Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0015882

Physical Location & Seq

Genomic Coordinates Forward (+)

6001448 .. 6004674

Gene Structure 3227 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0077000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGCCAAAGAAGAATGTGAGAGAGGACACCAGAGATAGCCAGATCAGCGGCTTCTCTGAGTTCTCTAAACCACAATGCTCTGGTAAACTGATCAATCCCAATGTGCCCAATTCTGGGTTTCAGGGGAAAAGCATGTTTGACAGCTCTGATAGTGAGAGTTTCTATGAAAGGCTAAGCAAGTTGAATGAGTCACTTGGGTACAATCTTGTCTTTGATGTCAGACAAACCAAACTGAATTTGCATCTGTTTTACAAGGAAGTAACTCTCAGGGGAGGCTTTAATCAGGTGAACAAAGATAGGAGATGGGAGGAGATTGCATCCTCTTTGAAATTGGATGGGAGGAATCTCAATTATCCAGATATTCTTCTAAAGCTTTATGCACTCTTTCTGTTTCATTATGAACAGATTTACTTTTATAGGGGACCTGAGAAAGTGGCTTCAACGCCAGATCTCACTATTGATATTGAGGATAGCCCCCGAATGGAAATGAAGTGCACCAATCATTCATCTCAAATGGTAACAAATGTTGAAGATGGGCCTGGAGAGAAGAAGATTCTCAAGGAGAGCTGTTCTCAATCAATGTCGACAGGTTCGGCGTCTGCAGAAAAACAATCAGCACCAGAAGCAGAACAGAAGCATATCCCCCAGCTGCACTCAGAGAAAGAAGAGATATGGACAAAAGATATGCACTCATCGGCAGAAAACCAACTAGCAGTACCCGAAGCAGCACAGGAGCAGACCCCCCAGCTGCACTCGAAGAAAAAAGAGATGAGGAAAAGAGGTTCAGCATCAGCTGAAAAACAGTTGGCTGTACCCAGGAAAAAAGGGATGAAGAAGCCAGGTGCTCGACAAGGGATACGCAGTGGTTACCACATCTTTATCAAGACAGAATGTGGGAGATTAAAAAAAATTCAATCTAATAAAGGCCAGAATCTCCGACAAATGGCCAATGATGCATGGAATCAGCTATCTGAGGCTGAGAAACAGCCCTTCCTTGAGCAAAGTATCAAGGAAAAGGAAAGCTTTGCTAACAAAGTGGCTGTTGATGATGAACAAAACCATGTCATGGAAAGTGCTGATTTGGAGAACAAGCAGGCTTCGCCGGATGGTGACTACCATGTGATTTTGGATCCAAGTGATGCAGAAAAATCTATTGAGGTAAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0007275 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009791 GO:0009889 GO:0009908 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048367 GO:0048437 GO:0048438 GO:0048441 GO:0048465 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0099402 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2_6

Protein Analysis

388

Amino Acids

44.05

Weight (kDa)

6.59

Isoelectric Point (pI)

60.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARID	PF01388	51 - 134	2.3e-11	ARID/BRIGHT DNA binding domain

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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Orthologous Genes (Group: OG0015882)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37740
fragaria_vesca	FvH4_6g13130
malus_domestica	MD04G1134600.v1.1 MD12G1148100.v1.1
prunus_persica	Prupe.6G260700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0465501
rosa_laevigata	RLG00000024638 RLG00000025445
rosa_multiflora	Rmu_sc0001712.1_g000003
rosa_roxburghii	Rroxscaffold_6G00415010
rosa_rugosa	Rorug03G0077000
rosa_samantha	Rh3BG142400 Rh3CG143600 Rh3DG143500
rosa_wichuraiana	Rw3G011600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1066
AccI	GTMKAC	1 cut(s)	584
AciI	CCGC	1 cut(s)	48
AclWI	GGATC	2 cut(s)	1124, 1137
AcoI	YGGCCR	1 cut(s)	945
AcsI	RAATTY	2 cut(s)	235, 909
AcyI	GRCGYC	1 cut(s)	596
AfaI	GTAC	3 cut(s)	200, 717, 813
AfiI	CCNNNNNNNGG	5 cut(s)	113, 114, 481, 943, 1066
AgsI	TTSAA	5 cut(s)	184, 328, 441, 530, 914
AjnI	CCWGG	3 cut(s)	538, 815, 838
AloI	GAACNNNNNNTCC	2 cut(s)	766, 798
AluBI	AGCT	8 cut(s)	144, 373, 567, 649, 748, 794, 967, 1023
AluI	AGCT	8 cut(s)	144, 373, 567, 649, 748, 794, 967, 1023
Alw21I	GWGCWC	2 cut(s)	497, 847
Alw44I	GTGCAC	1 cut(s)	493
AlwI	GGATC	2 cut(s)	1124, 1137
AoxI	GGCC	3 cut(s)	536, 925, 945
ApaLI	GTGCAC	1 cut(s)	493
ApeKI	GCWGC	3 cut(s)	649, 725, 748
ApoI	RAATTY	2 cut(s)	235, 909
AspS9I	GGNCC	2 cut(s)	422, 536
AsuHPI	GGTGA	2 cut(s)	298, 1121
AvaII	GGWCC	1 cut(s)	422
BaeGI	GKGCMC	2 cut(s)	108, 497
BalI	TGGCCA	1 cut(s)	947
BamHI	GGATCC	1 cut(s)	1129
Bbv12I	GWGCWC	2 cut(s)	497, 847
BbvI	GCAGC	3 cut(s)	636, 735, 737
BccI	CCATC	4 cut(s)	297, 329, 527, 1100
BciT130I	CCWGG	3 cut(s)	540, 817, 840
BciVI	GTATCC	1 cut(s)	849
BclI	TGATCA	1 cut(s)	90
BfaI	CTAG	1 cut(s)	710
BfmI	CTRYAG	1 cut(s)	600
BfuI	GTATCC	1 cut(s)	849
BglII	AGATCT	1 cut(s)	448
BisI	GCNGC	4 cut(s)	49, 650, 726, 749
BlpI	GCTNAGC	1 cut(s)	173
BlsI	GCNGC	4 cut(s)	50, 651, 727, 750
Bme1390I	CCNGG	3 cut(s)	540, 817, 840
Bme18I	GGWCC	1 cut(s)	422
BmgT120I	GGNCC	2 cut(s)	422, 536
BmiI	GGNNCC	2 cut(s)	423, 1131
BmrFI	CCNGG	3 cut(s)	540, 817, 840
BmsI	GCATC	5 cut(s)	250, 326, 797, 943, 1129
BplI	GAGNNNNNCTC	2 cut(s)	556, 588
BpmI	CTGGAG	1 cut(s)	561
Bpu1102I	GCTNAGC	1 cut(s)	173
BpuEI	CTTGAG	2 cut(s)	542, 1016
BsaHI	GRCGYC	1 cut(s)	596
BsaJI	CCNNGG	1 cut(s)	815
Bsc4I	CCNNNNNNNGG	5 cut(s)	113, 114, 481, 943, 1066
BseBI	CCWGG	3 cut(s)	540, 817, 840
BseDI	CCNNGG	1 cut(s)	815
BseGI	GGATG	4 cut(s)	317, 340, 834, 1111
BseLI	CCNNNNNNNGG	5 cut(s)	113, 114, 481, 943, 1066
BseMII	CTCAG	6 cut(s)	48, 280, 417, 669, 963, 969
BseRI	GAGGAG	1 cut(s)	323
BseSI	GKGCMC	2 cut(s)	108, 497
BseXI	GCAGC	3 cut(s)	636, 735, 737
BseYI	CCCAGC	2 cut(s)	645, 744
BsgI	GTGCAG	2 cut(s)	635, 734
BshFI	GGCC	3 cut(s)	538, 927, 947
BsiHKAI	GWGCWC	2 cut(s)	497, 847
BsiSI	CCGG	1 cut(s)	1103
BslFI	GGGAC	1 cut(s)	435
BslI	CCNNNNNNNGG	5 cut(s)	113, 114, 481, 943, 1066
BsmFI	GGGAC	1 cut(s)	435
BsnI	GGCC	3 cut(s)	538, 927, 947
Bsp1286I	GDGCHC	3 cut(s)	108, 497, 847
Bsp143I	GATC	4 cut(s)	42, 90, 448, 1129
Bsp1720I	GCTNAGC	1 cut(s)	173
BspACI	CCGC	1 cut(s)	48
BspANI	GGCC	3 cut(s)	538, 927, 947
BspCNI	CTCAG	6 cut(s)	49, 279, 418, 668, 964, 970
BspLI	GGNNCC	2 cut(s)	423, 1131
BspMAI	CTGCAG	1 cut(s)	604
BspPI	GGATC	2 cut(s)	1124, 1137
BssECI	CCNNGG	1 cut(s)	815
BssMI	GATC	4 cut(s)	42, 90, 448, 1129
BssNI	GRCGYC	1 cut(s)	596
Bst2UI	CCWGG	3 cut(s)	540, 817, 840
Bst4CI	ACNGT	1 cut(s)	804
Bst6I	CTCTTC	1 cut(s)	660
BstACI	GRCGYC	1 cut(s)	596
BstC8I	GCNNGC	1 cut(s)	1095
BstDEI	CTNAG	7 cut(s)	57, 173, 266, 426, 655, 972, 978
BstEII	GGTNACC	1 cut(s)	866
BstF5I	GGATG	4 cut(s)	317, 340, 834, 1111
BstKTI	GATC	4 cut(s)	45, 93, 451, 1132
BstMBI	GATC	4 cut(s)	42, 90, 448, 1129
BstMWI	GCNNNNNNNGC	4 cut(s)	45, 623, 953, 1099
BstNI	CCWGG	3 cut(s)	540, 817, 840
BstNSI	RCATGY	1 cut(s)	136
BstPI	GGTNACC	1 cut(s)	866
BstSCI	CCNGG	3 cut(s)	538, 815, 838
BstSFI	CTRYAG	1 cut(s)	600
BstSLI	GKGCMC	2 cut(s)	108, 497
BstV1I	GCAGC	3 cut(s)	636, 735, 737
BstX2I	RGATCY	2 cut(s)	448, 1129
BstYI	RGATCY	2 cut(s)	448, 1129
BsuI	GTATCC	1 cut(s)	849
BsuRI	GGCC	3 cut(s)	538, 927, 947
BtsCI	GGATG	4 cut(s)	317, 340, 834, 1111
BtsI	GCAGTG	1 cut(s)	868
BtsIMutI	CAGTG	1 cut(s)	868
Cac8I	GCNNGC	1 cut(s)	1095
Cfr13I	GGNCC	2 cut(s)	422, 536
CseI	GACGC	1 cut(s)	585
Csp6I	GTAC	3 cut(s)	199, 716, 812
CviAII	CATG	5 cut(s)	133, 957, 1061, 1066, 1118
CviQI	GTAC	3 cut(s)	199, 716, 812
DdeI	CTNAG	7 cut(s)	57, 173, 266, 426, 655, 972, 978
DpnI	GATC	4 cut(s)	44, 92, 450, 1131
DpnII	GATC	4 cut(s)	42, 90, 448, 1129
EaeI	YGGCCR	1 cut(s)	945
Eam1104I	CTCTTC	1 cut(s)	660
EarI	CTCTTC	1 cut(s)	660
Eco47I	GGWCC	1 cut(s)	422
Eco91I	GGTNACC	1 cut(s)	866
EcoO109I	RGGNCCY	1 cut(s)	422
EcoO65I	GGTNACC	1 cut(s)	866
EcoRII	CCWGG	3 cut(s)	538, 815, 838
EcoT22I	ATGCAT	1 cut(s)	958
FaeI	CATG	5 cut(s)	136, 960, 1064, 1069, 1121
FalI	AAGNNNNNCTT	2 cut(s)	1007, 1039
FaqI	GGGAC	1 cut(s)	435
FatI	CATG	5 cut(s)	132, 956, 1060, 1065, 1117
FbaI	TGATCA	1 cut(s)	90
FblI	GTMKAC	1 cut(s)	584
Fnu4HI	GCNGC	4 cut(s)	49, 650, 726, 749
FokI	GGATG	4 cut(s)	304, 347, 841, 1118
Fsp4HI	GCNGC	4 cut(s)	49, 650, 726, 749
FspBI	CTAG	1 cut(s)	710
GluI	GCNGC	4 cut(s)	49, 650, 726, 749
GsaI	CCCAGC	2 cut(s)	649, 748
GsuI	CTGGAG	1 cut(s)	561
HaeIII	GGCC	3 cut(s)	538, 927, 947
HapII	CCGG	1 cut(s)	1103
HgaI	GACGC	1 cut(s)	585
Hin1I	GRCGYC	1 cut(s)	596
Hin1II	CATG	5 cut(s)	136, 960, 1064, 1069, 1121
HincII	GTYRAC	1 cut(s)	585
HindII	GTYRAC	1 cut(s)	585
HindIII	AAGCTT	2 cut(s)	371, 1021
HinfI	GANTC	5 cut(s)	188, 343, 553, 931, 961
HpaII	CCGG	1 cut(s)	1103
HphI	GGTGA	2 cut(s)	298, 1121
Hpy166II	GTNNAC	4 cut(s)	86, 289, 495, 585
Hpy188I	TCNGA	6 cut(s)	58, 148, 221, 658, 938, 973
Hpy188III	TCNNGA	2 cut(s)	356, 883
Hpy8I	GTNNAC	4 cut(s)	86, 289, 495, 585
HpyAV	CCTTC	1 cut(s)	1000
HpyCH4III	ACNGT	1 cut(s)	804
HpyF10VI	GCNNNNNNNGC	4 cut(s)	45, 623, 953, 1099
HpyF3I	CTNAG	7 cut(s)	57, 173, 266, 426, 655, 972, 978
Hsp92I	GRCGYC	1 cut(s)	596
Hsp92II	CATG	5 cut(s)	136, 960, 1064, 1069, 1121
Ksp22I	TGATCA	1 cut(s)	90
Kzo9I	GATC	4 cut(s)	42, 90, 448, 1129
LmnI	GCTCC	1 cut(s)	733
Lsp1109I	GCAGC	3 cut(s)	636, 735, 737
LweI	GCATC	5 cut(s)	250, 326, 797, 943, 1129
MaeI	CTAG	1 cut(s)	710
MaeIII	GTNAC	5 cut(s)	189, 259, 517, 866, 1109
MalI	GATC	4 cut(s)	44, 92, 450, 1131
MboI	GATC	4 cut(s)	42, 90, 448, 1129
MboII	GAAGA	8 cut(s)	22, 356, 542, 559, 562, 677, 769, 844
MflI	RGATCY	2 cut(s)	448, 1129
MhlI	GDGCHC	3 cut(s)	108, 497, 847
MlsI	TGGCCA	1 cut(s)	947
MluCI	AATT	6 cut(s)	109, 235, 329, 349, 909, 1162
MluNI	TGGCCA	1 cut(s)	947
MlyI	GAGTC	1 cut(s)	197
MmeI	TCCRAC	1 cut(s)	961
Mox20I	TGGCCA	1 cut(s)	947
Mph1103I	ATGCAT	1 cut(s)	958
MscI	TGGCCA	1 cut(s)	947
MseI	TTAA	3 cut(s)	279, 902, 1165
Msp20I	TGGCCA	1 cut(s)	947
MspA1I	CMGCKG	4 cut(s)	48, 649, 748, 794
MspI	CCGG	1 cut(s)	1103
MspR9I	CCNGG	3 cut(s)	540, 817, 840
MvaI	CCWGG	3 cut(s)	540, 817, 840
MwoI	GCNNNNNNNGC	4 cut(s)	45, 623, 953, 1099
NdeII	GATC	4 cut(s)	42, 90, 448, 1129
NlaIII	CATG	5 cut(s)	136, 960, 1064, 1069, 1121
NlaIV	GGNNCC	2 cut(s)	423, 1131
NmuCI	GTSAC	2 cut(s)	189, 1109
NsiI	ATGCAT	1 cut(s)	958
NspI	RCATGY	1 cut(s)	136
PfeI	GAWTC	4 cut(s)	343, 553, 931, 961
PflMI	CCANNNNNTGG	1 cut(s)	1066
PkrI	GCNGC	4 cut(s)	50, 651, 727, 750
PleI	GAGTC	1 cut(s)	196
PpsI	GAGTC	1 cut(s)	196
PpuMI	RGGWCCY	1 cut(s)	422
Psp5II	RGGWCCY	1 cut(s)	422
Psp6I	CCWGG	3 cut(s)	538, 815, 838
PspEI	GGTNACC	1 cut(s)	866
PspFI	CCCAGC	2 cut(s)	645, 744
PspGI	CCWGG	3 cut(s)	538, 815, 838
PspN4I	GGNNCC	2 cut(s)	423, 1131
PspPI	GGNCC	2 cut(s)	422, 536
PspPPI	RGGWCCY	1 cut(s)	422
PstI	CTGCAG	1 cut(s)	604
PsuI	RGATCY	2 cut(s)	448, 1129
PvuII	CAGCTG	3 cut(s)	649, 748, 794
RsaI	GTAC	3 cut(s)	200, 717, 813
RsaNI	GTAC	3 cut(s)	199, 716, 812
SalI	GTCGAC	1 cut(s)	583
SaqAI	TTAA	3 cut(s)	279, 902, 1165
SatI	GCNGC	4 cut(s)	49, 650, 726, 749
Sau3AI	GATC	4 cut(s)	42, 90, 448, 1129
Sau96I	GGNCC	2 cut(s)	422, 536
SchI	GAGTC	1 cut(s)	197
ScrFI	CCNGG	3 cut(s)	540, 817, 840
SduI	GDGCHC	3 cut(s)	108, 497, 847
SfaNI	GCATC	5 cut(s)	250, 326, 797, 943, 1129
SfcI	CTRYAG	1 cut(s)	600
SinI	GGWCC	1 cut(s)	422
SmlI	CTYRAG	2 cut(s)	557, 995
SmoI	CTYRAG	2 cut(s)	557, 995
Sse9I	AATT	6 cut(s)	109, 235, 329, 349, 909, 1162
SsiI	CCGC	1 cut(s)	48
SspMI	CTAG	1 cut(s)	710
StyD4I	CCNGG	3 cut(s)	538, 815, 838
TaaI	ACNGT	1 cut(s)	804
TaqI	TCGA	3 cut(s)	584, 755, 847
TasI	AATT	6 cut(s)	109, 235, 329, 349, 909, 1162
TauI	GCSGC	1 cut(s)	51
TfiI	GAWTC	4 cut(s)	343, 553, 931, 961
Tru1I	TTAA	3 cut(s)	279, 902, 1165
Tru9I	TTAA	3 cut(s)	279, 902, 1165
TscAI	CASTG	1 cut(s)	868
TseFI	GTSAC	2 cut(s)	189, 1109
TseI	GCWGC	3 cut(s)	649, 725, 748
Tsp45I	GTSAC	2 cut(s)	189, 1109
TspDTI	ATGAA	7 cut(s)	180, 383, 414, 495, 503, 845, 1065
TspRI	CASTG	1 cut(s)	868
Van91I	CCANNNNNTGG	1 cut(s)	1066
VneI	GTGCAC	1 cut(s)	493
VpaK11BI	GGWCC	1 cut(s)	422
XapI	RAATTY	2 cut(s)	235, 909
XceI	RCATGY	1 cut(s)	136
XmiI	GTMKAC	1 cut(s)	584
XspI	CTAG	1 cut(s)	710
Zsp2I	ATGCAT	1 cut(s)	958

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