Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0002460

Physical Location & Seq

Genomic Coordinates Reverse (-)

38054062 .. 38058355

Gene Structure 4294 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0238200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 570 bp

ATGACAACAGATGCAACCGCGATCGGTTCGTATTCGGTGTGGGCCATTCCACCGGATGACGTGTCCGATCGGATCAAGAAGGTGATGTTGGGCCTCCGGGACGAGTTCGGCGGGGCACCGGAGGAGATCGAGCCCCATTTTCCGATCGTGGGGTCCATCCGTATGACGAGGGAGGACGCGCTCAACAAGTTGAGGACCCTTATTCAGTCCTACCCGCCTGGTTGTATCTCTGCCTTCACTGCTCGAGTAGATGAAATCGTTGCTCGCCCCTTCTATTACCAGTGCGTTTGCCTCCGCATCCATTATTCCCACCAGTTAAAAGAAATATCTAGATGCTGCTCTCATAAATGGGGTTTACGTTTCCCTGGTGTGCCTTATTTGAGCCTCCTTTACGGTAAGCTGACAGAAGAGGAGAGGAAGAAAGCTCGAGATAAAGTTAGTGTTTTGGATGAGACCATTACTAGCCTGAGCTTCCCCGTAACTCGCCTTGCATTGTACAAAATCAACTACAAAGACAAAACTCTCAAATCTTGGGAAAAGATAGCTGAGCTTCCCCTCCAATTAAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000288 GO:0000428 GO:0000932 GO:0000956 GO:0003674 GO:0003824 GO:0003899 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005829 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006396 GO:0006397 GO:0006401 GO:0006402 GO:0006403 GO:0006405 GO:0006406 GO:0006417 GO:0006446 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009058 GO:0009059 GO:0009266 GO:0009408 GO:0009628 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0015031 GO:0015833 GO:0015931 GO:0016043 GO:0016070 GO:0016071 GO:0016591 GO:0016604 GO:0016607 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0019439 GO:0022607 GO:0022613 GO:0022618 GO:0030880 GO:0031123 GO:0031124 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031369 GO:0031503 GO:0031974 GO:0031981 GO:0031990 GO:0032268 GO:0032270 GO:0032774 GO:0032991 GO:0033036 GO:0033554 GO:0034062 GO:0034248 GO:0034250 GO:0034402 GO:0034605 GO:0034613 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0034655 GO:0035770 GO:0036464 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044260 GO:0044265 GO:0044270 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045184 GO:0045727 GO:0045948 GO:0046483 GO:0046700 GO:0046907 GO:0048518 GO:0048519 GO:0048522 GO:0050657 GO:0050658 GO:0050789 GO:0050794 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051171 GO:0051173 GO:0051179 GO:0051234 GO:0051236 GO:0051246 GO:0051247 GO:0051641 GO:0051649 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065007 GO:0070013 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901361 GO:1901362 GO:1901575 GO:1901576 GO:1902494 GO:1990234 GO:1990904 GO:2000112

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb4

Protein Analysis

189

Amino Acids

21.62

Weight (kDa)

8.75

Isoelectric Point (pI)

42.19

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002460)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17070
fragaria_vesca	FvH4_2g25582 FvH4_5g27320
malus_domestica	MD08G1250100.v1.1 MD15G1445100.v1.1
prunus_persica	Prupe.1G587200_v2.0.a1 Prupe.5G048700_v2.0.a1
pyrus_communis	pycom08g21680 pycom15g39220
rosa_chinensis	RchiOBHm_Chr6g0293801 RchiOBHm_Chr6g0293811 RchiOBHm_Chr7g0218481
rosa_laevigata	RLG00000002370 RLG00000011921 RLG00000012034
rosa_multiflora	Rmu_co8485319.1_g000001 Rmu_sc0001301.1_g000062 Rmu_sc0001301.1_g000063 Rmu_sc0001354.1_g000013 Rmu_sc0023058.1_g000001
rosa_roxburghii	Rroxscaffold_3G00240910 Rroxscaffold_7G00173890 Rroxscaffold_7G00175120
rosa_rugosa	Rorug06G0238200 Rorug07G0177400
rosa_samantha	Rh6AG339400 Rh6AG351600 Rh6BG346700 Rh6BG358400 Rh6CG353500 Rh6CG365600 Rh6DG339500 Rh6DG352200 Rh6DG352300 Rh7AG318900 Rh7BG310800 Rh7CG335800 Rh7DG318000
rosa_wichuraiana	Rw6G029540 Rw6G030580 Rw7G027140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	115
AccII	CGCG	2 cut(s)	20, 179
AciI	CCGC	4 cut(s)	18, 111, 215, 295
AclWI	GGATC	1 cut(s)	80
AfaI	GTAC	1 cut(s)	497
AfiI	CCNNNNNNNGG	1 cut(s)	149
AflIII	ACRYGT	1 cut(s)	60
AjiI	CACGTC	1 cut(s)	61
AjnI	CCWGG	2 cut(s)	217, 364
AjuI	GAANNNNNNNTTGG	2 cut(s)	71, 103
AluBI	AGCT	5 cut(s)	400, 425, 471, 545, 550
AluI	AGCT	5 cut(s)	400, 425, 471, 545, 550
Alw26I	GTCTC	1 cut(s)	446
AlwI	GGATC	1 cut(s)	80
Ama87I	CYCGRG	2 cut(s)	243, 426
AoxI	GGCC	2 cut(s)	42, 91
ApeKI	GCWGC	1 cut(s)	336
AspLEI	GCGC	1 cut(s)	181
AspS9I	GGNCC	4 cut(s)	42, 91, 153, 195
AsuC2I	CCSGG	1 cut(s)	98
AsuHPI	GGTGA	1 cut(s)	94
AvaI	CYCGRG	2 cut(s)	243, 426
AvaII	GGWCC	2 cut(s)	153, 195
BaeGI	GKGCMC	1 cut(s)	118
BanI	GGYRCC	1 cut(s)	115
BanII	GRGCYC	1 cut(s)	135
BbvI	GCAGC	1 cut(s)	323
BccI	CCATC	1 cut(s)	164
BciT130I	CCWGG	2 cut(s)	219, 366
BcnI	CCSGG	1 cut(s)	98
BcoDI	GTCTC	1 cut(s)	446
BfaI	CTAG	2 cut(s)	330, 462
BisI	GCNGC	1 cut(s)	337
BlpI	GCTNAGC	1 cut(s)	546
BlsI	GCNGC	1 cut(s)	338
Bme1390I	CCNGG	3 cut(s)	98, 219, 366
Bme18I	GGWCC	2 cut(s)	153, 195
BmeT110I	CYCGRG	2 cut(s)	243, 426
BmgBI	CACGTC	1 cut(s)	61
BmgT120I	GGNCC	4 cut(s)	42, 91, 153, 195
BmiI	GGNNCC	3 cut(s)	117, 154, 197
BmrFI	CCNGG	3 cut(s)	98, 219, 366
BmsI	GCATC	2 cut(s)	306, 323
Bpu10I	CCTNAGC	1 cut(s)	467
Bpu1102I	GCTNAGC	1 cut(s)	546
BpuMI	CCSGG	1 cut(s)	98
BsaI	GGTCTC	1 cut(s)	446
BsaJI	CCNNGG	1 cut(s)	364
BsaWI	WCCGGW	2 cut(s)	52, 118
Bsc4I	CCNNNNNNNGG	1 cut(s)	149
Bse1I	ACTGG	2 cut(s)	280, 313
BseBI	CCWGG	2 cut(s)	219, 366
BseDI	CCNNGG	1 cut(s)	364
BseGI	GGATG	4 cut(s)	61, 156, 297, 454
BseLI	CCNNNNNNNGG	1 cut(s)	149
BseMII	CTCAG	2 cut(s)	458, 537
BseNI	ACTGG	2 cut(s)	280, 313
BseRI	GAGGAG	2 cut(s)	137, 425
BseSI	GKGCMC	1 cut(s)	118
BseXI	GCAGC	1 cut(s)	323
Bsh1236I	CGCG	2 cut(s)	20, 179
Bsh1285I	CGRYCG	3 cut(s)	24, 70, 147
BshFI	GGCC	2 cut(s)	44, 93
BshNI	GGYRCC	1 cut(s)	115
BsiEI	CGRYCG	3 cut(s)	24, 70, 147
BsiHKCI	CYCGRG	2 cut(s)	243, 426
BsiSI	CCGG	3 cut(s)	53, 97, 119
BslFI	GGGAC	1 cut(s)	113
BslI	CCNNNNNNNGG	1 cut(s)	149
BsmAI	GTCTC	1 cut(s)	446
BsmFI	GGGAC	1 cut(s)	113
BsnI	GGCC	2 cut(s)	44, 93
Bso31I	GGTCTC	1 cut(s)	446
BsoBI	CYCGRG	2 cut(s)	243, 426
Bsp1286I	GDGCHC	2 cut(s)	118, 135
Bsp1407I	TGTACA	1 cut(s)	495
Bsp143I	GATC	5 cut(s)	21, 67, 72, 126, 144
Bsp1720I	GCTNAGC	1 cut(s)	546
BspACI	CCGC	4 cut(s)	18, 111, 215, 295
BspANI	GGCC	2 cut(s)	44, 93
BspCNI	CTCAG	2 cut(s)	459, 538
BspFNI	CGCG	2 cut(s)	20, 179
BspLI	GGNNCC	3 cut(s)	117, 154, 197
BspPI	GGATC	1 cut(s)	80
BspT107I	GGYRCC	1 cut(s)	115
BspTNI	GGTCTC	1 cut(s)	446
BsrGI	TGTACA	1 cut(s)	495
BsrI	ACTGG	2 cut(s)	280, 313
BssECI	CCNNGG	1 cut(s)	364
BssMI	GATC	5 cut(s)	21, 67, 72, 126, 144
Bst2UI	CCWGG	2 cut(s)	219, 366
Bst4CI	ACNGT	1 cut(s)	395
Bst6I	CTCTTC	1 cut(s)	402
BstAUI	TGTACA	1 cut(s)	495
BstC8I	GCNNGC	1 cut(s)	265
BstDEI	CTNAG	2 cut(s)	467, 546
BstF5I	GGATG	4 cut(s)	61, 156, 297, 454
BstFNI	CGCG	2 cut(s)	20, 179
BstHHI	GCGC	1 cut(s)	181
BstKTI	GATC	5 cut(s)	24, 70, 75, 129, 147
BstMAI	GTCTC	1 cut(s)	446
BstMBI	GATC	5 cut(s)	21, 67, 72, 126, 144
BstMCI	CGRYCG	3 cut(s)	24, 70, 147
BstMWI	GCNNNNNNNGC	1 cut(s)	239
BstNI	CCWGG	2 cut(s)	219, 366
BstSCI	CCNGG	3 cut(s)	96, 217, 364
BstSLI	GKGCMC	1 cut(s)	118
BstUI	CGCG	2 cut(s)	20, 179
BstV1I	GCAGC	1 cut(s)	323
BsuRI	GGCC	2 cut(s)	44, 93
BtrI	CACGTC	1 cut(s)	61
BtsCI	GGATG	4 cut(s)	61, 156, 297, 454
BtsI	GCAGTG	1 cut(s)	237
BtsIMutI	CAGTG	2 cut(s)	237, 287
Cac8I	GCNNGC	1 cut(s)	265
CfoI	GCGC	1 cut(s)	181
Cfr13I	GGNCC	4 cut(s)	42, 91, 153, 195
CseI	GACGC	1 cut(s)	185
Csp6I	GTAC	1 cut(s)	496
CviQI	GTAC	1 cut(s)	496
DdeI	CTNAG	2 cut(s)	467, 546
DpnI	GATC	5 cut(s)	23, 69, 74, 128, 146
DpnII	GATC	5 cut(s)	21, 67, 72, 126, 144
Eam1104I	CTCTTC	1 cut(s)	402
EarI	CTCTTC	1 cut(s)	402
Eco24I	GRGCYC	1 cut(s)	135
Eco31I	GGTCTC	1 cut(s)	446
Eco47I	GGWCC	2 cut(s)	153, 195
Eco88I	CYCGRG	2 cut(s)	243, 426
EcoO109I	RGGNCCY	1 cut(s)	195
EcoRII	CCWGG	2 cut(s)	217, 364
EcoT38I	GRGCYC	1 cut(s)	135
FaiI	YATR	2 cut(s)	164, 345
FaqI	GGGAC	1 cut(s)	113
FauI	CCCGC	2 cut(s)	104, 222
Fnu4HI	GCNGC	1 cut(s)	337
FokI	GGATG	4 cut(s)	68, 143, 284, 461
FriOI	GRGCYC	1 cut(s)	135
Fsp4HI	GCNGC	1 cut(s)	337
FspBI	CTAG	2 cut(s)	330, 462
GlaI	GCGC	1 cut(s)	180
GluI	GCNGC	1 cut(s)	337
HaeIII	GGCC	2 cut(s)	44, 93
HapII	CCGG	3 cut(s)	53, 97, 119
HgaI	GACGC	1 cut(s)	185
HhaI	GCGC	1 cut(s)	181
Hin6I	GCGC	1 cut(s)	179
HinP1I	GCGC	1 cut(s)	179
HpaII	CCGG	3 cut(s)	53, 97, 119
HphI	GGTGA	1 cut(s)	94
Hpy166II	GTNNAC	1 cut(s)	356
Hpy188I	TCNGA	3 cut(s)	67, 72, 144
Hpy188III	TCNNGA	3 cut(s)	76, 330, 428
Hpy8I	GTNNAC	1 cut(s)	356
HpyAV	CCTTC	3 cut(s)	73, 244, 280
HpyCH4III	ACNGT	1 cut(s)	395
HpyCH4IV	ACGT	2 cut(s)	60, 358
HpyCH4V	TGCA	2 cut(s)	14, 491
HpyF10VI	GCNNNNNNNGC	1 cut(s)	239
HpyF3I	CTNAG	2 cut(s)	467, 546
HpySE526I	ACGT	2 cut(s)	60, 358
HspAI	GCGC	1 cut(s)	179
Kzo9I	GATC	5 cut(s)	21, 67, 72, 126, 144
Lsp1109I	GCAGC	1 cut(s)	323
LweI	GCATC	2 cut(s)	306, 323
MaeI	CTAG	2 cut(s)	330, 462
MaeII	ACGT	2 cut(s)	60, 358
MaeIII	GTNAC	1 cut(s)	478
MalI	GATC	5 cut(s)	23, 69, 74, 128, 146
MboI	GATC	5 cut(s)	21, 67, 72, 126, 144
MboII	GAAGA	2 cut(s)	419, 430
MhlI	GDGCHC	2 cut(s)	118, 135
MluCI	AATT	2 cut(s)	560, 565
MseI	TTAA	2 cut(s)	317, 563
MslI	CAYNNNNRTG	1 cut(s)	161
MspI	CCGG	3 cut(s)	53, 97, 119
MspR9I	CCNGG	3 cut(s)	98, 219, 366
MvaI	CCWGG	2 cut(s)	219, 366
MvnI	CGCG	2 cut(s)	20, 179
MwoI	GCNNNNNNNGC	1 cut(s)	239
NciI	CCSGG	1 cut(s)	98
NdeII	GATC	5 cut(s)	21, 67, 72, 126, 144
NlaIV	GGNNCC	3 cut(s)	117, 154, 197
PaeR7I	CTCGAG	2 cut(s)	243, 426
PfoI	TCCNGGA	1 cut(s)	96
PkrI	GCNGC	1 cut(s)	338
Ple19I	CGATCG	3 cut(s)	24, 70, 147
PpuMI	RGGWCCY	1 cut(s)	195
Psp5II	RGGWCCY	1 cut(s)	195
Psp6I	CCWGG	2 cut(s)	217, 364
PspGI	CCWGG	2 cut(s)	217, 364
PspN4I	GGNNCC	3 cut(s)	117, 154, 197
PspPI	GGNCC	4 cut(s)	42, 91, 153, 195
PspPPI	RGGWCCY	1 cut(s)	195
PspXI	VCTCGAGB	1 cut(s)	243
PvuI	CGATCG	3 cut(s)	24, 70, 147
RsaI	GTAC	1 cut(s)	497
RsaNI	GTAC	1 cut(s)	496
RseI	CAYNNNNRTG	1 cut(s)	161
SaqAI	TTAA	2 cut(s)	317, 563
SatI	GCNGC	1 cut(s)	337
Sau3AI	GATC	5 cut(s)	21, 67, 72, 126, 144
Sau96I	GGNCC	4 cut(s)	42, 91, 153, 195
ScrFI	CCNGG	3 cut(s)	98, 219, 366
SduI	GDGCHC	2 cut(s)	118, 135
SetI	ASST	8 cut(s)	63, 84, 361, 402, 427, 473, 547, 552
SfaNI	GCATC	2 cut(s)	306, 323
Sfr274I	CTCGAG	2 cut(s)	243, 426
SinI	GGWCC	2 cut(s)	153, 195
SlaI	CTCGAG	2 cut(s)	243, 426
SmiMI	CAYNNNNRTG	1 cut(s)	161
SmlI	CTYRAG	2 cut(s)	243, 426
SmoI	CTYRAG	2 cut(s)	243, 426
Sse9I	AATT	2 cut(s)	560, 565
SsiI	CCGC	4 cut(s)	18, 111, 215, 295
SspMI	CTAG	2 cut(s)	330, 462
StyD4I	CCNGG	3 cut(s)	96, 217, 364
TaaI	ACNGT	1 cut(s)	395
TaiI	ACGT	2 cut(s)	63, 361
TaqI	TCGA	3 cut(s)	129, 244, 427
TasI	AATT	2 cut(s)	560, 565
TatI	WGTACW	1 cut(s)	495
Tru1I	TTAA	2 cut(s)	317, 563
Tru9I	TTAA	2 cut(s)	317, 563
TscAI	CASTG	2 cut(s)	244, 287
TseI	GCWGC	1 cut(s)	336
TspDTI	ATGAA	1 cut(s)	267
TspGWI	ACGGA	1 cut(s)	149
TspRI	CASTG	2 cut(s)	244, 287
VpaK11BI	GGWCC	2 cut(s)	153, 195
XbaI	TCTAGA	1 cut(s)	329
XhoI	CTCGAG	2 cut(s)	243, 426
XspI	CTAG	2 cut(s)	330, 462

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