Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000009

Orthogroup ID

OG0005882

Physical Location & Seq

Genomic Coordinates Reverse (-)

111894 .. 112238

Gene Structure 345 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RorugMtG0001900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGAACCGCGGCGAACCCTCAGACGACCTATCTAAGATTAGGGGGGAGATCCTCAGTAGTGGTGACCCCTTCACTCTTCCACGGACTAATACATGTACCGAATGCTCATACGGGAAAGTTGACTCCTGGGTCTGGGGGTTGCTCCGAGAAATCCTTTCTTTCTCGTCCACTCAGGGGGGTGCGGACACACCTGCGCGGATTACAGGTGACGGTTACAAGAATGGCGGGGAAGTGAACAGTACCCGACGACATTCAGGGATGGATGTAGACCCGTCGGGCAGGGATAATCATTCCGGTCCTGGGAGAGGTGGCGACCATTCTCAAGAACCAAAAAGACTGAGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006354 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009295 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0061695 GO:0071704 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 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

114

Amino Acids

12.27

Weight (kDa)

5.87

Isoelectric Point (pI)

39.37

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005882)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00190
malus_domestica	MD01G1093300.v1.1 MD16G1169300.v1.1
pyrus_communis	pycom12397g00320 pycom14g07090
rosa_chinensis	RchiOBHm_CPg0502401
rosa_laevigata	RLG00000000047 RLG00000000087 RLG00000000116 RLG00000000175 RLG00000000231 RLG00000000246 RLG00000000284 RLG00000000299 RLG00000000300 RLG00000000314 RLG00000000318 RLG00000000340
rosa_multiflora	Rmu_sc0002986.1_g000010 Rmu_sc0008812.1_g000013 Rmu_sc0011830.1_g000003
rosa_roxburghii	Rroxscaffold_2G00119070
rosa_rugosa	Rorug02G0490800 RorugMtG0001900
rosa_samantha	Rh2AG293900 Rh2AG294000 Rh2DG317800 Rh2DG317900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	199
AasI	GACNNNNNNGTC	1 cut(s)	128
Acc36I	ACCTGC	1 cut(s)	199
AccI	GTMKAC	1 cut(s)	267
AccII	CGCG	2 cut(s)	9, 196
AciI	CCGC	5 cut(s)	7, 9, 182, 196, 225
AclWI	GGATC	1 cut(s)	43
AfaI	GTAC	2 cut(s)	97, 241
AfiI	CCNNNNNNNGG	4 cut(s)	132, 174, 300, 305
AflIII	ACRYGT	1 cut(s)	92
AjnI	CCWGG	2 cut(s)	125, 298
AluBI	AGCT	1 cut(s)	342
AluI	AGCT	1 cut(s)	342
AlwI	GGATC	1 cut(s)	43
AspLEI	GCGC	1 cut(s)	196
AspS9I	GGNCC	1 cut(s)	296
AsuHPI	GGTGA	2 cut(s)	74, 218
AvaII	GGWCC	1 cut(s)	296
BccI	CCATC	1 cut(s)	253
BciT130I	CCWGG	2 cut(s)	127, 300
BfuAI	ACCTGC	1 cut(s)	199
BisI	GCNGC	1 cut(s)	10
BlsI	GCNGC	1 cut(s)	11
Bme1390I	CCNGG	2 cut(s)	127, 300
Bme18I	GGWCC	1 cut(s)	296
BmgT120I	GGNCC	1 cut(s)	296
BmrFI	CCNGG	2 cut(s)	127, 300
BpuEI	CTTGAG	1 cut(s)	306
BsaJI	CCNNGG	4 cut(s)	7, 80, 126, 299
BsaWI	WCCGGW	1 cut(s)	293
Bsc4I	CCNNNNNNNGG	4 cut(s)	132, 174, 300, 305
BseBI	CCWGG	2 cut(s)	127, 300
BseDI	CCNNGG	4 cut(s)	7, 80, 126, 299
BseGI	GGATG	2 cut(s)	264, 268
BseLI	CCNNNNNNNGG	4 cut(s)	132, 174, 300, 305
BseMII	CTCAG	4 cut(s)	33, 67, 185, 329
Bsh1236I	CGCG	2 cut(s)	9, 196
BsiSI	CCGG	1 cut(s)	294
BslI	CCNNNNNNNGG	4 cut(s)	132, 174, 300, 305
BsmI	GAATGC	1 cut(s)	107
Bsp143I	GATC	1 cut(s)	48
BspACI	CCGC	5 cut(s)	7, 9, 182, 196, 225
BspCNI	CTCAG	4 cut(s)	32, 66, 184, 330
BspFNI	CGCG	2 cut(s)	9, 196
BspMI	ACCTGC	1 cut(s)	199
BspPI	GGATC	1 cut(s)	43
BssECI	CCNNGG	4 cut(s)	7, 80, 126, 299
BssMI	GATC	1 cut(s)	48
Bst2UI	CCWGG	2 cut(s)	127, 300
Bst4CI	ACNGT	2 cut(s)	212, 239
Bst6I	CTCTTC	1 cut(s)	81
BstDEI	CTNAG	5 cut(s)	19, 33, 53, 171, 338
BstDSI	CCRYGG	2 cut(s)	7, 80
BstEII	GGTNACC	1 cut(s)	62
BstENI	CCTNNNNNAGG	1 cut(s)	303
BstF5I	GGATG	2 cut(s)	264, 268
BstFNI	CGCG	2 cut(s)	9, 196
BstHHI	GCGC	1 cut(s)	196
BstKTI	GATC	1 cut(s)	51
BstMBI	GATC	1 cut(s)	48
BstNI	CCWGG	2 cut(s)	127, 300
BstNSI	RCATGY	1 cut(s)	96
BstPI	GGTNACC	1 cut(s)	62
BstSCI	CCNGG	2 cut(s)	125, 298
BstUI	CGCG	2 cut(s)	9, 196
BstX2I	RGATCY	1 cut(s)	48
BstYI	RGATCY	1 cut(s)	48
BtgI	CCRYGG	2 cut(s)	7, 80
BtsCI	GGATG	2 cut(s)	264, 268
BveI	ACCTGC	1 cut(s)	199
CfoI	GCGC	1 cut(s)	196
Cfr13I	GGNCC	1 cut(s)	296
Cfr42I	CCGCGG	1 cut(s)	10
Csp6I	GTAC	2 cut(s)	96, 240
CviAII	CATG	1 cut(s)	93
CviJI	RGCY	1 cut(s)	342
CviKI_1	RGCY	1 cut(s)	342
CviQI	GTAC	2 cut(s)	96, 240
DdeI	CTNAG	5 cut(s)	19, 33, 53, 171, 338
DpnI	GATC	1 cut(s)	50
DpnII	GATC	1 cut(s)	48
DrdI	GACNNNNNNGTC	1 cut(s)	128
DseDI	GACNNNNNNGTC	1 cut(s)	128
Eam1104I	CTCTTC	1 cut(s)	81
EarI	CTCTTC	1 cut(s)	81
Eco47I	GGWCC	1 cut(s)	296
Eco91I	GGTNACC	1 cut(s)	62
EcoNI	CCTNNNNNAGG	1 cut(s)	303
EcoO65I	GGTNACC	1 cut(s)	62
EcoRII	CCWGG	2 cut(s)	125, 298
FaeI	CATG	1 cut(s)	96
FaiI	YATR	2 cut(s)	94, 109
FatI	CATG	1 cut(s)	92
FauI	CCCGC	1 cut(s)	218
FblI	GTMKAC	1 cut(s)	267
Fnu4HI	GCNGC	1 cut(s)	10
FokI	GGATG	2 cut(s)	271, 275
Fsp4HI	GCNGC	1 cut(s)	10
GlaI	GCGC	1 cut(s)	195
GluI	GCNGC	1 cut(s)	10
HapII	CCGG	1 cut(s)	294
HhaI	GCGC	1 cut(s)	196
Hin1II	CATG	1 cut(s)	96
Hin6I	GCGC	1 cut(s)	194
HinP1I	GCGC	1 cut(s)	194
HincII	GTYRAC	1 cut(s)	121
HindII	GTYRAC	1 cut(s)	121
HinfI	GANTC	1 cut(s)	122
HpaII	CCGG	1 cut(s)	294
HphI	GGTGA	2 cut(s)	74, 218
Hpy166II	GTNNAC	4 cut(s)	121, 168, 235, 268
Hpy188I	TCNGA	2 cut(s)	22, 146
Hpy188III	TCNNGA	1 cut(s)	323
Hpy8I	GTNNAC	4 cut(s)	121, 168, 235, 268
Hpy99I	CGWCG	2 cut(s)	249, 277
HpyAV	CCTTC	1 cut(s)	79
HpyCH4III	ACNGT	2 cut(s)	212, 239
HpyF3I	CTNAG	5 cut(s)	19, 33, 53, 171, 338
Hsp92II	CATG	1 cut(s)	96
HspAI	GCGC	1 cut(s)	194
KspI	CCGCGG	1 cut(s)	10
Kzo9I	GATC	1 cut(s)	48
LmnI	GCTCC	1 cut(s)	147
MaeIII	GTNAC	3 cut(s)	62, 206, 212
MalI	GATC	1 cut(s)	50
MboI	GATC	1 cut(s)	48
MboII	GAAGA	1 cut(s)	68
MflI	RGATCY	1 cut(s)	48
MlyI	GAGTC	1 cut(s)	116
MnlI	CCTC	3 cut(s)	28, 62, 299
MspA1I	CMGCKG	1 cut(s)	9
MspI	CCGG	1 cut(s)	294
MspR9I	CCNGG	2 cut(s)	127, 300
Mva1269I	GAATGC	1 cut(s)	107
MvaI	CCWGG	2 cut(s)	127, 300
MvnI	CGCG	2 cut(s)	9, 196
NdeII	GATC	1 cut(s)	48
NlaIII	CATG	1 cut(s)	96
NmuCI	GTSAC	2 cut(s)	62, 206
NspI	RCATGY	1 cut(s)	96
PaqCI	CACCTGC	1 cut(s)	199
PciI	ACATGT	1 cut(s)	92
PctI	GAATGC	1 cut(s)	107
PkrI	GCNGC	1 cut(s)	11
PleI	GAGTC	1 cut(s)	116
PpsI	GAGTC	1 cut(s)	116
PscI	ACATGT	1 cut(s)	92
Psp6I	CCWGG	2 cut(s)	125, 298
PspEI	GGTNACC	1 cut(s)	62
PspGI	CCWGG	2 cut(s)	125, 298
PspPI	GGNCC	1 cut(s)	296
PsuI	RGATCY	1 cut(s)	48
RsaI	GTAC	2 cut(s)	97, 241
RsaNI	GTAC	2 cut(s)	96, 240
SacII	CCGCGG	1 cut(s)	10
SatI	GCNGC	1 cut(s)	10
Sau3AI	GATC	1 cut(s)	48
Sau96I	GGNCC	1 cut(s)	296
SchI	GAGTC	1 cut(s)	116
ScrFI	CCNGG	2 cut(s)	127, 300
SetI	ASST	5 cut(s)	30, 193, 208, 310, 344
Sfr303I	CCGCGG	1 cut(s)	10
SgrBI	CCGCGG	1 cut(s)	10
SinI	GGWCC	1 cut(s)	296
SmlI	CTYRAG	1 cut(s)	321
SmoI	CTYRAG	1 cut(s)	321
SsiI	CCGC	5 cut(s)	7, 9, 182, 196, 225
StyD4I	CCNGG	2 cut(s)	125, 298
TaaI	ACNGT	2 cut(s)	212, 239
TauI	GCSGC	1 cut(s)	12
TseFI	GTSAC	2 cut(s)	62, 206
Tsp45I	GTSAC	2 cut(s)	62, 206
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	1 cut(s)	97
VpaK11BI	GGWCC	1 cut(s)	296
XagI	CCTNNNNNAGG	1 cut(s)	303
XceI	RCATGY	1 cut(s)	96
XmiI	GTMKAC	1 cut(s)	267

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