Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0007128

Physical Location & Seq

Genomic Coordinates Reverse (-)

58747398 .. 58750493

Gene Structure 3096 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0461400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGGACCATGGCCTTCGTCCCAGACAGAGGGAGTTCTTCATTGGCTTCACAAAGGGCGAGATGGAGAGAATGGACAAATTGGTGAGGGAATCAGGAGAAGCAGTGCTGGCCAAAGAATTTTGTCAAAATTTGGCGAAAAGTTTTAATCGCTCTGCTGGTCGTGCTGGAAAACCAATTGTCAAATGGATTCAGGTGCAAAATTGGTTCCAGGAAAGGATGCAAGAGTTACCTAACATATTAAAAGATCTCCAGGGAGTTTGCCCTTCCACTAAGGCACCTAAAAGCAAAGAAAAACCTAAAGCCCACTCCAAAGCAGAAGAAAAGATCCCAGAGTCAGAGTTGGAATTTGAGGCTAGGTCATCAAAGGACGGGGCATGGTATGATGTTGATATGTTCCTGTGTCACCGAGTTGCTAGTGCGGGAGAAACTGAAGTTCGTGTTAGATTTGTTGGGTTTGGAGCCGAAGAGGATGAGTGGGTTAATGTTAAAAAAGCAGTGCGAGAGCGTTCTGTACCCCTAGAGAATTCAGAATGTAGTTCATTGAAGGTTGGAGACCATGTCCTCTGCTTGCTGGAGAAGAGAGATCAAGCGATCTACTATGATGCTCATATTATAGAAATCCATCGAAGAATGCATGATATAAGGGGGTGTAGGTGTCTTTTCTTTATTCGGTATAATCATGACAACAGTGAGGAAAAAGTTCGGTTAAGGAGACTGTGTCGTCGTCCAATACGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

245

Amino Acids

28.65

Weight (kDa)

8.98

Isoelectric Point (pI)

51.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SAWADEE	PF16719	113 - 240	2.4e-46	SAWADEE 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)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007128)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60830
fragaria_vesca	FvH4_5g13260 FvH4_6g20610
malus_domestica	MD06G1206800.v1.1
prunus_persica	Prupe.5G211200_v2.0.a1
pyrus_communis	pycom06g18460
rosa_chinensis	RchiOBHm_Chr3g0476411
rosa_laevigata	RLG00000005012 RLG00000023769
rosa_multiflora	Rmu_sc0004556.1_g000010 Rmu_sc0004712.1_g000032 Rmu_sc0007533.1_g000006
rosa_roxburghii	Rroxscaffold_3G00270090 Rroxscaffold_6G00405290
rosa_rugosa	Rorug03G0154300 Rorug06G0461400
rosa_samantha	Rh3BG237000 Rh3CG231500 Rh3DG231500 Rh7AG062400 Rh7BG062600 Rh7CG064000 Rh7DG062300
rosa_wichuraiana	Rw3G018670 Rw7G005160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	720
AccB1I	GGYRCC	1 cut(s)	274
AciI	CCGC	1 cut(s)	419
AclWI	GGATC	1 cut(s)	319
AcoI	YGGCCR	1 cut(s)	108
AcsI	RAATTY	4 cut(s)	116, 127, 344, 523
AcuI	CTGAAG	1 cut(s)	450
AfaI	GTAC	1 cut(s)	513
AfiI	CCNNNNNNNGG	1 cut(s)	27
AgsI	TTSAA	1 cut(s)	544
AjnI	CCWGG	2 cut(s)	207, 249
Alw26I	GTCTC	2 cut(s)	546, 706
AlwI	GGATC	1 cut(s)	319
AoxI	GGCC	2 cut(s)	10, 108
ApoI	RAATTY	4 cut(s)	116, 127, 344, 523
Asp700I	GAANNNNTTC	1 cut(s)	699
AspS9I	GGNCC	1 cut(s)	4
AsuHPI	GGTGA	2 cut(s)	94, 395
AvaII	GGWCC	1 cut(s)	4
BalI	TGGCCA	1 cut(s)	110
BanI	GGYRCC	1 cut(s)	274
BccI	CCATC	2 cut(s)	55, 630
BciT130I	CCWGG	2 cut(s)	209, 251
BcoDI	GTCTC	2 cut(s)	546, 706
BfaI	CTAG	3 cut(s)	354, 414, 518
BglII	AGATCT	1 cut(s)	244
Bme1390I	CCNGG	2 cut(s)	209, 251
Bme18I	GGWCC	1 cut(s)	4
BmgT120I	GGNCC	1 cut(s)	4
BmiI	GGNNCC	3 cut(s)	206, 276, 460
BmrFI	CCNGG	2 cut(s)	209, 251
BmsI	GCATC	2 cut(s)	207, 592
BpmI	CTGGAG	2 cut(s)	233, 593
BsaI	GGTCTC	1 cut(s)	546
BsaJI	CCNNGG	2 cut(s)	7, 250
BsaXI	ACNNNNNCTCC	6 cut(s)	87, 117, 543, 573, 703, 733
Bsc4I	CCNNNNNNNGG	1 cut(s)	27
BseBI	CCWGG	2 cut(s)	209, 251
BseDI	CCNNGG	2 cut(s)	7, 250
BseGI	GGATG	2 cut(s)	222, 475
BseLI	CCNNNNNNNGG	1 cut(s)	27
BshFI	GGCC	2 cut(s)	12, 110
BshNI	GGYRCC	1 cut(s)	274
BslFI	GGGAC	1 cut(s)	3
BslI	CCNNNNNNNGG	1 cut(s)	27
BsmAI	GTCTC	2 cut(s)	546, 706
BsmFI	GGGAC	1 cut(s)	3
BsmI	GAATGC	1 cut(s)	636
BsnI	GGCC	2 cut(s)	12, 110
Bso31I	GGTCTC	1 cut(s)	546
Bsp143I	GATC	4 cut(s)	244, 324, 583, 591
Bsp19I	CCATGG	1 cut(s)	7
BspACI	CCGC	1 cut(s)	419
BspANI	GGCC	2 cut(s)	12, 110
BspHI	TCATGA	1 cut(s)	679
BspLI	GGNNCC	3 cut(s)	206, 276, 460
BspPI	GGATC	1 cut(s)	319
BspT107I	GGYRCC	1 cut(s)	274
BspTNI	GGTCTC	1 cut(s)	546
BssECI	CCNNGG	2 cut(s)	7, 250
BssMI	GATC	4 cut(s)	244, 324, 583, 591
BssT1I	CCWWGG	1 cut(s)	7
Bst2UI	CCWGG	2 cut(s)	209, 251
Bst4CI	ACNGT	3 cut(s)	689, 717, 735
Bst6I	CTCTTC	2 cut(s)	459, 572
BstC8I	GCNNGC	2 cut(s)	108, 569
BstDEI	CTNAG	1 cut(s)	270
BstDSI	CCRYGG	1 cut(s)	7
BstF5I	GGATG	2 cut(s)	222, 475
BstKTI	GATC	4 cut(s)	247, 327, 586, 594
BstMAI	GTCTC	2 cut(s)	546, 706
BstMBI	GATC	4 cut(s)	244, 324, 583, 591
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 161
BstNI	CCWGG	2 cut(s)	209, 251
BstSCI	CCNGG	2 cut(s)	207, 249
BstX2I	RGATCY	2 cut(s)	244, 324
BstYI	RGATCY	2 cut(s)	244, 324
BsuRI	GGCC	2 cut(s)	12, 110
BtgI	CCRYGG	1 cut(s)	7
BtsCI	GGATG	2 cut(s)	222, 475
BtsI	GCAGTG	2 cut(s)	108, 501
BtsIMutI	CAGTG	3 cut(s)	108, 501, 694
Cac8I	GCNNGC	2 cut(s)	108, 569
CciI	TCATGA	1 cut(s)	679
Cfr13I	GGNCC	1 cut(s)	4
Csp6I	GTAC	1 cut(s)	512
CviAII	CATG	5 cut(s)	8, 375, 557, 635, 680
CviJI	RGCY	6 cut(s)	12, 45, 110, 302, 353, 461
CviKI_1	RGCY	6 cut(s)	12, 45, 110, 302, 353, 461
CviQI	GTAC	1 cut(s)	512
DdeI	CTNAG	1 cut(s)	270
DpnI	GATC	4 cut(s)	246, 326, 585, 593
DpnII	GATC	4 cut(s)	244, 324, 583, 591
DrdI	GACNNNNNNGTC	1 cut(s)	720
DseDI	GACNNNNNNGTC	1 cut(s)	720
EaeI	YGGCCR	1 cut(s)	108
Eam1104I	CTCTTC	2 cut(s)	459, 572
EarI	CTCTTC	2 cut(s)	459, 572
Eco130I	CCWWGG	1 cut(s)	7
Eco31I	GGTCTC	1 cut(s)	546
Eco47I	GGWCC	1 cut(s)	4
Eco57I	CTGAAG	1 cut(s)	450
EcoRI	GAATTC	1 cut(s)	523
EcoRII	CCWGG	2 cut(s)	207, 249
EcoT14I	CCWWGG	1 cut(s)	7
EcoT22I	ATGCAT	1 cut(s)	636
ErhI	CCWWGG	1 cut(s)	7
FaeI	CATG	5 cut(s)	11, 378, 560, 638, 683
FaqI	GGGAC	1 cut(s)	3
FatI	CATG	5 cut(s)	7, 374, 556, 634, 679
FauI	CCCGC	1 cut(s)	412
FokI	GGATG	2 cut(s)	229, 482
FspBI	CTAG	3 cut(s)	354, 414, 518
GsuI	CTGGAG	2 cut(s)	233, 593
HaeIII	GGCC	2 cut(s)	12, 110
Hin1II	CATG	5 cut(s)	11, 378, 560, 638, 683
HinfI	GANTC	3 cut(s)	89, 187, 332
HphI	GGTGA	2 cut(s)	94, 395
Hpy188I	TCNGA	2 cut(s)	337, 529
Hpy188III	TCNNGA	2 cut(s)	93, 680
Hpy99I	CGWCG	1 cut(s)	726
HpyAV	CCTTC	3 cut(s)	23, 273, 538
HpyCH4III	ACNGT	3 cut(s)	689, 717, 735
HpyCH4V	TGCA	3 cut(s)	196, 220, 634
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 161
HpyF3I	CTNAG	1 cut(s)	270
Hsp92II	CATG	5 cut(s)	11, 378, 560, 638, 683
Kzo9I	GATC	4 cut(s)	244, 324, 583, 591
LmnI	GCTCC	1 cut(s)	458
LweI	GCATC	2 cut(s)	207, 592
MaeI	CTAG	3 cut(s)	354, 414, 518
MaeIII	GTNAC	2 cut(s)	225, 401
MalI	GATC	4 cut(s)	246, 326, 585, 593
MboI	GATC	4 cut(s)	244, 324, 583, 591
MboII	GAAGA	5 cut(s)	28, 329, 476, 589, 639
MfeI	CAATTG	1 cut(s)	174
MflI	RGATCY	2 cut(s)	244, 324
MlsI	TGGCCA	1 cut(s)	110
MluCI	AATT	7 cut(s)	77, 116, 127, 174, 199, 344, 523
MluNI	TGGCCA	1 cut(s)	110
MlyI	GAGTC	1 cut(s)	341
MmeI	TCCRAC	2 cut(s)	321, 529
MnlI	CCTC	6 cut(s)	21, 78, 343, 460, 572, 685
Mox20I	TGGCCA	1 cut(s)	110
Mph1103I	ATGCAT	1 cut(s)	636
MroXI	GAANNNNTTC	1 cut(s)	699
MscI	TGGCCA	1 cut(s)	110
MseI	TTAA	5 cut(s)	144, 239, 480, 486, 707
Msp20I	TGGCCA	1 cut(s)	110
MspR9I	CCNGG	2 cut(s)	209, 251
MunI	CAATTG	1 cut(s)	174
Mva1269I	GAATGC	1 cut(s)	636
MvaI	CCWGG	2 cut(s)	209, 251
MwoI	GCNNNNNNNGC	2 cut(s)	107, 161
NcoI	CCATGG	1 cut(s)	7
NdeII	GATC	4 cut(s)	244, 324, 583, 591
NlaIII	CATG	5 cut(s)	11, 378, 560, 638, 683
NlaIV	GGNNCC	3 cut(s)	206, 276, 460
NmuCI	GTSAC	1 cut(s)	401
NsiI	ATGCAT	1 cut(s)	636
PagI	TCATGA	1 cut(s)	679
PctI	GAATGC	1 cut(s)	636
PdmI	GAANNNNTTC	1 cut(s)	699
PfeI	GAWTC	2 cut(s)	89, 187
PflFI	GACNNNGTC	2 cut(s)	557, 717
PfoI	TCCNGGA	1 cut(s)	207
PleI	GAGTC	1 cut(s)	340
PpsI	GAGTC	1 cut(s)	340
Psp6I	CCWGG	2 cut(s)	207, 249
PspGI	CCWGG	2 cut(s)	207, 249
PspN4I	GGNNCC	3 cut(s)	206, 276, 460
PspPI	GGNCC	1 cut(s)	4
PsuI	RGATCY	2 cut(s)	244, 324
PsyI	GACNNNGTC	2 cut(s)	557, 717
RsaI	GTAC	1 cut(s)	513
RsaNI	GTAC	1 cut(s)	512
SaqAI	TTAA	5 cut(s)	144, 239, 480, 486, 707
Sau3AI	GATC	4 cut(s)	244, 324, 583, 591
Sau96I	GGNCC	1 cut(s)	4
SchI	GAGTC	1 cut(s)	341
ScrFI	CCNGG	2 cut(s)	209, 251
SetI	ASST	7 cut(s)	195, 232, 280, 298, 359, 549, 656
SfaNI	GCATC	2 cut(s)	207, 592
SinI	GGWCC	1 cut(s)	4
Sse9I	AATT	7 cut(s)	77, 116, 127, 174, 199, 344, 523
SsiI	CCGC	1 cut(s)	419
SspMI	CTAG	3 cut(s)	354, 414, 518
StyD4I	CCNGG	2 cut(s)	207, 249
StyI	CCWWGG	1 cut(s)	7
TaaI	ACNGT	3 cut(s)	689, 717, 735
TaqI	TCGA	1 cut(s)	625
TasI	AATT	7 cut(s)	77, 116, 127, 174, 199, 344, 523
TfiI	GAWTC	2 cut(s)	89, 187
Tru1I	TTAA	5 cut(s)	144, 239, 480, 486, 707
Tru9I	TTAA	5 cut(s)	144, 239, 480, 486, 707
TscAI	CASTG	3 cut(s)	108, 501, 694
TseFI	GTSAC	1 cut(s)	401
Tsp45I	GTSAC	1 cut(s)	401
TspDTI	ATGAA	2 cut(s)	28, 528
TspRI	CASTG	3 cut(s)	108, 501, 694
Tth111I	GACNNNGTC	2 cut(s)	557, 717
VpaK11BI	GGWCC	1 cut(s)	4
XapI	RAATTY	4 cut(s)	116, 127, 344, 523
XcmI	CCANNNNNNNNNTGG	1 cut(s)	180
XmnI	GAANNNNTTC	1 cut(s)	699
XspI	CTAG	3 cut(s)	354, 414, 518
Zsp2I	ATGCAT	1 cut(s)	636

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