Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0004782

Physical Location & Seq

Genomic Coordinates Forward (+)

74218240 .. 74220938

Gene Structure 2699 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0554600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 762 bp

ATGCGTCGTATGGAACTTGTTCCTGATACCGTTACTTATAACACTCTTATTGATGGTCTTTACAAAGTGGGGAGAATCCAAGAAGCAGAAAAGTTATTCTCTGAGATGCAAGGTTGTGGCCAGCTTCCAGATTTTCAAACTTATGCTGTGATACTTGATGGCCTGTGTAACAACCACCAACTTTCTACGGCAATCAAATTGCTTAAAGAGATGGAAGCCAACAAATTGGAACTTAATATTGTAGTTTACAGTGTTGTTATTGAAGGTTTATGCAAAGCTGGAAAACTTGAATCTGCAAGAGATCTCTTCTGTGGGTTGTCATCAAAAGGACTTCAACCTGATGTGAGGGCATACAATATAATGATTGGTGGACTTTGTCATCATGGCTTATTAAATGAAGCAGAAAAGTTGTTGAGAGAAATGGGAGGGAAAGGATGTTCTCCAGATGGTTGCACCTATAACACTATTATCCGAGAATTGGTTAGAGAGGTAGTGCTAGTTTGGTTCCTCTTTGACCCGCTTTCAGAACATGACAAGGCTTCCTTCTTTAACAATGACCTCCTAATTTTGGATGCCTTCGTGATTCATAAGGTTGTTGTAATCACTCTTGGTCTTCTTTTTATAGGGAAGCTACTTGAACCTGTCTGGGGTTCCAGGGAGTTCTTGAAGTTTATCTTTGTAGTTAACTTCCTAACATCCATATGCATTTTCCTCACTGCCATTGCACTGTACTACATTACAAGGAAGGAAACTTACCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000002 GO:0000731 GO:0002200 GO:0002206 GO:0002376 GO:0002377 GO:0002440 GO:0002520 GO:0002565 GO:0003674 GO:0003824 GO:0003887 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006281 GO:0006301 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007005 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010224 GO:0016043 GO:0016444 GO:0016445 GO:0016740 GO:0016772 GO:0016779 GO:0017125 GO:0018130 GO:0019438 GO:0019985 GO:0031974 GO:0031981 GO:0032042 GO:0032501 GO:0032502 GO:0033554 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0035822 GO:0035861 GO:0042276 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043504 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048731 GO:0048856 GO:0050896 GO:0051716 GO:0070013 GO:0070987 GO:0071704 GO:0071840 GO:0071897 GO:0090304 GO:0090734 GO:0140097 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03460 map03460

Pfam Domains

Protein Families

BRCT_2 IMS IMS_C IMS_HHH LIG3_BRCT

Protein Analysis

253

Amino Acids

28.55

Weight (kDa)

5.78

Isoelectric Point (pI)

26.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	5 - 37	4.5e-12	PPR repeat
PPR_2	PF13041	8 - 57	1.6e-17	PPR repeat family
TPR_24	PF23276	10 - 103	6.4e-07	Fungal tetratrico peptide repeats
PPR	PF01535	11 - 40	3e-09	PPR repeat
PPR_1	PF12854	40 - 72	3.8e-06	PPR repeat
PPR_2	PF13041	51 - 92	2.3e-09	PPR repeat family
PPR_3	PF13812	66 - 123	2.7e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	76 - 103	1.1e-06	PPR repeat
PPR_2	PF13041	79 - 127	2.8e-14	PPR repeat family
PPR_3	PF13812	106 - 158	1.3e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	109 - 141	1.6e-12	PPR repeat
PPR_2	PF13041	113 - 161	9.9e-16	PPR repeat family
PPR	PF01535	117 - 146	1.2e-08	PPR repeat
DUF1751	PF08551	195 - 253	3.9e-15	Eukaryotic integral membrane protein (DUF1751)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0004782)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G44750 AT5G44750
fragaria_vesca	FvH4_1g23540 FvH4_2g04972
malus_domestica	MD05G1091100.v1.1 MD10G1098400.v1.1
prunus_persica	Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1 Prupe.8G136700_v2.0.a1
pyrus_communis	pycom10g08430
rosa_chinensis	RchiOBHm_Chr6g0254741
rosa_laevigata	RLG00000014893
rosa_multiflora	Rmu_sc0007716.1_g000003
rosa_roxburghii	Rroxscaffold_7G00210560
rosa_rugosa	Rorug05G0554600
rosa_samantha	Rh6AG071600 Rh6BG063800 Rh6CG063200 Rh6DG060300
rosa_wichuraiana	Rw6G006270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	39
AciI	CCGC	1 cut(s)	518
AcoI	YGGCCR	1 cut(s)	118
AfaI	GTAC	1 cut(s)	731
AfiI	CCNNNNNNNGG	3 cut(s)	478, 568, 647
AgsI	TTSAA	6 cut(s)	137, 263, 290, 335, 638, 667
AjnI	CCWGG	1 cut(s)	653
AloI	GAACNNNNNNTCC	2 cut(s)	421, 453
AluBI	AGCT	3 cut(s)	124, 278, 631
AluI	AGCT	3 cut(s)	124, 278, 631
AoxI	GGCC	2 cut(s)	118, 160
Asp700I	GAANNNNTTC	1 cut(s)	18
BalI	TGGCCA	1 cut(s)	120
BarI	GAAGNNNNNNTAC	1 cut(s)	737
BbsI	GAAGAC	1 cut(s)	605
BccI	CCATC	4 cut(s)	47, 152, 205, 440
BceAI	ACGGC	1 cut(s)	204
BciT130I	CCWGG	1 cut(s)	655
BfaI	CTAG	1 cut(s)	497
BglII	AGATCT	1 cut(s)	301
Bme1390I	CCNGG	1 cut(s)	655
BmiI	GGNNCC	2 cut(s)	506, 652
BmrFI	CCNGG	1 cut(s)	655
BmsI	GCATC	2 cut(s)	96, 562
BpiI	GAAGAC	1 cut(s)	605
BpmI	CTGGAG	1 cut(s)	426
BsaJI	CCNNGG	1 cut(s)	654
Bsc4I	CCNNNNNNNGG	3 cut(s)	478, 568, 647
Bse3DI	GCAATG	1 cut(s)	720
BseBI	CCWGG	1 cut(s)	655
BseDI	CCNNGG	1 cut(s)	654
BseGI	GGATG	3 cut(s)	440, 577, 695
BseLI	CCNNNNNNNGG	3 cut(s)	478, 568, 647
BseMI	GCAATG	1 cut(s)	720
BseMII	CTCAG	1 cut(s)	93
BshFI	GGCC	2 cut(s)	120, 162
BslI	CCNNNNNNNGG	3 cut(s)	478, 568, 647
BsnI	GGCC	2 cut(s)	120, 162
Bsp143I	GATC	1 cut(s)	301
BspACI	CCGC	1 cut(s)	518
BspANI	GGCC	2 cut(s)	120, 162
BspCNI	CTCAG	1 cut(s)	94
BspLI	GGNNCC	2 cut(s)	506, 652
BsrDI	GCAATG	1 cut(s)	720
BssECI	CCNNGG	1 cut(s)	654
BssMI	GATC	1 cut(s)	301
Bst2UI	CCWGG	1 cut(s)	655
Bst4CI	ACNGT	3 cut(s)	31, 251, 729
Bst6I	CTCTTC	1 cut(s)	311
BstC8I	GCNNGC	1 cut(s)	122
BstDEI	CTNAG	1 cut(s)	102
BstF5I	GGATG	3 cut(s)	440, 577, 695
BstKTI	GATC	1 cut(s)	304
BstMBI	GATC	1 cut(s)	301
BstNI	CCWGG	1 cut(s)	655
BstSCI	CCNGG	1 cut(s)	653
BstV2I	GAAGAC	1 cut(s)	605
BstX2I	RGATCY	1 cut(s)	301
BstXI	CCANNNNNNTGG	1 cut(s)	226
BstYI	RGATCY	1 cut(s)	301
BsuRI	GGCC	2 cut(s)	120, 162
BtsCI	GGATG	3 cut(s)	440, 577, 695
BtsI	GCAGTG	1 cut(s)	714
BtsIMutI	CAGTG	3 cut(s)	256, 714, 725
Cac8I	GCNNGC	1 cut(s)	122
Csp6I	GTAC	1 cut(s)	730
CviAII	CATG	2 cut(s)	383, 530
CviJI	RGCY	8 cut(s)	120, 124, 162, 218, 278, 387, 539, 631
CviKI_1	RGCY	8 cut(s)	120, 124, 162, 218, 278, 387, 539, 631
CviQI	GTAC	1 cut(s)	730
DdeI	CTNAG	1 cut(s)	102
DpnI	GATC	1 cut(s)	303
DpnII	GATC	1 cut(s)	301
EaeI	YGGCCR	1 cut(s)	118
Eam1104I	CTCTTC	1 cut(s)	311
EarI	CTCTTC	1 cut(s)	311
EcoRII	CCWGG	1 cut(s)	653
EcoT22I	ATGCAT	1 cut(s)	707
FaeI	CATG	2 cut(s)	386, 533
FalI	AAGNNNNNCTT	4 cut(s)	527, 559, 659, 691
FatI	CATG	2 cut(s)	382, 529
FauI	CCCGC	1 cut(s)	525
FauNDI	CATATG	1 cut(s)	701
FokI	GGATG	3 cut(s)	447, 584, 682
FspBI	CTAG	1 cut(s)	497
GsuI	CTGGAG	1 cut(s)	426
HaeIII	GGCC	2 cut(s)	120, 162
Hin1II	CATG	2 cut(s)	386, 533
HincII	GTYRAC	1 cut(s)	685
HindII	GTYRAC	1 cut(s)	685
HinfI	GANTC	3 cut(s)	75, 290, 583
HpaI	GTTAAC	1 cut(s)	685
Hpy166II	GTNNAC	3 cut(s)	247, 371, 685
Hpy188I	TCNGA	3 cut(s)	103, 473, 526
Hpy188III	TCNNGA	5 cut(s)	23, 128, 443, 580, 664
Hpy8I	GTNNAC	3 cut(s)	247, 371, 685
Hpy99I	CGWCG	1 cut(s)	9
HpyAV	CCTTC	4 cut(s)	257, 553, 586, 739
HpyCH4III	ACNGT	3 cut(s)	31, 251, 729
HpyCH4V	TGCA	6 cut(s)	109, 273, 296, 453, 705, 725
HpyF3I	CTNAG	1 cut(s)	102
Hsp92II	CATG	2 cut(s)	386, 533
KspAI	GTTAAC	1 cut(s)	685
Kzo9I	GATC	1 cut(s)	301
LweI	GCATC	2 cut(s)	96, 562
MaeI	CTAG	1 cut(s)	497
MaeIII	GTNAC	2 cut(s)	31, 167
MalI	GATC	1 cut(s)	303
MboI	GATC	1 cut(s)	301
MboII	GAAGA	2 cut(s)	298, 605
MflI	RGATCY	1 cut(s)	301
MlsI	TGGCCA	1 cut(s)	120
MluCI	AATT	4 cut(s)	197, 224, 476, 564
MluNI	TGGCCA	1 cut(s)	120
MnlI	CCTC	6 cut(s)	339, 419, 481, 518, 569, 722
Mox20I	TGGCCA	1 cut(s)	120
Mph1103I	ATGCAT	1 cut(s)	707
MroXI	GAANNNNTTC	1 cut(s)	18
MscI	TGGCCA	1 cut(s)	120
MseI	TTAA	5 cut(s)	204, 234, 392, 549, 684
MslI	CAYNNNNRTG	1 cut(s)	700
Msp20I	TGGCCA	1 cut(s)	120
MspR9I	CCNGG	1 cut(s)	655
MvaI	CCWGG	1 cut(s)	655
NdeI	CATATG	1 cut(s)	701
NdeII	GATC	1 cut(s)	301
NlaIII	CATG	2 cut(s)	386, 533
NlaIV	GGNNCC	2 cut(s)	506, 652
NsiI	ATGCAT	1 cut(s)	707
PdmI	GAANNNNTTC	1 cut(s)	18
PfeI	GAWTC	3 cut(s)	75, 290, 583
PflFI	GACNNNGTC	1 cut(s)	375
PsiI	TTATAA	1 cut(s)	39
Psp6I	CCWGG	1 cut(s)	653
PspGI	CCWGG	1 cut(s)	653
PspN4I	GGNNCC	2 cut(s)	506, 652
PsuI	RGATCY	1 cut(s)	301
PsyI	GACNNNGTC	1 cut(s)	375
RsaI	GTAC	1 cut(s)	731
RsaNI	GTAC	1 cut(s)	730
RseI	CAYNNNNRTG	1 cut(s)	700
SaqAI	TTAA	5 cut(s)	204, 234, 392, 549, 684
Sau3AI	GATC	1 cut(s)	301
ScrFI	CCNGG	1 cut(s)	655
SfaNI	GCATC	2 cut(s)	96, 562
SmiMI	CAYNNNNRTG	1 cut(s)	700
Sse9I	AATT	4 cut(s)	197, 224, 476, 564
SsiI	CCGC	1 cut(s)	518
SspI	AATATT	1 cut(s)	238
SspMI	CTAG	1 cut(s)	497
StyD4I	CCNGG	1 cut(s)	653
TaaI	ACNGT	3 cut(s)	31, 251, 729
TasI	AATT	4 cut(s)	197, 224, 476, 564
TatI	WGTACW	1 cut(s)	729
TfiI	GAWTC	3 cut(s)	75, 290, 583
Tru1I	TTAA	5 cut(s)	204, 234, 392, 549, 684
Tru9I	TTAA	5 cut(s)	204, 234, 392, 549, 684
TscAI	CASTG	3 cut(s)	256, 721, 732
TspDTI	ATGAA	2 cut(s)	411, 575
TspRI	CASTG	3 cut(s)	256, 721, 732
Tth111I	GACNNNGTC	1 cut(s)	375
XmnI	GAANNNNTTC	1 cut(s)	18
XspI	CTAG	1 cut(s)	497
Zsp2I	ATGCAT	1 cut(s)	707

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