Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000007

Orthogroup ID

OG0003584

Physical Location & Seq

Genomic Coordinates Reverse (-)

22281435 .. 22282809

Gene Structure 1375 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug07G0242400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 534 bp

ATGGCTGACATCTCCGACGCCGAATCCAAACCCCACCTCATCTTCTCCTACGGCACACTTAAGCGAGGCTTCCGCAACCACAAGCTCACCAAGGAATTAATCGACCAAGACGACGCCGTTTTCATCGGCCCCTACATTACCCTCCACGCCTACCCCCTCGTCTGCGGCCCCCACGGATTGCCCTACCTCATCAACCTCCCCGGGTCGGGTCACCGGATCAGGGGCGAGCTCTACGCCGTTTCGACCCGGGGCCTCGCCCGGTTCGACGAGCTGGAAGGCACCTCCATCGGGCACTACGAGCGGCTCCCGGTTCAATTGACGGTCAATGCGGACAGAGACGACGTCGTTCCGGTCGAGGCCGAGGCCTATTTCGCGCACAGAAGCTTCGGGGAGGCCATGTGGGAGAGGAAAGGGAAGGAGGGTTTGAGCGAGTTCACGGAGAATGAGGCCAAAGGGTACGTGAAAAGACAGGATAGGCCTCATCAGGGTCGCAATATTCTCGAGGACGTCCGGCATTTTGTGAATGGAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0006139 GO:0006351 GO:0006383 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009553 GO:0009561 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032501 GO:0032502 GO:0032648 GO:0032728 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0046483 GO:0048229 GO:0048518 GO:0048583 GO:0048584 GO:0048856 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080134 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

177

Amino Acids

20.05

Weight (kDa)

5.99

Isoelectric Point (pI)

32.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GGACT	PF06094	14 - 127	1.8e-18	Gamma-glutamyl cyclotransferase, AIG2-like

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: OG0003584)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G45140 AT5G45140 AT5G45140
fragaria_vesca	FvH4_5g31720 FvH4_7g03930
malus_domestica	MD14G1029000.v1.1
prunus_persica	Prupe.2G044100_v2.0.a1 Prupe.2G044100_v2.0.a1 Prupe.2G044100_v2.0.a1 Prupe.2G044100_v2.0.a1 Prupe.2G044100_v2.0.a1 Prupe.2G044100_v2.0.a1 Prupe.2G044100_v2.0.a1
pyrus_communis	pycom14g02710
rosa_chinensis	RchiOBHm_Chr1g0327591 RchiOBHm_Chr7g0227611
rosa_laevigata	RLG00000001632 RLG00000029981
rosa_multiflora	Rmu_co8491793.1_g000001 Rmu_sc0001772.1_g000005 Rmu_ssc0000042.1_g000027
rosa_roxburghii	Rroxscaffold_3G00232000 Rroxscaffold_4G00322550
rosa_rugosa	Rorug01G0068500 Rorug07G0242400
rosa_samantha	Rh1AG085800 Rh1BG068400 Rh1CG083300 Rh1DG090000 Rh7AG395800 Rh7BG377500 Rh7CG414500 Rh7DG391600
rosa_wichuraiana	Rw1G006690 Rw7G032920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	2 cut(s)	345, 510
AccB1I	GGYRCC	1 cut(s)	278
AccBSI	CCGCTC	1 cut(s)	301
AccII	CGCG	1 cut(s)	374
AciI	CCGC	4 cut(s)	73, 165, 301, 329
AclWI	GGATC	1 cut(s)	224
AcyI	GRCGYC	4 cut(s)	18, 114, 342, 507
AfaI	GTAC	1 cut(s)	458
AfiI	CCNNNNNNNGG	5 cut(s)	205, 206, 220, 288, 485
AflII	CTTAAG	1 cut(s)	59
AgsI	TTSAA	1 cut(s)	314
AluBI	AGCT	4 cut(s)	85, 229, 271, 384
AluI	AGCT	4 cut(s)	85, 229, 271, 384
Alw21I	GWGCWC	1 cut(s)	231
Alw26I	GTCTC	1 cut(s)	330
AlwI	GGATC	1 cut(s)	224
Ama87I	CYCGRG	3 cut(s)	200, 246, 500
AoxI	GGCC	8 cut(s)	127, 166, 250, 357, 363, 393, 447, 476
AseI	ATTAAT	1 cut(s)	98
AspLEI	GCGC	1 cut(s)	376
AspS9I	GGNCC	3 cut(s)	128, 167, 250
AsuC2I	CCSGG	6 cut(s)	201, 202, 247, 248, 259, 308
AsuHPI	GGTGA	2 cut(s)	79, 203
AvaI	CYCGRG	3 cut(s)	200, 246, 500
BaeGI	GKGCMC	1 cut(s)	294
BanI	GGYRCC	1 cut(s)	278
BanII	GRGCYC	1 cut(s)	231
Bbv12I	GWGCWC	1 cut(s)	231
BccI	CCATC	1 cut(s)	293
BceAI	ACGGC	3 cut(s)	67, 101, 221
BcgI	CGANNNNNNTGC	4 cut(s)	268, 302, 481, 515
BcnI	CCSGG	6 cut(s)	201, 202, 247, 248, 259, 308
BcoDI	GTCTC	1 cut(s)	330
BfrI	CTTAAG	1 cut(s)	59
BisI	GCNGC	2 cut(s)	166, 302
BlsI	GCNGC	2 cut(s)	167, 303
Bme1390I	CCNGG	6 cut(s)	201, 202, 247, 248, 259, 308
BmeT110I	CYCGRG	3 cut(s)	200, 246, 500
BmgT120I	GGNCC	3 cut(s)	128, 167, 250
BmiI	GGNNCC	5 cut(s)	130, 169, 251, 280, 305
BmrFI	CCNGG	6 cut(s)	201, 202, 247, 248, 259, 308
BpuMI	CCSGG	6 cut(s)	201, 202, 247, 248, 259, 308
BsaAI	YACGTR	1 cut(s)	460
BsaHI	GRCGYC	4 cut(s)	18, 114, 342, 507
BsaJI	CCNNGG	7 cut(s)	90, 172, 199, 200, 246, 247, 360
BsaWI	WCCGGW	2 cut(s)	213, 349
BsaXI	ACNNNNNCTCC	2 cut(s)	383, 413
Bsc4I	CCNNNNNNNGG	5 cut(s)	205, 206, 220, 288, 485
BseDI	CCNNGG	7 cut(s)	90, 172, 199, 200, 246, 247, 360
BseLI	CCNNNNNNNGG	5 cut(s)	205, 206, 220, 288, 485
BseSI	GKGCMC	1 cut(s)	294
Bsh1236I	CGCG	1 cut(s)	374
Bsh1285I	CGRYCG	1 cut(s)	354
BshFI	GGCC	8 cut(s)	129, 168, 252, 359, 365, 395, 449, 478
BshNI	GGYRCC	1 cut(s)	278
BsiEI	CGRYCG	1 cut(s)	354
BsiHKAI	GWGCWC	1 cut(s)	231
BsiHKCI	CYCGRG	3 cut(s)	200, 246, 500
BsiSI	CCGG	7 cut(s)	201, 214, 247, 259, 308, 350, 511
BslI	CCNNNNNNNGG	5 cut(s)	205, 206, 220, 288, 485
BsmAI	GTCTC	1 cut(s)	330
BsmBI	CGTCTC	1 cut(s)	330
BsnI	GGCC	8 cut(s)	129, 168, 252, 359, 365, 395, 449, 478
BsoBI	CYCGRG	3 cut(s)	200, 246, 500
Bsp1286I	GDGCHC	2 cut(s)	231, 294
Bsp143I	GATC	1 cut(s)	216
BspACI	CCGC	4 cut(s)	73, 165, 301, 329
BspANI	GGCC	8 cut(s)	129, 168, 252, 359, 365, 395, 449, 478
BspFNI	CGCG	1 cut(s)	374
BspLI	GGNNCC	5 cut(s)	130, 169, 251, 280, 305
BspPI	GGATC	1 cut(s)	224
BspT107I	GGYRCC	1 cut(s)	278
BspTI	CTTAAG	1 cut(s)	59
BsrBI	CCGCTC	1 cut(s)	301
BssECI	CCNNGG	7 cut(s)	90, 172, 199, 200, 246, 247, 360
BssMI	GATC	1 cut(s)	216
BssNI	GRCGYC	4 cut(s)	18, 114, 342, 507
BssT1I	CCWWGG	1 cut(s)	90
Bst4CI	ACNGT	1 cut(s)	322
BstACI	GRCGYC	4 cut(s)	18, 114, 342, 507
BstAFI	CTTAAG	1 cut(s)	59
BstBAI	YACGTR	1 cut(s)	460
BstC8I	GCNNGC	1 cut(s)	227
BstDSI	CCRYGG	1 cut(s)	172
BstEII	GGTNACC	1 cut(s)	209
BstFNI	CGCG	1 cut(s)	374
BstHHI	GCGC	1 cut(s)	376
BstKTI	GATC	1 cut(s)	219
BstMAI	GTCTC	1 cut(s)	330
BstMBI	GATC	1 cut(s)	216
BstMCI	CGRYCG	1 cut(s)	354
BstMWI	GCNNNNNNNGC	2 cut(s)	298, 371
BstPI	GGTNACC	1 cut(s)	209
BstSCI	CCNGG	6 cut(s)	199, 200, 245, 246, 257, 306
BstSLI	GKGCMC	1 cut(s)	294
BstUI	CGCG	1 cut(s)	374
BsuRI	GGCC	8 cut(s)	129, 168, 252, 359, 365, 395, 449, 478
BtgI	CCRYGG	1 cut(s)	172
Cac8I	GCNNGC	1 cut(s)	227
CfoI	GCGC	1 cut(s)	376
Cfr13I	GGNCC	3 cut(s)	128, 167, 250
Cfr9I	CCCGGG	2 cut(s)	200, 246
CseI	GACGC	2 cut(s)	26, 122
Csp6I	GTAC	1 cut(s)	457
CviAII	CATG	1 cut(s)	397
CviQI	GTAC	1 cut(s)	457
DpnI	GATC	1 cut(s)	218
DpnII	GATC	1 cut(s)	216
Ecl136II	GAGCTC	1 cut(s)	229
Eco130I	CCWWGG	1 cut(s)	90
Eco147I	AGGCCT	2 cut(s)	365, 478
Eco24I	GRGCYC	1 cut(s)	231
Eco53kI	GAGCTC	1 cut(s)	229
Eco88I	CYCGRG	3 cut(s)	200, 246, 500
Eco91I	GGTNACC	1 cut(s)	209
EcoICRI	GAGCTC	1 cut(s)	229
EcoO109I	RGGNCCY	1 cut(s)	250
EcoO65I	GGTNACC	1 cut(s)	209
EcoT14I	CCWWGG	1 cut(s)	90
EcoT38I	GRGCYC	1 cut(s)	231
ErhI	CCWWGG	1 cut(s)	90
Esp3I	CGTCTC	1 cut(s)	330
FaeI	CATG	1 cut(s)	400
FaiI	YATR	1 cut(s)	398
FalI	AAGNNNNNCTT	2 cut(s)	53, 85
FatI	CATG	1 cut(s)	396
Fnu4HI	GCNGC	2 cut(s)	166, 302
FriOI	GRGCYC	1 cut(s)	231
Fsp4HI	GCNGC	2 cut(s)	166, 302
GlaI	GCGC	1 cut(s)	375
GluI	GCNGC	2 cut(s)	166, 302
HaeIII	GGCC	8 cut(s)	129, 168, 252, 359, 365, 395, 449, 478
HapII	CCGG	7 cut(s)	201, 214, 247, 259, 308, 350, 511
HgaI	GACGC	2 cut(s)	26, 122
HhaI	GCGC	1 cut(s)	376
Hin1I	GRCGYC	4 cut(s)	18, 114, 342, 507
Hin1II	CATG	1 cut(s)	400
Hin6I	GCGC	1 cut(s)	374
HinP1I	GCGC	1 cut(s)	374
HindIII	AAGCTT	1 cut(s)	382
HinfI	GANTC	1 cut(s)	23
HpaII	CCGG	7 cut(s)	201, 214, 247, 259, 308, 350, 511
HphI	GGTGA	2 cut(s)	79, 203
Hpy166II	GTNNAC	1 cut(s)	435
Hpy188I	TCNGA	1 cut(s)	16
Hpy188III	TCNNGA	1 cut(s)	500
Hpy8I	GTNNAC	1 cut(s)	435
Hpy99I	CGWCG	5 cut(s)	20, 116, 269, 344, 347
HpyAV	CCTTC	2 cut(s)	269, 409
HpyCH4III	ACNGT	1 cut(s)	322
HpyCH4IV	ACGT	3 cut(s)	342, 459, 507
HpyF10VI	GCNNNNNNNGC	2 cut(s)	298, 371
HpySE526I	ACGT	3 cut(s)	342, 459, 507
Hsp92I	GRCGYC	4 cut(s)	18, 114, 342, 507
Hsp92II	CATG	1 cut(s)	400
HspAI	GCGC	1 cut(s)	374
Kzo9I	GATC	1 cut(s)	216
LmnI	GCTCC	1 cut(s)	309
MaeII	ACGT	3 cut(s)	342, 459, 507
MaeIII	GTNAC	1 cut(s)	209
MalI	GATC	1 cut(s)	218
MbiI	CCGCTC	1 cut(s)	301
MboI	GATC	1 cut(s)	216
MboII	GAAGA	1 cut(s)	34
MfeI	CAATTG	1 cut(s)	314
MhlI	GDGCHC	2 cut(s)	231, 294
MluCI	AATT	2 cut(s)	95, 314
MmeI	TCCRAC	1 cut(s)	39
MseI	TTAA	2 cut(s)	60, 98
MspCI	CTTAAG	1 cut(s)	59
MspI	CCGG	7 cut(s)	201, 214, 247, 259, 308, 350, 511
MspR9I	CCNGG	6 cut(s)	201, 202, 247, 248, 259, 308
MunI	CAATTG	1 cut(s)	314
MvnI	CGCG	1 cut(s)	374
MwoI	GCNNNNNNNGC	2 cut(s)	298, 371
NciI	CCSGG	6 cut(s)	201, 202, 247, 248, 259, 308
NdeII	GATC	1 cut(s)	216
NlaIII	CATG	1 cut(s)	400
NlaIV	GGNNCC	5 cut(s)	130, 169, 251, 280, 305
NmeAIII	GCCGAG	1 cut(s)	385
NmuCI	GTSAC	1 cut(s)	209
PaeR7I	CTCGAG	1 cut(s)	500
PceI	AGGCCT	2 cut(s)	365, 478
PcsI	WCGNNNNNNNCGW	4 cut(s)	108, 261, 294, 351
PfeI	GAWTC	1 cut(s)	23
PflFI	GACNNNGTC	1 cut(s)	341
PkrI	GCNGC	2 cut(s)	167, 303
Ppu21I	YACGTR	1 cut(s)	460
PshBI	ATTAAT	1 cut(s)	98
Psp124BI	GAGCTC	1 cut(s)	231
PspEI	GGTNACC	1 cut(s)	209
PspN4I	GGNNCC	5 cut(s)	130, 169, 251, 280, 305
PspPI	GGNCC	3 cut(s)	128, 167, 250
PsyI	GACNNNGTC	1 cut(s)	341
RsaI	GTAC	1 cut(s)	458
RsaNI	GTAC	1 cut(s)	457
SacI	GAGCTC	1 cut(s)	231
SaqAI	TTAA	2 cut(s)	60, 98
SatI	GCNGC	2 cut(s)	166, 302
Sau3AI	GATC	1 cut(s)	216
Sau96I	GGNCC	3 cut(s)	128, 167, 250
ScrFI	CCNGG	6 cut(s)	201, 202, 247, 248, 259, 308
SduI	GDGCHC	2 cut(s)	231, 294
Sfr274I	CTCGAG	1 cut(s)	500
SlaI	CTCGAG	1 cut(s)	500
SmaI	CCCGGG	2 cut(s)	202, 248
SmlI	CTYRAG	2 cut(s)	59, 500
SmoI	CTYRAG	2 cut(s)	59, 500
Sse9I	AATT	2 cut(s)	95, 314
SseBI	AGGCCT	2 cut(s)	365, 478
SsiI	CCGC	4 cut(s)	73, 165, 301, 329
SspI	AATATT	1 cut(s)	496
SstI	GAGCTC	1 cut(s)	231
StuI	AGGCCT	2 cut(s)	365, 478
StyD4I	CCNGG	6 cut(s)	199, 200, 245, 246, 257, 306
StyI	CCWWGG	1 cut(s)	90
TaaI	ACNGT	1 cut(s)	322
TaiI	ACGT	3 cut(s)	345, 462, 510
TaqI	TCGA	5 cut(s)	102, 242, 264, 354, 501
TasI	AATT	2 cut(s)	95, 314
TauI	GCSGC	2 cut(s)	168, 304
TfiI	GAWTC	1 cut(s)	23
Tru1I	TTAA	2 cut(s)	60, 98
Tru9I	TTAA	2 cut(s)	60, 98
TseFI	GTSAC	1 cut(s)	209
Tsp45I	GTSAC	1 cut(s)	209
TspDTI	ATGAA	1 cut(s)	112
TspGWI	ACGGA	2 cut(s)	189, 452
TspMI	CCCGGG	2 cut(s)	200, 246
Tth111I	GACNNNGTC	1 cut(s)	341
Vha464I	CTTAAG	1 cut(s)	59
VspI	ATTAAT	1 cut(s)	98
XhoI	CTCGAG	1 cut(s)	500
XmaI	CCCGGG	2 cut(s)	200, 246
ZraI	GACGTC	2 cut(s)	343, 508

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