Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0003770

Physical Location & Seq

Genomic Coordinates Reverse (-)

4871454 .. 4881408

Gene Structure 9955 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0062300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGACCGATAAAGGGACCAAAAGGGATTTCAGCTCTACGATTCTCGAGCGGAAGAAGGTAGAGAATCGCCTTGTAGTCGATGAGGCCATCAACGATGACAACTCTGTCGTCGCACTCCACCCTGAGACCATGGAGAAGCTCCAGCTCTTTAGGGGCGACACAATCCTCATTAAGGTTCCCCGGAATGACCGTGGGGAGTTGGAATGTTTGGAGAAGCTAGTGAATAAGTATAAGGGGGGACAGATCCAATGTGTTGATTGGCTGGACCGCCTTGCCTTTAAAGCTATGGAGAGAATAAAGGAACGTGAAAGCTCTAAAATGGAAGTTTGCATTTGTACTTGGTTGTCGATTTCTGTAGTTTTGAACATCATGTTGTTTTCCAGGTTAGTGTCGAGAAGCCCTCAGAAGCAGAGGACCACAATTCCTTTGAGAAAGCTTGAAAAATGGTTGTCAACTGGTGGATTTACCGACTGTTTACTTCAGTATGGTGCATTGTTTGTTTATGGAGTTGATGTTGGATATGGCCAGGTTGCAGATGAACTTGTAGCAGAGTTTTCTGACCCTATCAATGGTGTTACATCCCCTGATCAGGAGAAAACAGAATATTTTGGCTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0000176 GO:0000178 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004527 GO:0004532 GO:0004540 GO:0005085 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016075 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0019439 GO:0019899 GO:0022613 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046700 GO:0051020 GO:0065007 GO:0065009 GO:0070013 GO:0071034 GO:0071043 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0098772 GO:0140098 GO:1901360 GO:1901361 GO:1901575 GO:1902494 GO:1905354

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

PIN_4 RNB Rrp44_CSD1 Rrp44_S1

Protein Analysis

205

Amino Acids

23.44

Weight (kDa)

5.65

Isoelectric Point (pI)

29.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CDC48_N	PF02359	23 - 58	1.7e-06	Cell division protein 48 (CDC48), N-terminal 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)

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Publication-ready

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Orthologous Genes (Group: OG0003770)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17500 AT2G17500 AT2G17500 AT2G17500 AT5G65980 AT5G65980
fragaria_vesca	FvH4_1g10180 FvH4_1g10180 FvH4_1g10180 FvH4_1g10180 FvH4_1g10180
malus_domestica	MD02G1113800.v1.1 MD15G1228900.v1.1
prunus_persica	Prupe.7G185200_v2.0.a1 Prupe.7G185200_v2.0.a1 Prupe.7G185200_v2.0.a1 Prupe.7G185200_v2.0.a1 Prupe.7G185200_v2.0.a1 Prupe.7G185200_v2.0.a1 Prupe.7G185200_v2.0.a1
pyrus_communis	pycom15g20410
rosa_chinensis	RchiOBHm_Chr2g0096951
rosa_laevigata	RLG00000016686
rosa_multiflora	Rmu_sc0001651.1_g000007
rosa_roxburghii	Rroxscaffold_2G00145130
rosa_rugosa	Rorug02G0062100 Rorug02G0062100 Rorug02G0062200 Rorug02G0062300
rosa_samantha	Rh2AG110200 Rh2BG112000 Rh2CG114100 Rh2DG113200
rosa_wichuraiana	Rw2G008520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	104
AccBSI	CCGCTC	1 cut(s)	49
AciI	CCGC	2 cut(s)	49, 268
AclWI	GGATC	1 cut(s)	238
AcoI	YGGCCR	1 cut(s)	523
AcuI	CTGAAG	1 cut(s)	464
AfaI	GTAC	1 cut(s)	337
AfiI	CCNNNNNNNGG	4 cut(s)	12, 172, 569, 589
AgsI	TTSAA	2 cut(s)	364, 440
AjnI	CCWGG	2 cut(s)	380, 525
AjuI	GAANNNNNNNTTGG	2 cut(s)	11, 43
AluBI	AGCT	7 cut(s)	33, 139, 145, 217, 284, 312, 436
AluI	AGCT	7 cut(s)	33, 139, 145, 217, 284, 312, 436
Alw26I	GTCTC	1 cut(s)	119
AlwI	GGATC	1 cut(s)	238
Ama87I	CYCGRG	1 cut(s)	44
AoxI	GGCC	2 cut(s)	84, 523
AspS9I	GGNCC	3 cut(s)	15, 265, 414
AsuC2I	CCSGG	1 cut(s)	181
AvaI	CYCGRG	1 cut(s)	44
AvaII	GGWCC	3 cut(s)	15, 265, 414
BalI	TGGCCA	1 cut(s)	525
BccI	CCATC	1 cut(s)	95
BciT130I	CCWGG	2 cut(s)	382, 527
BclI	TGATCA	1 cut(s)	586
BcnI	CCSGG	1 cut(s)	181
BcoDI	GTCTC	1 cut(s)	119
BfaI	CTAG	1 cut(s)	218
BfmI	CTRYAG	1 cut(s)	354
Bme1390I	CCNGG	3 cut(s)	181, 382, 527
Bme18I	GGWCC	3 cut(s)	15, 265, 414
BmeT110I	CYCGRG	1 cut(s)	44
BmgT120I	GGNCC	3 cut(s)	15, 265, 414
BmiI	GGNNCC	2 cut(s)	16, 177
BmrFI	CCNGG	3 cut(s)	181, 382, 527
BplI	GAGNNNNNCTC	2 cut(s)	385, 417
BpmI	CTGGAG	1 cut(s)	125
BpuMI	CCSGG	1 cut(s)	181
BsaI	GGTCTC	1 cut(s)	119
BsaJI	CCNNGG	3 cut(s)	129, 179, 190
BsaXI	ACNNNNNCTCC	2 cut(s)	498, 528
Bsc4I	CCNNNNNNNGG	4 cut(s)	12, 172, 569, 589
Bse1I	ACTGG	1 cut(s)	460
BseBI	CCWGG	2 cut(s)	382, 527
BseDI	CCNNGG	3 cut(s)	129, 179, 190
BseGI	GGATG	1 cut(s)	578
BseLI	CCNNNNNNNGG	4 cut(s)	12, 172, 569, 589
BseMII	CTCAG	2 cut(s)	114, 416
BseNI	ACTGG	1 cut(s)	460
BshFI	GGCC	2 cut(s)	86, 525
BsiHKCI	CYCGRG	1 cut(s)	44
BsiSI	CCGG	1 cut(s)	181
BslFI	GGGAC	2 cut(s)	28, 252
BslI	CCNNNNNNNGG	4 cut(s)	12, 172, 569, 589
BsmAI	GTCTC	1 cut(s)	119
BsmFI	GGGAC	2 cut(s)	28, 252
BsnI	GGCC	2 cut(s)	86, 525
Bso31I	GGTCTC	1 cut(s)	119
BsoBI	CYCGRG	1 cut(s)	44
Bsp143I	GATC	2 cut(s)	243, 586
Bsp19I	CCATGG	1 cut(s)	129
BspACI	CCGC	2 cut(s)	49, 268
BspANI	GGCC	2 cut(s)	86, 525
BspCNI	CTCAG	2 cut(s)	115, 415
BspLI	GGNNCC	2 cut(s)	16, 177
BspPI	GGATC	1 cut(s)	238
BspTNI	GGTCTC	1 cut(s)	119
BsrBI	CCGCTC	1 cut(s)	49
BsrI	ACTGG	1 cut(s)	460
BssECI	CCNNGG	3 cut(s)	129, 179, 190
BssMI	GATC	2 cut(s)	243, 586
BssT1I	CCWWGG	1 cut(s)	129
Bst2UI	CCWGG	2 cut(s)	382, 527
Bst4CI	ACNGT	2 cut(s)	191, 473
BstDEI	CTNAG	2 cut(s)	123, 402
BstDSI	CCRYGG	2 cut(s)	129, 190
BstENI	CCTNNNNNAGG	1 cut(s)	170
BstF5I	GGATG	1 cut(s)	578
BstKTI	GATC	2 cut(s)	246, 589
BstMAI	GTCTC	1 cut(s)	119
BstMBI	GATC	2 cut(s)	243, 586
BstMWI	GCNNNNNNNGC	1 cut(s)	281
BstNI	CCWGG	2 cut(s)	382, 527
BstSCI	CCNGG	3 cut(s)	179, 380, 525
BstSFI	CTRYAG	1 cut(s)	354
BstX2I	RGATCY	1 cut(s)	243
BstYI	RGATCY	1 cut(s)	243
BsuRI	GGCC	2 cut(s)	86, 525
BtgI	CCRYGG	2 cut(s)	129, 190
BtsCI	GGATG	1 cut(s)	578
Cfr13I	GGNCC	3 cut(s)	15, 265, 414
Csp6I	GTAC	1 cut(s)	336
CviAII	CATG	2 cut(s)	130, 370
CviQI	GTAC	1 cut(s)	336
DdeI	CTNAG	2 cut(s)	123, 402
DpnI	GATC	2 cut(s)	245, 588
DpnII	GATC	2 cut(s)	243, 586
DraI	TTTAAA	1 cut(s)	280
DrdI	GACNNNNNNGTC	1 cut(s)	104
DseDI	GACNNNNNNGTC	1 cut(s)	104
EaeI	YGGCCR	1 cut(s)	523
Eco130I	CCWWGG	1 cut(s)	129
Eco31I	GGTCTC	1 cut(s)	119
Eco47I	GGWCC	3 cut(s)	15, 265, 414
Eco57I	CTGAAG	1 cut(s)	464
Eco88I	CYCGRG	1 cut(s)	44
EcoNI	CCTNNNNNAGG	1 cut(s)	170
EcoRII	CCWGG	2 cut(s)	380, 525
EcoT14I	CCWWGG	1 cut(s)	129
ErhI	CCWWGG	1 cut(s)	129
FaeI	CATG	2 cut(s)	133, 373
FaiI	YATR	7 cut(s)	131, 231, 287, 371, 486, 504, 522
FaqI	GGGAC	2 cut(s)	28, 252
FatI	CATG	2 cut(s)	129, 369
FbaI	TGATCA	1 cut(s)	586
FokI	GGATG	1 cut(s)	565
FspBI	CTAG	1 cut(s)	218
GsuI	CTGGAG	1 cut(s)	125
HaeIII	GGCC	2 cut(s)	86, 525
HapII	CCGG	1 cut(s)	181
Hin1II	CATG	2 cut(s)	133, 373
HincII	GTYRAC	1 cut(s)	453
HindII	GTYRAC	1 cut(s)	453
HindIII	AAGCTT	1 cut(s)	434
HinfI	GANTC	2 cut(s)	40, 64
HpaII	CCGG	1 cut(s)	181
Hpy166II	GTNNAC	2 cut(s)	453, 476
Hpy188I	TCNGA	2 cut(s)	405, 559
Hpy188III	TCNNGA	3 cut(s)	44, 393, 590
Hpy8I	GTNNAC	2 cut(s)	453, 476
Hpy99I	CGWCG	1 cut(s)	113
HpyAV	CCTTC	1 cut(s)	49
HpyCH4III	ACNGT	2 cut(s)	191, 473
HpyCH4IV	ACGT	1 cut(s)	304
HpyCH4V	TGCA	3 cut(s)	330, 491, 533
HpyF10VI	GCNNNNNNNGC	1 cut(s)	281
HpyF3I	CTNAG	2 cut(s)	123, 402
HpySE526I	ACGT	1 cut(s)	304
Hsp92II	CATG	2 cut(s)	133, 373
Ksp22I	TGATCA	1 cut(s)	586
Kzo9I	GATC	2 cut(s)	243, 586
LmnI	GCTCC	1 cut(s)	144
MaeI	CTAG	1 cut(s)	218
MaeII	ACGT	1 cut(s)	304
MaeIII	GTNAC	1 cut(s)	574
MalI	GATC	2 cut(s)	245, 588
MbiI	CCGCTC	1 cut(s)	49
MboI	GATC	2 cut(s)	243, 586
MboII	GAAGA	1 cut(s)	64
MflI	RGATCY	1 cut(s)	243
MlsI	TGGCCA	1 cut(s)	525
MluCI	AATT	1 cut(s)	420
MluNI	TGGCCA	1 cut(s)	525
MmeI	TCCRAC	2 cut(s)	180, 496
MnlI	CCTC	4 cut(s)	76, 176, 405, 411
Mox20I	TGGCCA	1 cut(s)	525
MscI	TGGCCA	1 cut(s)	525
MseI	TTAA	2 cut(s)	171, 279
Msp20I	TGGCCA	1 cut(s)	525
MspI	CCGG	1 cut(s)	181
MspR9I	CCNGG	3 cut(s)	181, 382, 527
MvaI	CCWGG	2 cut(s)	382, 527
MwoI	GCNNNNNNNGC	1 cut(s)	281
NciI	CCSGG	1 cut(s)	181
NcoI	CCATGG	1 cut(s)	129
NdeII	GATC	2 cut(s)	243, 586
NlaIII	CATG	2 cut(s)	133, 373
NlaIV	GGNNCC	2 cut(s)	16, 177
PaeR7I	CTCGAG	1 cut(s)	44
PfeI	GAWTC	2 cut(s)	40, 64
Psp6I	CCWGG	2 cut(s)	380, 525
PspGI	CCWGG	2 cut(s)	380, 525
PspN4I	GGNNCC	2 cut(s)	16, 177
PspPI	GGNCC	3 cut(s)	15, 265, 414
PsuI	RGATCY	1 cut(s)	243
RsaI	GTAC	1 cut(s)	337
RsaNI	GTAC	1 cut(s)	336
SaqAI	TTAA	2 cut(s)	171, 279
Sau3AI	GATC	2 cut(s)	243, 586
Sau96I	GGNCC	3 cut(s)	15, 265, 414
ScrFI	CCNGG	3 cut(s)	181, 382, 527
SfcI	CTRYAG	1 cut(s)	354
Sfr274I	CTCGAG	1 cut(s)	44
SinI	GGWCC	3 cut(s)	15, 265, 414
SlaI	CTCGAG	1 cut(s)	44
SmlI	CTYRAG	1 cut(s)	44
SmoI	CTYRAG	1 cut(s)	44
Sse9I	AATT	1 cut(s)	420
SsiI	CCGC	2 cut(s)	49, 268
SspI	AATATT	1 cut(s)	605
SspMI	CTAG	1 cut(s)	218
StyD4I	CCNGG	3 cut(s)	179, 380, 525
StyI	CCWWGG	1 cut(s)	129
TaaI	ACNGT	2 cut(s)	191, 473
TaiI	ACGT	1 cut(s)	307
TaqI	TCGA	4 cut(s)	45, 78, 347, 392
TaqII	GACCGA	1 cut(s)	20
TasI	AATT	1 cut(s)	420
TatI	WGTACW	1 cut(s)	335
TfiI	GAWTC	2 cut(s)	40, 64
Tru1I	TTAA	2 cut(s)	171, 279
Tru9I	TTAA	2 cut(s)	171, 279
TspDTI	ATGAA	1 cut(s)	552
VpaK11BI	GGWCC	3 cut(s)	15, 265, 414
XagI	CCTNNNNNAGG	1 cut(s)	170
XhoI	CTCGAG	1 cut(s)	44
XspI	CTAG	1 cut(s)	218

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