Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001656

Physical Location & Seq

Genomic Coordinates Reverse (-)

51411809 .. 51416230

Gene Structure 4422 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG327600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1284 bp

ATGTCGAATCAGGTGGTGAAAGTCAAGAGGGAGACGATTACAGCATGCATGACCTGCCCGCTCTGCGATAAGCTGTTCAGAGAGGCCACCACCATATCTGAATGTCTTCATACGTTTTGCAGGAAGTGCATATATGACAAGATCACGGAAGAGGAAATAGAGTACTGCCCAATATGCAAGACCGATCTGGGTTGTGTTCCCTTGGAGAAATTAAGGCCAGACCACAATATGCAAGATGTAAGGGCCAAGATTTTCCCTTTCAAAAGAAGAAAGGTGAATGCACCTGAAACTATGCCTTCAGCACTGCCGGCTAGAAGAAAGGAGAGATCACTCTCGTCATTGGTGGTCAGTACTCCCAGAGTGTCATCAACCCAGGCGACCATGACTGGAAGGAGAACTAAAGCTGTTGCAAGAAAGGCTTCTACTTTACAAGGATCCAGTTTTGTGGTTGAGAGGTCCGTTAATAAAGAGGACGGATCTGGGGAAGATCATGCAGAGAGCCAAAGCTCCCTGGAGGCCTCAGATAAGTCTGGTCAAAATGCCAGGCCGAGTTCGTTTTCTGCCGAACCCAGCGAACCTGTATCCAATAAAGAATCTGAGAATGGTGCTGAATCATGGGATGGGAAGCTAGACCTTTGGAAACCTCTAAATTGTTTGGTGGAAGTTGCAAATCGGACCAAGTCTCTGAAACCCAATTCACAAGGGTCTGAAAGAGTAGAAGCGGCTGTCATTCCCAATGAAACTCAAGTTCGTAAATTCAAGAATAAAGAAAACAAACAAAAATCAAAAGTTGAGGATGAAAAGAATAGCACTCATCCTCCCTCTCCTGAAACAATAAAACCTAAAAAGTTGCGTAGGGCTCGCCAAAAGAGGGAAGCTGTAGGAGAATCAAGCGTTACACCCCAAGCTGTTTTGGATGCAGCCGGTGGAAAACTTGAAAGAAGAGTTGGACCAATTTGGTTCTCCCTAGTAGCTTCTGAAGAACAGGAAGGAGAAGAATCCTTGCCTCAGATTCCTACAAGTTATTTAAGAATAAAAGATGGAAGTGTGCCTGTCTCATTTATCCAGAAGTACCTAATGAGGAAGCTAGATCTCAGTAGTGAAACTGAGGTTGAGATCAAATGCATGGGACAACCAGTGACCCCAACATTGGAGATGTATAATTTGGTTGACTTGTGGCTACAAACCGCATCACCTACACAAAGAATTCCAGCATCCATTGGTTCCTCTGCAAAGGATTTTGTGATGGTGCTCGGGTATTCTCGAAAGATTTCAAACTCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006464 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009414 GO:0009415 GO:0009628 GO:0009987 GO:0010035 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050896 GO:0051865 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2

Protein Analysis

427

Amino Acids

47.54

Weight (kDa)

9.03

Isoelectric Point (pI)

60.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	19 - 59	2.5e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	19 - 59	1.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	19 - 46	7e-06	RING-type zinc-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: OG0001656)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06770 AT1G06770 AT1G06770 AT2G30580 AT2G30580 AT2G30580
fragaria_vesca	FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22400 FvH4_6g02710 FvH4_6g02710
malus_domestica	MD04G1225500.v1.1 MD05G1204700.v1.1 MD10G1191800.v1.1 MD12G1242500.v1.1
prunus_persica	Prupe.6G344100_v2.0.a1 Prupe.6G344100_v2.0.a1 Prupe.8G231300_v2.0.a1
pyrus_communis	pycom04g19880 pycom05g19090 pycom10g16540 pycom12g22160
rosa_chinensis	RchiOBHm_Chr3g0450721 RchiOBHm_Chr6g0289351
rosa_laevigata	RLG00000012310 RLG00000025707
rosa_multiflora	Rmu_sc0000078.1_g000029 Rmu_sc0041561.1_g000001
rosa_roxburghii	Rroxscaffold_6G00428390 Rroxscaffold_7G00179330
rosa_rugosa	Rorug02G0629900 Rorug02G0630000 Rorug06G0202900
rosa_samantha	Rh3AG030800 Rh3BG031300 Rh3CG030100 Rh3DG031000 Rh6AG313800 Rh6BG321300 Rh6CG327600 Rh6DG313200
rosa_wichuraiana	Rw3G002380 Rw6G027130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	62
AccBSI	CCGCTC	1 cut(s)	61
AciI	CCGC	3 cut(s)	59, 722, 1188
AclWI	GGATC	3 cut(s)	429, 442, 484
AcsI	RAATTY	2 cut(s)	755, 1206
AcuI	CTGAAG	2 cut(s)	282, 999
AfaI	GTAC	3 cut(s)	164, 352, 1073
AfiI	CCNNNNNNNGG	2 cut(s)	871, 1150
AgsI	TTSAA	4 cut(s)	262, 760, 938, 1275
AjnI	CCWGG	3 cut(s)	372, 510, 542
AjuI	GAANNNNNNNTTGG	2 cut(s)	930, 962
AluBI	AGCT	8 cut(s)	73, 404, 507, 628, 878, 908, 974, 1087
AluI	AGCT	8 cut(s)	73, 404, 507, 628, 878, 908, 974, 1087
Alw21I	GWGCWC	1 cut(s)	1254
Alw26I	GTCTC	3 cut(s)	26, 687, 1060
AlwI	GGATC	3 cut(s)	429, 442, 484
Ama87I	CYCGRG	1 cut(s)	1253
AoxI	GGCC	5 cut(s)	84, 215, 243, 516, 545
ApeKI	GCWGC	1 cut(s)	920
ApoI	RAATTY	2 cut(s)	755, 1206
Asp700I	GAANNNNTTC	3 cut(s)	105, 418, 1270
AspS9I	GGNCC	4 cut(s)	243, 456, 675, 950
AsuHPI	GGTGA	3 cut(s)	28, 286, 1185
AvaI	CYCGRG	1 cut(s)	1253
AvaII	GGWCC	3 cut(s)	456, 675, 950
BamHI	GGATCC	1 cut(s)	434
BanII	GRGCYC	1 cut(s)	862
BbsI	GAAGAC	1 cut(s)	98
Bbv12I	GWGCWC	1 cut(s)	1254
BbvI	GCAGC	1 cut(s)	932
BccI	CCATC	3 cut(s)	614, 1034, 1240
BciT130I	CCWGG	3 cut(s)	374, 512, 544
BciVI	GTATCC	1 cut(s)	592
BcoDI	GTCTC	3 cut(s)	26, 687, 1060
BfaI	CTAG	4 cut(s)	312, 629, 968, 1088
BfmI	CTRYAG	1 cut(s)	879
BfuAI	ACCTGC	1 cut(s)	62
BfuI	GTATCC	1 cut(s)	592
BglII	AGATCT	1 cut(s)	1090
BisI	GCNGC	2 cut(s)	723, 921
BlsI	GCNGC	2 cut(s)	724, 922
BmcAI	AGTACT	2 cut(s)	164, 352
Bme1390I	CCNGG	3 cut(s)	374, 512, 544
Bme18I	GGWCC	3 cut(s)	456, 675, 950
BmeT110I	CYCGRG	1 cut(s)	1253
BmgT120I	GGNCC	4 cut(s)	243, 456, 675, 950
BmiI	GGNNCC	2 cut(s)	436, 1225
BmrFI	CCNGG	3 cut(s)	374, 512, 544
BmsI	GCATC	3 cut(s)	907, 1199, 1223
BpiI	GAAGAC	1 cut(s)	98
BpmI	CTGGAG	1 cut(s)	533
BpuEI	CTTGAG	1 cut(s)	729
BsaJI	CCNNGG	3 cut(s)	201, 372, 510
BsaXI	ACNNNNNCTCC	2 cut(s)	802, 832
Bsc4I	CCNNNNNNNGG	2 cut(s)	871, 1150
Bse118I	RCCGGY	2 cut(s)	307, 923
Bse1I	ACTGG	3 cut(s)	391, 438, 1136
BseBI	CCWGG	3 cut(s)	374, 512, 544
BseDI	CCNNGG	3 cut(s)	201, 372, 510
BseGI	GGATG	5 cut(s)	625, 802, 814, 922, 1214
BseLI	CCNNNNNNNGG	2 cut(s)	871, 1150
BseMII	CTCAG	5 cut(s)	534, 588, 1022, 1098, 1108
BseNI	ACTGG	3 cut(s)	391, 438, 1136
BseXI	GCAGC	1 cut(s)	932
BseYI	CCCAGC	1 cut(s)	569
BshFI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BsiHKAI	GWGCWC	1 cut(s)	1254
BsiHKCI	CYCGRG	1 cut(s)	1253
BsiSI	CCGG	2 cut(s)	308, 924
BslFI	GGGAC	1 cut(s)	1143
BslI	CCNNNNNNNGG	2 cut(s)	871, 1150
BsmAI	GTCTC	3 cut(s)	26, 687, 1060
BsmBI	CGTCTC	1 cut(s)	26
BsmFI	GGGAC	1 cut(s)	1143
BsmI	GAATGC	1 cut(s)	283
BsnI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BsoBI	CYCGRG	1 cut(s)	1253
Bsp1286I	GDGCHC	2 cut(s)	862, 1254
Bsp143I	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
BspACI	CCGC	3 cut(s)	59, 722, 1188
BspANI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BspCNI	CTCAG	5 cut(s)	533, 589, 1021, 1099, 1107
BspLI	GGNNCC	2 cut(s)	436, 1225
BspMI	ACCTGC	1 cut(s)	62
BspPI	GGATC	3 cut(s)	429, 442, 484
BsrBI	CCGCTC	1 cut(s)	61
BsrFI	RCCGGY	2 cut(s)	307, 923
BsrI	ACTGG	3 cut(s)	391, 438, 1136
BssAI	RCCGGY	2 cut(s)	307, 923
BssECI	CCNNGG	3 cut(s)	201, 372, 510
BssMI	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
BssT1I	CCWWGG	1 cut(s)	201
Bst2UI	CCWGG	3 cut(s)	374, 512, 544
Bst6I	CTCTTC	2 cut(s)	144, 937
BstAPI	GCANNNNNTGC	2 cut(s)	54, 126
BstC8I	GCNNGC	4 cut(s)	46, 59, 309, 862
BstDEI	CTNAG	5 cut(s)	520, 597, 1008, 1094, 1107
BstF5I	GGATG	5 cut(s)	625, 802, 814, 922, 1214
BstKTI	GATC	8 cut(s)	144, 187, 329, 437, 479, 490, 1093, 1119
BstMAI	GTCTC	3 cut(s)	26, 687, 1060
BstMBI	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
BstMWI	GCNNNNNNNGC	6 cut(s)	54, 63, 126, 174, 308, 416
BstNI	CCWGG	3 cut(s)	374, 512, 544
BstNSI	RCATGY	1 cut(s)	48
BstSCI	CCNGG	3 cut(s)	372, 510, 542
BstSFI	CTRYAG	1 cut(s)	879
BstV1I	GCAGC	1 cut(s)	932
BstV2I	GAAGAC	1 cut(s)	98
BstX2I	RGATCY	3 cut(s)	434, 476, 1090
BstXI	CCANNNNNNTGG	1 cut(s)	445
BstYI	RGATCY	3 cut(s)	434, 476, 1090
BsuI	GTATCC	1 cut(s)	592
BsuRI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BtsCI	GGATG	5 cut(s)	625, 802, 814, 922, 1214
BtsI	GCAGTG	1 cut(s)	302
BtsIMutI	CAGTG	2 cut(s)	302, 1143
BveI	ACCTGC	1 cut(s)	62
Cac8I	GCNNGC	4 cut(s)	46, 59, 309, 862
Cfr10I	RCCGGY	2 cut(s)	307, 923
Cfr13I	GGNCC	4 cut(s)	243, 456, 675, 950
Csp6I	GTAC	3 cut(s)	163, 351, 1072
CviAII	CATG	6 cut(s)	45, 49, 382, 491, 615, 1126
CviQI	GTAC	3 cut(s)	163, 351, 1072
DdeI	CTNAG	5 cut(s)	520, 597, 1008, 1094, 1107
DpnI	GATC	8 cut(s)	143, 186, 328, 436, 478, 489, 1092, 1118
DpnII	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
Eam1104I	CTCTTC	2 cut(s)	144, 937
EarI	CTCTTC	2 cut(s)	144, 937
Eco130I	CCWWGG	1 cut(s)	201
Eco147I	AGGCCT	1 cut(s)	518
Eco24I	GRGCYC	1 cut(s)	862
Eco47I	GGWCC	3 cut(s)	456, 675, 950
Eco57I	CTGAAG	2 cut(s)	282, 999
Eco88I	CYCGRG	1 cut(s)	1253
EcoRI	GAATTC	1 cut(s)	1206
EcoRII	CCWGG	3 cut(s)	372, 510, 542
EcoT14I	CCWWGG	1 cut(s)	201
EcoT22I	ATGCAT	2 cut(s)	50, 1127
EcoT38I	GRGCYC	1 cut(s)	862
ErhI	CCWWGG	1 cut(s)	201
Esp3I	CGTCTC	1 cut(s)	26
FaeI	CATG	6 cut(s)	48, 52, 385, 494, 618, 1129
FalI	AAGNNNNNCTT	2 cut(s)	403, 435
FaqI	GGGAC	1 cut(s)	1143
FatI	CATG	6 cut(s)	44, 48, 381, 490, 614, 1125
FauI	CCCGC	1 cut(s)	66
Fnu4HI	GCNGC	2 cut(s)	723, 921
FokI	GGATG	5 cut(s)	632, 801, 809, 929, 1201
FriOI	GRGCYC	1 cut(s)	862
Fsp4HI	GCNGC	2 cut(s)	723, 921
FspBI	CTAG	4 cut(s)	312, 629, 968, 1088
GluI	GCNGC	2 cut(s)	723, 921
GsaI	CCCAGC	1 cut(s)	573
GsuI	CTGGAG	1 cut(s)	533
HaeIII	GGCC	5 cut(s)	86, 217, 245, 518, 547
HapII	CCGG	2 cut(s)	308, 924
Hin1II	CATG	6 cut(s)	48, 52, 385, 494, 618, 1129
HincII	GTYRAC	1 cut(s)	1171
HindII	GTYRAC	1 cut(s)	1171
HinfI	GANTC	6 cut(s)	7, 593, 611, 887, 998, 1012
HpaII	CCGG	2 cut(s)	308, 924
HphI	GGTGA	3 cut(s)	28, 286, 1185
Hpy166II	GTNNAC	1 cut(s)	1171
Hpy188I	TCNGA	9 cut(s)	80, 100, 523, 598, 675, 687, 709, 979, 1011
Hpy188III	TCNNGA	5 cut(s)	25, 760, 827, 1066, 1263
Hpy8I	GTNNAC	1 cut(s)	1171
HpyAV	CCTTC	3 cut(s)	306, 384, 983
HpyCH4IV	ACGT	1 cut(s)	113
HpyF10VI	GCNNNNNNNGC	6 cut(s)	54, 63, 126, 174, 308, 416
HpyF3I	CTNAG	5 cut(s)	520, 597, 1008, 1094, 1107
HpySE526I	ACGT	1 cut(s)	113
Hsp92II	CATG	6 cut(s)	48, 52, 385, 494, 618, 1129
KroI	GCCGGC	1 cut(s)	307
KroNI	GCCGGC	1 cut(s)	309
Kzo9I	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
LmnI	GCTCC	1 cut(s)	512
Lsp1109I	GCAGC	1 cut(s)	932
LweI	GCATC	3 cut(s)	907, 1199, 1223
MaeI	CTAG	4 cut(s)	312, 629, 968, 1088
MaeII	ACGT	1 cut(s)	113
MaeIII	GTNAC	2 cut(s)	895, 1138
MalI	GATC	8 cut(s)	143, 186, 328, 436, 478, 489, 1092, 1118
MbiI	CCGCTC	1 cut(s)	61
MboI	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
MboII	GAAGA	8 cut(s)	98, 161, 279, 327, 497, 954, 992, 1007
MflI	RGATCY	3 cut(s)	434, 476, 1090
MhlI	GDGCHC	2 cut(s)	862, 1254
MluCI	AATT	7 cut(s)	209, 649, 694, 755, 954, 1162, 1206
MmeI	TCCRAC	1 cut(s)	928
Mph1103I	ATGCAT	2 cut(s)	50, 1127
MroNI	GCCGGC	1 cut(s)	307
MroXI	GAANNNNTTC	3 cut(s)	105, 418, 1270
MseI	TTAA	3 cut(s)	212, 462, 1028
MspI	CCGG	2 cut(s)	308, 924
MspR9I	CCNGG	3 cut(s)	374, 512, 544
Mva1269I	GAATGC	1 cut(s)	283
MvaI	CCWGG	3 cut(s)	374, 512, 544
MwoI	GCNNNNNNNGC	6 cut(s)	54, 63, 126, 174, 308, 416
NaeI	GCCGGC	1 cut(s)	309
NdeII	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
NgoMIV	GCCGGC	1 cut(s)	307
NlaIII	CATG	6 cut(s)	48, 52, 385, 494, 618, 1129
NlaIV	GGNNCC	2 cut(s)	436, 1225
NmeAIII	GCCGAG	1 cut(s)	573
NmuCI	GTSAC	1 cut(s)	1138
NsiI	ATGCAT	2 cut(s)	50, 1127
NspI	RCATGY	1 cut(s)	48
PaeI	GCATGC	1 cut(s)	48
PceI	AGGCCT	1 cut(s)	518
PctI	GAATGC	1 cut(s)	283
PdiI	GCCGGC	1 cut(s)	309
PdmI	GAANNNNTTC	3 cut(s)	105, 418, 1270
PfeI	GAWTC	6 cut(s)	7, 593, 611, 887, 998, 1012
PflFI	GACNNNGTC	1 cut(s)	679
PkrI	GCNGC	2 cut(s)	724, 922
Psp6I	CCWGG	3 cut(s)	372, 510, 542
PspFI	CCCAGC	1 cut(s)	569
PspGI	CCWGG	3 cut(s)	372, 510, 542
PspN4I	GGNNCC	2 cut(s)	436, 1225
PspPI	GGNCC	4 cut(s)	243, 456, 675, 950
PsuI	RGATCY	3 cut(s)	434, 476, 1090
PsyI	GACNNNGTC	1 cut(s)	679
RsaI	GTAC	3 cut(s)	164, 352, 1073
RsaNI	GTAC	3 cut(s)	163, 351, 1072
SaqAI	TTAA	3 cut(s)	212, 462, 1028
SatI	GCNGC	2 cut(s)	723, 921
Sau3AI	GATC	8 cut(s)	141, 184, 326, 434, 476, 487, 1090, 1116
Sau96I	GGNCC	4 cut(s)	243, 456, 675, 950
ScaI	AGTACT	2 cut(s)	164, 352
ScrFI	CCNGG	3 cut(s)	374, 512, 544
SduI	GDGCHC	2 cut(s)	862, 1254
SfaNI	GCATC	3 cut(s)	907, 1199, 1223
SfcI	CTRYAG	1 cut(s)	879
SinI	GGWCC	3 cut(s)	456, 675, 950
SmlI	CTYRAG	1 cut(s)	744
SmoI	CTYRAG	1 cut(s)	744
SphI	GCATGC	1 cut(s)	48
Sse9I	AATT	7 cut(s)	209, 649, 694, 755, 954, 1162, 1206
SseBI	AGGCCT	1 cut(s)	518
SsiI	CCGC	3 cut(s)	59, 722, 1188
SspMI	CTAG	4 cut(s)	312, 629, 968, 1088
StuI	AGGCCT	1 cut(s)	518
StyD4I	CCNGG	3 cut(s)	372, 510, 542
StyI	CCWWGG	1 cut(s)	201
TaiI	ACGT	1 cut(s)	116
TaqI	TCGA	2 cut(s)	5, 1264
TaqII	GACCGA	1 cut(s)	197
TasI	AATT	7 cut(s)	209, 649, 694, 755, 954, 1162, 1206
TatI	WGTACW	2 cut(s)	162, 350
TauI	GCSGC	1 cut(s)	725
TfiI	GAWTC	6 cut(s)	7, 593, 611, 887, 998, 1012
Tru1I	TTAA	3 cut(s)	212, 462, 1028
Tru9I	TTAA	3 cut(s)	212, 462, 1028
TscAI	CASTG	2 cut(s)	309, 1143
TseFI	GTSAC	1 cut(s)	1138
TseI	GCWGC	1 cut(s)	920
Tsp45I	GTSAC	1 cut(s)	1138
TspDTI	ATGAA	3 cut(s)	98, 753, 813
TspGWI	ACGGA	3 cut(s)	161, 448, 489
TspRI	CASTG	2 cut(s)	309, 1143
Tth111I	GACNNNGTC	1 cut(s)	679
VpaK11BI	GGWCC	3 cut(s)	456, 675, 950
XapI	RAATTY	2 cut(s)	755, 1206
XceI	RCATGY	1 cut(s)	48
XmnI	GAANNNNTTC	3 cut(s)	105, 418, 1270
XspI	CTAG	4 cut(s)	312, 629, 968, 1088
ZrmI	AGTACT	2 cut(s)	164, 352
Zsp2I	ATGCAT	2 cut(s)	50, 1127

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