Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0019931

Physical Location & Seq

Genomic Coordinates Forward (+)

62888206 .. 62897668

Gene Structure 9463 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0455300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1302 bp

ATGGGTCAGATTAAATTGCCTATAACTCCAGGAATTAAACCTGGTGAGGGGGTGTGCCGTGTTGCTCACAGGCGGGATTTGACTCCGGTGACAGTTCACAGAAGACGCTCTCCTGAAACTAGGTTCTCGCAGAGAGGGTGTTGTGATTTCAGACGACGACACCAACTAAGCTCTGTTTGCACATTTATGGATGACCTAGAAGACAGACTTCTCAAAGTCTTCCGACCATGCCTTTCCCCTTCTCCCTTAAAAGCCCCTCTGCTTAGGAACAGTGACGGCTTAGTAACAGTACCGGCTCCAGCCGAGCCGAGAGAGAACGAGGGAGTGAAGGCTGATCCGAGAGAGAGGAAGAAGAATTTGATGCACCGAGTTGAGTTCATGATTGAAGGTTTGGTTTGCCATGCATGCTGGTCGATGAAATATGTTCACTCTAAAGTTGATACATTCACCCTAAAGCTGGTCTTTAATCCTATAATCAAGAAGCTGAGAAAATCAAGACTTTTGCTACTCCCAAAGACAGAGGTTTGGACTGGAAACAAAGAGGAAAGTTGGGGATTGAACATTACGAAGGAGTCTGTTATAGCATCTTCTGTTTGGTTAAGCCTTAAATCTTACTCTTGGGGTTGGGGAGAGCGGAAGCCGGAACTCAGGAAGACGAGCAGTCGGAGCGGACCGGAGGACGGAGGTGCGGACGGTGCGCCAATGTTCTACCGTAGCCGAATTGAGCACTCATTGCGTCTGCCTCCTTCTCTGCTTAGCCTTCGTCTACAAGATGCAGTTAAGGGAGAGCTTGAGAAGCTATTCTTAGATAAGGTTATCTCGAATTTGGGACTTTGCATATCTGTCTATGATATCCAATCCATTAAAGATCACTTCATCTTGCCAAATGATGGTCATCCAACTCTAACGGTGGTGTTCACACTGATTATGTTTCGTCCATTTGTGGGAGAGATAATTACTGCAAAAGTCATAGAGTCTACTGCCAATGGTTTACGTTTGTCACTGGGATTTTTTGATGATATTTATATACCTACTCATCGGTTTCCTACACCATGCCACAAGAAGGATGACTCAAAAAAGAATGTTGTCTTATGGTATTGGAAGCCTTCTGATGATGAATTTTCAATTGATTTGAAGGACCAGATACGATTCCAGGTTGAAAGTGTAAACTATCCTAAAATTCCAATTGAGCAGCCAGAAAACTCAAAACCATTTGCCCCTATGGAGGTTAAAGGGTCAATTGATTTTGATGGTTTAGGGCCTGTTCATTGGTGGCAAGATGTAGATGAAGAAGTTTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0051865 GO:0070647 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3 zf-RING_2

Protein Analysis

433

Amino Acids

49.5

Weight (kDa)

8.99

Isoelectric Point (pI)

53.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHS2_Rpb7-N	PF03876	242 - 298	1.9e-11	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397
RNA_pol_Rbc25	PF08292	317 - 425	2e-19	RNA polymerase III subunit Rpc25

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: OG0019931)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr5g0077461
rosa_laevigata	RLG00000036700
rosa_multiflora	Rmu_co8463923.1_g000001
rosa_rugosa	Rorug05G0455300
rosa_samantha	Rh5AG453400 Rh5BG531800 Rh5DG543700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	890
AccBSI	CCGCTC	2 cut(s)	634, 669
AccI	GTMKAC	2 cut(s)	766, 977
AciI	CCGC	4 cut(s)	73, 634, 669, 689
AclWI	GGATC	1 cut(s)	329
AcsI	RAATTY	4 cut(s)	355, 823, 1118, 1179
AfaI	GTAC	1 cut(s)	291
AfiI	CCNNNNNNNGG	7 cut(s)	47, 457, 680, 890, 944, 1063, 1225
AgsI	TTSAA	5 cut(s)	386, 559, 1125, 1135, 1160
AhdI	GACNNNNNGTC	1 cut(s)	660
AjnI	CCWGG	3 cut(s)	28, 40, 1152
AluBI	AGCT	5 cut(s)	171, 457, 484, 790, 799
AluI	AGCT	5 cut(s)	171, 457, 484, 790, 799
Alw21I	GWGCWC	1 cut(s)	729
AlwI	GGATC	1 cut(s)	329
AoxI	GGCC	1 cut(s)	1259
ApeKI	GCWGC	1 cut(s)	1192
ApoI	RAATTY	4 cut(s)	355, 823, 1118, 1179
Asp700I	GAANNNNTTC	1 cut(s)	800
AspLEI	GCGC	1 cut(s)	700
AspS9I	GGNCC	3 cut(s)	671, 1138, 1259
AsuHPI	GGTGA	3 cut(s)	56, 100, 439
AvaII	GGWCC	2 cut(s)	671, 1138
BbsI	GAAGAC	4 cut(s)	109, 207, 211, 659
Bbv12I	GWGCWC	1 cut(s)	729
BbvI	GCAGC	1 cut(s)	1204
BccI	CCATC	2 cut(s)	884, 1244
BceAI	ACGGC	2 cut(s)	42, 292
BcgI	CGANNNNNNTGC	2 cut(s)	393, 427
BciT130I	CCWGG	3 cut(s)	30, 42, 1154
BfaI	CTAG	2 cut(s)	120, 197
BisI	GCNGC	1 cut(s)	1193
BlpI	GCTNAGC	1 cut(s)	755
BlsI	GCNGC	1 cut(s)	1194
Bme1390I	CCNGG	3 cut(s)	30, 42, 1154
Bme18I	GGWCC	2 cut(s)	671, 1138
BmeRI	GACNNNNNGTC	1 cut(s)	660
BmgT120I	GGNCC	3 cut(s)	671, 1138, 1259
BmiI	GGNNCC	1 cut(s)	297
BmrFI	CCNGG	3 cut(s)	30, 42, 1154
BmrI	ACTGGG	1 cut(s)	1013
BmsI	GCATC	3 cut(s)	351, 593, 763
BmuI	ACTGGG	1 cut(s)	1013
BpiI	GAAGAC	4 cut(s)	109, 207, 211, 659
BpmI	CTGGAG	2 cut(s)	12, 282
Bpu10I	CCTNAGC	1 cut(s)	263
Bpu1102I	GCTNAGC	1 cut(s)	755
BpuEI	CTTGAG	1 cut(s)	812
BsaBI	GATNNNNATC	1 cut(s)	894
BsaWI	WCCGGW	2 cut(s)	85, 673
Bsc4I	CCNNNNNNNGG	7 cut(s)	47, 457, 680, 890, 944, 1063, 1225
Bse118I	RCCGGY	1 cut(s)	292
Bse1I	ACTGG	2 cut(s)	535, 1008
Bse3DI	GCAATG	1 cut(s)	731
Bse8I	GATNNNNATC	1 cut(s)	894
BseBI	CCWGG	3 cut(s)	30, 42, 1154
BseGI	GGATG	3 cut(s)	196, 895, 1072
BseJI	GATNNNNATC	1 cut(s)	894
BseLI	CCNNNNNNNGG	7 cut(s)	47, 457, 680, 890, 944, 1063, 1225
BseMI	GCAATG	1 cut(s)	731
BseMII	CTCAG	2 cut(s)	476, 661
BseNI	ACTGG	2 cut(s)	535, 1008
BseXI	GCAGC	1 cut(s)	1204
BshFI	GGCC	1 cut(s)	1261
BsiHKAI	GWGCWC	1 cut(s)	729
BsiSI	CCGG	4 cut(s)	86, 293, 641, 674
BslFI	GGGAC	1 cut(s)	843
BslI	CCNNNNNNNGG	7 cut(s)	47, 457, 680, 890, 944, 1063, 1225
BsmFI	GGGAC	1 cut(s)	843
BsnI	GGCC	1 cut(s)	1261
Bsp1286I	GDGCHC	1 cut(s)	729
Bsp143I	GATC	2 cut(s)	334, 868
Bsp1720I	GCTNAGC	1 cut(s)	755
BspACI	CCGC	4 cut(s)	73, 634, 669, 689
BspANI	GGCC	1 cut(s)	1261
BspCNI	CTCAG	2 cut(s)	477, 660
BspHI	TCATGA	1 cut(s)	378
BspLI	GGNNCC	1 cut(s)	297
BspPI	GGATC	1 cut(s)	329
BsrBI	CCGCTC	2 cut(s)	634, 669
BsrDI	GCAATG	1 cut(s)	731
BsrFI	RCCGGY	1 cut(s)	292
BsrI	ACTGG	2 cut(s)	535, 1008
BssAI	RCCGGY	1 cut(s)	292
BssMI	GATC	2 cut(s)	334, 868
Bst2UI	CCWGG	3 cut(s)	30, 42, 1154
Bst4CI	ACNGT	6 cut(s)	94, 272, 289, 695, 713, 910
BstAPI	GCANNNNNTGC	1 cut(s)	733
BstC8I	GCNNGC	1 cut(s)	406
BstDEI	CTNAG	7 cut(s)	167, 263, 280, 485, 647, 755, 805
BstF5I	GGATG	3 cut(s)	196, 895, 1072
BstHHI	GCGC	1 cut(s)	700
BstKTI	GATC	2 cut(s)	337, 871
BstMBI	GATC	2 cut(s)	334, 868
BstMWI	GCNNNNNNNGC	6 cut(s)	177, 405, 666, 695, 733, 796
BstNI	CCWGG	3 cut(s)	30, 42, 1154
BstNSI	RCATGY	1 cut(s)	408
BstSCI	CCNGG	3 cut(s)	28, 40, 1152
BstV1I	GCAGC	1 cut(s)	1204
BstV2I	GAAGAC	4 cut(s)	109, 207, 211, 659
BsuRI	GGCC	1 cut(s)	1261
BtsCI	GGATG	3 cut(s)	196, 895, 1072
BtsIMutI	CAGTG	3 cut(s)	277, 920, 1001
Cac8I	GCNNGC	1 cut(s)	406
CciI	TCATGA	1 cut(s)	378
CfoI	GCGC	1 cut(s)	700
Cfr10I	RCCGGY	1 cut(s)	292
Cfr13I	GGNCC	3 cut(s)	671, 1138, 1259
CpoI	CGGWCCG	1 cut(s)	671
CseI	GACGC	2 cut(s)	114, 725
CsiI	ACCWGGT	1 cut(s)	40
Csp6I	GTAC	1 cut(s)	290
CspI	CGGWCCG	1 cut(s)	671
CviAII	CATG	5 cut(s)	228, 379, 401, 405, 1053
CviQI	GTAC	1 cut(s)	290
DdeI	CTNAG	7 cut(s)	167, 263, 280, 485, 647, 755, 805
DpnI	GATC	2 cut(s)	336, 870
DpnII	GATC	2 cut(s)	334, 868
DriI	GACNNNNNGTC	1 cut(s)	660
Eam1105I	GACNNNNNGTC	1 cut(s)	660
Eco32I	GATATC	1 cut(s)	853
Eco47I	GGWCC	2 cut(s)	671, 1138
EcoO109I	RGGNCCY	1 cut(s)	1259
EcoRII	CCWGG	3 cut(s)	28, 40, 1152
EcoRV	GATATC	1 cut(s)	853
EcoT22I	ATGCAT	1 cut(s)	406
FaeI	CATG	5 cut(s)	231, 382, 404, 408, 1056
FalI	AAGNNNNNCTT	6 cut(s)	192, 224, 446, 478, 788, 820
FaqI	GGGAC	1 cut(s)	843
FatI	CATG	5 cut(s)	227, 378, 400, 404, 1052
FauI	CCCGC	1 cut(s)	66
FblI	GTMKAC	2 cut(s)	766, 977
Fnu4HI	GCNGC	1 cut(s)	1193
FokI	GGATG	3 cut(s)	203, 882, 1079
Fsp4HI	GCNGC	1 cut(s)	1193
FspBI	CTAG	2 cut(s)	120, 197
GlaI	GCGC	1 cut(s)	699
GluI	GCNGC	1 cut(s)	1193
GsuI	CTGGAG	2 cut(s)	12, 282
HaeIII	GGCC	1 cut(s)	1261
HapII	CCGG	4 cut(s)	86, 293, 641, 674
HgaI	GACGC	2 cut(s)	114, 725
HhaI	GCGC	1 cut(s)	700
Hin1II	CATG	5 cut(s)	231, 382, 404, 408, 1056
Hin6I	GCGC	1 cut(s)	698
HinP1I	GCGC	1 cut(s)	698
HinfI	GANTC	5 cut(s)	82, 572, 974, 1070, 1149
HpaII	CCGG	4 cut(s)	86, 293, 641, 674
HphI	GGTGA	3 cut(s)	56, 100, 439
Hpy166II	GTNNAC	7 cut(s)	97, 427, 767, 918, 978, 992, 1168
Hpy188I	TCNGA	6 cut(s)	9, 152, 224, 339, 666, 1111
Hpy188III	TCNNGA	6 cut(s)	113, 379, 478, 495, 649, 820
Hpy8I	GTNNAC	7 cut(s)	97, 427, 767, 918, 978, 992, 1168
Hpy99I	CGWCG	1 cut(s)	159
HpyAV	CCTTC	9 cut(s)	249, 322, 380, 562, 756, 770, 1057, 1116, 1129
HpyCH4III	ACNGT	6 cut(s)	94, 272, 289, 695, 713, 910
HpyCH4IV	ACGT	1 cut(s)	994
HpyCH4V	TGCA	6 cut(s)	180, 364, 404, 776, 837, 962
HpyF10VI	GCNNNNNNNGC	6 cut(s)	177, 405, 666, 695, 733, 796
HpyF3I	CTNAG	7 cut(s)	167, 263, 280, 485, 647, 755, 805
HpySE526I	ACGT	1 cut(s)	994
Hsp92II	CATG	5 cut(s)	231, 382, 404, 408, 1056
HspAI	GCGC	1 cut(s)	698
Kzo9I	GATC	2 cut(s)	334, 868
LmnI	GCTCC	2 cut(s)	301, 666
Lsp1109I	GCAGC	1 cut(s)	1204
LweI	GCATC	3 cut(s)	351, 593, 763
MabI	ACCWGGT	1 cut(s)	40
MaeI	CTAG	2 cut(s)	120, 197
MaeII	ACGT	1 cut(s)	994
MaeIII	GTNAC	4 cut(s)	88, 272, 283, 999
MalI	GATC	2 cut(s)	336, 870
MbiI	CCGCTC	2 cut(s)	634, 669
MboI	GATC	2 cut(s)	334, 868
MboII	GAAGA	8 cut(s)	114, 211, 212, 361, 364, 579, 664, 1301
MfeI	CAATTG	3 cut(s)	1125, 1185, 1239
MhlI	GDGCHC	1 cut(s)	729
MlyI	GAGTC	4 cut(s)	76, 581, 983, 1064
MmeI	TCCRAC	3 cut(s)	247, 644, 923
Mph1103I	ATGCAT	1 cut(s)	406
MroXI	GAANNNNTTC	1 cut(s)	800
MslI	CAYNNNNRTG	1 cut(s)	185
MspI	CCGG	4 cut(s)	86, 293, 641, 674
MspR9I	CCNGG	3 cut(s)	30, 42, 1154
MunI	CAATTG	3 cut(s)	1125, 1185, 1239
MvaI	CCWGG	3 cut(s)	30, 42, 1154
MwoI	GCNNNNNNNGC	6 cut(s)	177, 405, 666, 695, 733, 796
NdeII	GATC	2 cut(s)	334, 868
NlaIII	CATG	5 cut(s)	231, 382, 404, 408, 1056
NlaIV	GGNNCC	1 cut(s)	297
NmeAIII	GCCGAG	2 cut(s)	328, 333
NmuCI	GTSAC	3 cut(s)	88, 272, 999
NsiI	ATGCAT	1 cut(s)	406
NspI	RCATGY	1 cut(s)	408
PaeI	GCATGC	1 cut(s)	408
PagI	TCATGA	1 cut(s)	378
PdmI	GAANNNNTTC	1 cut(s)	800
PfeI	GAWTC	1 cut(s)	1149
PflMI	CCANNNNNTGG	1 cut(s)	890
PfoI	TCCNGGA	1 cut(s)	28
PkrI	GCNGC	1 cut(s)	1194
PleI	GAGTC	4 cut(s)	76, 580, 982, 1064
PpsI	GAGTC	4 cut(s)	76, 580, 982, 1064
Psp6I	CCWGG	3 cut(s)	28, 40, 1152
PspGI	CCWGG	3 cut(s)	28, 40, 1152
PspN4I	GGNNCC	1 cut(s)	297
PspPI	GGNCC	3 cut(s)	671, 1138, 1259
RsaI	GTAC	1 cut(s)	291
RsaNI	GTAC	1 cut(s)	290
RseI	CAYNNNNRTG	1 cut(s)	185
Rsr2I	CGGWCCG	1 cut(s)	671
RsrII	CGGWCCG	1 cut(s)	671
SatI	GCNGC	1 cut(s)	1193
Sau3AI	GATC	2 cut(s)	334, 868
Sau96I	GGNCC	3 cut(s)	671, 1138, 1259
SchI	GAGTC	4 cut(s)	76, 581, 983, 1064
ScrFI	CCNGG	3 cut(s)	30, 42, 1154
SduI	GDGCHC	1 cut(s)	729
SexAI	ACCWGGT	1 cut(s)	40
SfaNI	GCATC	3 cut(s)	351, 593, 763
SinI	GGWCC	2 cut(s)	671, 1138
SmiMI	CAYNNNNRTG	1 cut(s)	185
SmlI	CTYRAG	1 cut(s)	791
SmoI	CTYRAG	1 cut(s)	791
SphI	GCATGC	1 cut(s)	408
SsiI	CCGC	4 cut(s)	73, 634, 669, 689
SspMI	CTAG	2 cut(s)	120, 197
StyD4I	CCNGG	3 cut(s)	28, 40, 1152
TaaI	ACNGT	6 cut(s)	94, 272, 289, 695, 713, 910
TaiI	ACGT	1 cut(s)	997
TaqI	TCGA	2 cut(s)	413, 821
TfiI	GAWTC	1 cut(s)	1149
TscAI	CASTG	3 cut(s)	277, 927, 1008
TseFI	GTSAC	3 cut(s)	88, 272, 999
TseI	GCWGC	1 cut(s)	1192
Tsp45I	GTSAC	3 cut(s)	88, 272, 999
TspDTI	ATGAA	6 cut(s)	367, 431, 865, 1131, 1256, 1302
TspGWI	ACGGA	1 cut(s)	696
TspRI	CASTG	3 cut(s)	277, 927, 1008
Van91I	CCANNNNNTGG	1 cut(s)	890
VpaK11BI	GGWCC	2 cut(s)	671, 1138
XapI	RAATTY	4 cut(s)	355, 823, 1118, 1179
XceI	RCATGY	1 cut(s)	408
XmiI	GTMKAC	2 cut(s)	766, 977
XmnI	GAANNNNTTC	1 cut(s)	800
XspI	CTAG	2 cut(s)	120, 197
Zsp2I	ATGCAT	1 cut(s)	406

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