GCNNNNNNNGC	5 cut(s)	170, 296, 549, 697, 947
HpyF3I	CTNAG	2 cut(s)	345, 393
HpySE526I	ACGT	1 cut(s)	1100
Hsp92I	GRCGYC	1 cut(s)	1100
Hsp92II	CATG	6 cut(s)	80, 451, 474, 501, 878, 1015
Kzo9I	GATC	5 cut(s)	457, 812, 982, 1003, 1223
LguI	GCTCTTC	1 cut(s)	135
LmnI	GCTCC	2 cut(s)	403, 417
LweI	GCATC	3 cut(s)	271, 559, 894
MaeI	CTAG	6 cut(s)	116, 174, 651, 740, 816, 1170
MaeII	ACGT	1 cut(s)	1100
MaeIII	GTNAC	5 cut(s)	85, 166, 562, 605, 1054
MalI	GATC	5 cut(s)	459, 814, 984, 1005, 1225
MboI	GATC	5 cut(s)	457, 812, 982, 1003, 1223
MflI	RGATCY	2 cut(s)	457, 812
MhlI	GDGCHC	1 cut(s)	597
MlsI	TGGCCA	1 cut(s)	496
MluCI	AATT	6 cut(s)	579, 629, 717, 1077, 1123, 1198
MluNI	TGGCCA	1 cut(s)	496
Mox20I	TGGCCA	1 cut(s)	496
MscI	TGGCCA	1 cut(s)	496
MseI	TTAA	2 cut(s)	50, 1154
MslI	CAYNNNNRTG	2 cut(s)	600, 795
Msp20I	TGGCCA	1 cut(s)	496
MspA1I	CMGCKG	1 cut(s)	1142
MspI	CCGG	1 cut(s)	832
MspR9I	CCNGG	1 cut(s)	667
Mva1269I	GAATGC	3 cut(s)	545, 952, 1285
MvaI	CCWGG	1 cut(s)	667
MvnI	CGCG	1 cut(s)	377
MwoI	GCNNNNNNNGC	5 cut(s)	170, 296, 549, 697, 947
NdeII	GATC	5 cut(s)	457, 812, 982, 1003, 1223
NlaIII	CATG	6 cut(s)	80, 451, 474, 501, 878, 1015
NlaIV	GGNNCC	4 cut(s)	30, 405, 645, 656
NmuCI	GTSAC	3 cut(s)	85, 166, 562
NruI	TCGCGA	1 cut(s)	377
NspI	RCATGY	1 cut(s)	474
PaeR7I	CTCGAG	1 cut(s)	986
PagI	TCATGA	1 cut(s)	76
PaqCI	CACCTGC	1 cut(s)	853
PciSI	GCTCTTC	1 cut(s)	135
PctI	GAATGC	3 cut(s)	545, 952, 1285
PfeI	GAWTC	6 cut(s)	80, 524, 730, 878, 959, 1211
Psp6I	CCWGG	1 cut(s)	665
PspFI	CCCAGC	1 cut(s)	867
PspGI	CCWGG	1 cut(s)	665
PspN4I	GGNNCC	4 cut(s)	30, 405, 645, 656
PspPI	GGNCC	3 cut(s)	643, 654, 704
PsuI	RGATCY	2 cut(s)	457, 812
PvuII	CAGCTG	1 cut(s)	1142
RruI	TCGCGA	1 cut(s)	377
RsaI	GTAC	1 cut(s)	352
RsaNI	GTAC	1 cut(s)	351
RseI	CAYNNNNRTG	2 cut(s)	600, 795
SapI	GCTCTTC	1 cut(s)	135
SaqAI	TTAA	2 cut(s)	50, 1154
Sau3AI	GATC	5 cut(s)	457, 812, 982, 1003, 1223
Sau96I	GGNCC	3 cut(s)	643, 654, 704
ScrFI	CCNGG	1 cut(s)	667
SduI	GDGCHC	1 cut(s)	597
SfaNI	GCATC	3 cut(s)	271, 559, 894
SfcI	CTRYAG	1 cut(s)	63
Sfr274I	CTCGAG	1 cut(s)	986
SlaI	CTCGAG	1 cut(s)	986
SmiMI	CAYNNNNRTG	2 cut(s)	600, 795
SmlI	CTYRAG	1 cut(s)	986
SmoI	CTYRAG	1 cut(s)	986
SpeI	ACTAGT	1 cut(s)	739
Sse9I	AATT	6 cut(s)	579, 629, 717, 1077, 1123, 1198
SsiI	CCGC	6 cut(s)	123, 171, 233, 477, 1009, 1024
SspI	AATATT	1 cut(s)	1069
SspMI	CTAG	6 cut(s)	116, 174, 651, 740, 816, 1170
StyD4I	CCNGG	1 cut(s)	665
StyI	CCWWGG	3 cut(s)	127, 366, 650
TaaI	ACNGT	5 cut(s)	269, 431, 599, 611, 1195
TaiI	ACGT	1 cut(s)	1103
TaqI	TCGA	5 cut(s)	159, 426, 987, 1222, 1235
TaqII	GACCGA	1 cut(s)	73
TasI	AATT	6 cut(s)	579, 629, 717, 1077, 1123, 1198
TfiI	GAWTC	6 cut(s)	80, 524, 730, 878, 959, 1211
Tru1I	TTAA	2 cut(s)	50, 1154
Tru9I	TTAA	2 cut(s)	50, 1154
TscAI	CASTG	4 cut(s)	39, 94, 948, 1200
TseFI	GTSAC	3 cut(s)	85, 166, 562
Tsp45I	GTSAC	3 cut(s)	85, 166, 562
TspDTI	ATGAA	3 cut(s)	924, 1218, 1278
TspGWI	ACGGA	2 cut(s)	41, 703
TspRI	CASTG	4 cut(s)	39, 94, 948, 1200
XagI	CCTNNNNNAGG	1 cut(s)	1153
XapI	RAATTY	2 cut(s)	629, 1198
XceI	RCATGY	1 cut(s)	474
XhoI	CTCGAG	1 cut(s)	986
XmaJI	CCTAGG	1 cut(s)	650
XspI	CTAG	6 cut(s)	116, 174, 651, 740, 816, 1170
ZraI	GACGTC	1 cut(s)	1101

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