Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0003649

Physical Location & Seq

Genomic Coordinates Forward (+)

52462251 .. 52463620

Gene Structure 1370 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0378300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGCTACTACATTCAGCCATGGCAGCGACTTCTTCTTATATGGCTTGTGCAAAATTCTCTATGTTGGGTTATGCTGGAAGAAGAATCCAACTGAGAAGCAGAAGAGACTTCTTTATAAGAGCTCAGCAGCAACCTGGTGAAGTCCAAGAACCACAAGTACAGAGAGAAAAAGGAGAGCCAAAAGGAACAGTGCCAAGGCCAGTGGAGACACAATTGAATGTGAAGAGTAGGAACATGGCGAGAGAATATGGTGGGGATTGGCTTAGCTGTGCCACAAGGCATGTGAGGATTTATGCTGCTTATATAGACCCAGAAACCTGTGCATTTGATCAGACACAGATGGATAAGCTCACCATTATACTTGATCCAACCAATGAGTTTGTGTGGACTCCAGAGACTACCAACAAGGTCTACTCCTACTTCCAAGAGCTTGTGGATCACTATGAGTTTGTTAGACAATCATTGGACGTAAAAACTTCCGCGGTTAGGGAATTGTACAACAGTGTATATCAAGTTAACGCTTCTCTCAATAAGGGTGCAGATTTGACAGAATACACTCTGCGTCTGATTGGTTCAGACATAGAGCACTACATAAGGAAGCTTCTCTATGACGGAGAAATCAAATACAACATGGATGCAAGAGTCCTTAACTTCAGCATGGGTAAGCCTCGCGTTATGTTCAATAACAACGAATTTCAACCTCAGGATGTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000981 GO:0000988 GO:0000989 GO:0001067 GO:0001076 GO:0001101 GO:0001134 GO:0001135 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0008150 GO:0009719 GO:0009725 GO:0009751 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0014070 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032502 GO:0042221 GO:0042493 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0046677 GO:0048869 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1901700 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_DNA-binding

Protein Analysis

237

Amino Acids

27.48

Weight (kDa)

6.91

Isoelectric Point (pI)

45.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NdhM	PF10664	88 - 149	3.4e-17	Cyanobacterial and plastid NDH-1 subunit M
NdhM	PF10664	160 - 225	2.6e-22	Cyanobacterial and plastid NDH-1 subunit M

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: OG0003649)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G49690 AT5G65790
fragaria_vesca	FvH4_1g18500 FvH4_1g18500 FvH4_2g32440
malus_domestica	MD02G1191000.v1.1 MD08G1076200.v1.1 MD15G1063300.v1.1 MD15G1302300.v1.1
prunus_persica	Prupe.1G417400_v2.0.a1 Prupe.6G214300_v2.0.a1
pyrus_communis	pycom02g15540 pycom08g06310 pycom15g06010 pycom15g26540
rosa_chinensis	RchiOBHm_Chr2g0109131 RchiOBHm_Chr6g0310231
rosa_laevigata	RLG00000010497 RLG00000017715
rosa_multiflora	Rmu_sc0000186.1_g000014 Rmu_sc0002348.1_g000027
rosa_roxburghii	Rroxscaffold_2G00134480 Rroxscaffold_7G00158720
rosa_rugosa	Rorug02G0157300 Rorug06G0378300 Rorug06G0378400
rosa_samantha	Rh2AG209400 Rh2BG219800 Rh2CG211900 Rh2DG215500 Rh6AG492500 Rh6BG502200 Rh6CG507100 Rh6DG493300
rosa_wichuraiana	Rw6G042860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	116
AccI	GTMKAC	1 cut(s)	411
AccII	CGCG	2 cut(s)	482, 672
AciI	CCGC	2 cut(s)	480, 482
AclWI	GGATC	2 cut(s)	359, 444
AcsI	RAATTY	2 cut(s)	53, 692
AcuI	CTGAAG	1 cut(s)	637
AfaI	GTAC	2 cut(s)	159, 497
AfiI	CCNNNNNNNGG	1 cut(s)	486
AgsI	TTSAA	3 cut(s)	217, 682, 698
AjnI	CCWGG	1 cut(s)	133
AluBI	AGCT	5 cut(s)	122, 267, 349, 430, 601
AluI	AGCT	5 cut(s)	122, 267, 349, 430, 601
Alw21I	GWGCWC	2 cut(s)	124, 588
Alw26I	GTCTC	3 cut(s)	99, 200, 389
AlwI	GGATC	2 cut(s)	359, 444
AoxI	GGCC	1 cut(s)	197
ApeKI	GCWGC	3 cut(s)	23, 127, 296
ApoI	RAATTY	2 cut(s)	53, 692
AsuHPI	GGTGA	2 cut(s)	149, 343
AxyI	CCTNAGG	1 cut(s)	702
BanII	GRGCYC	1 cut(s)	124
Bbv12I	GWGCWC	2 cut(s)	124, 588
BbvI	GCAGC	3 cut(s)	35, 139, 283
BccI	CCATC	1 cut(s)	334
BciT130I	CCWGG	1 cut(s)	135
BclI	TGATCA	1 cut(s)	328
BcoDI	GTCTC	3 cut(s)	99, 200, 389
BisI	GCNGC	3 cut(s)	24, 128, 297
BlpI	GCTNAGC	2 cut(s)	123, 263
BlsI	GCNGC	3 cut(s)	25, 129, 298
Bme1390I	CCNGG	1 cut(s)	135
BmrFI	CCNGG	1 cut(s)	135
BmsI	GCATC	1 cut(s)	625
BpmI	CTGGAG	1 cut(s)	375
Bpu1102I	GCTNAGC	2 cut(s)	123, 263
BsaJI	CCNNGG	3 cut(s)	18, 194, 480
Bsc4I	CCNNNNNNNGG	1 cut(s)	486
Bse1I	ACTGG	1 cut(s)	200
Bse21I	CCTNAGG	1 cut(s)	702
BseBI	CCWGG	1 cut(s)	135
BseDI	CCNNGG	3 cut(s)	18, 194, 480
BseGI	GGATG	2 cut(s)	640, 712
BseLI	CCNNNNNNNGG	1 cut(s)	486
BseMII	CTCAG	2 cut(s)	83, 137
BseNI	ACTGG	1 cut(s)	200
BseXI	GCAGC	3 cut(s)	35, 139, 283
BsgI	GTGCAG	1 cut(s)	558
Bsh1236I	CGCG	2 cut(s)	482, 672
BshFI	GGCC	1 cut(s)	199
BsiHKAI	GWGCWC	2 cut(s)	124, 588
BslI	CCNNNNNNNGG	1 cut(s)	486
BsmAI	GTCTC	3 cut(s)	99, 200, 389
BsnI	GGCC	1 cut(s)	199
Bsp1286I	GDGCHC	2 cut(s)	124, 588
Bsp1407I	TGTACA	1 cut(s)	495
Bsp143I	GATC	3 cut(s)	328, 364, 436
Bsp1720I	GCTNAGC	2 cut(s)	123, 263
Bsp19I	CCATGG	1 cut(s)	18
BspACI	CCGC	2 cut(s)	480, 482
BspANI	GGCC	1 cut(s)	199
BspCNI	CTCAG	2 cut(s)	84, 136
BspFNI	CGCG	2 cut(s)	482, 672
BspPI	GGATC	2 cut(s)	359, 444
BsrGI	TGTACA	1 cut(s)	495
BsrI	ACTGG	1 cut(s)	200
BssECI	CCNNGG	3 cut(s)	18, 194, 480
BssMI	GATC	3 cut(s)	328, 364, 436
BssT1I	CCWWGG	2 cut(s)	18, 194
Bst2UI	CCWGG	1 cut(s)	135
Bst4CI	ACNGT	2 cut(s)	190, 503
Bst6I	CTCTTC	2 cut(s)	97, 218
BstAUI	TGTACA	1 cut(s)	495
BstDEI	CTNAG	4 cut(s)	92, 123, 263, 702
BstDSI	CCRYGG	2 cut(s)	18, 480
BstF5I	GGATG	2 cut(s)	640, 712
BstFNI	CGCG	2 cut(s)	482, 672
BstKTI	GATC	3 cut(s)	331, 367, 439
BstMAI	GTCTC	3 cut(s)	99, 200, 389
BstMBI	GATC	3 cut(s)	328, 364, 436
BstMWI	GCNNNNNNNGC	1 cut(s)	23
BstNI	CCWGG	1 cut(s)	135
BstNSI	RCATGY	1 cut(s)	284
BstSCI	CCNGG	1 cut(s)	133
BstUI	CGCG	2 cut(s)	482, 672
BstV1I	GCAGC	3 cut(s)	35, 139, 283
Bsu36I	CCTNAGG	1 cut(s)	702
BsuRI	GGCC	1 cut(s)	199
BtgI	CCRYGG	2 cut(s)	18, 480
BtsCI	GGATG	2 cut(s)	640, 712
BtsIMutI	CAGTG	3 cut(s)	195, 207, 508
Cfr42I	CCGCGG	1 cut(s)	483
CseI	GACGC	1 cut(s)	551
CsiI	ACCWGGT	1 cut(s)	133
Csp6I	GTAC	2 cut(s)	158, 496
CspCI	CAANNNNNGTGG	2 cut(s)	183, 218
CviAII	CATG	5 cut(s)	19, 235, 281, 631, 658
CviQI	GTAC	2 cut(s)	158, 496
DdeI	CTNAG	4 cut(s)	92, 123, 263, 702
DpnI	GATC	3 cut(s)	330, 366, 438
DpnII	GATC	3 cut(s)	328, 364, 436
Eam1104I	CTCTTC	2 cut(s)	97, 218
EarI	CTCTTC	2 cut(s)	97, 218
Ecl136II	GAGCTC	1 cut(s)	122
Eco130I	CCWWGG	2 cut(s)	18, 194
Eco24I	GRGCYC	1 cut(s)	124
Eco53kI	GAGCTC	1 cut(s)	122
Eco57I	CTGAAG	1 cut(s)	637
Eco81I	CCTNAGG	1 cut(s)	702
EcoICRI	GAGCTC	1 cut(s)	122
EcoRII	CCWGG	1 cut(s)	133
EcoT14I	CCWWGG	2 cut(s)	18, 194
EcoT38I	GRGCYC	1 cut(s)	124
ErhI	CCWWGG	2 cut(s)	18, 194
FaeI	CATG	5 cut(s)	22, 238, 284, 634, 661
FatI	CATG	5 cut(s)	18, 234, 280, 630, 657
FbaI	TGATCA	1 cut(s)	328
FblI	GTMKAC	1 cut(s)	411
Fnu4HI	GCNGC	3 cut(s)	24, 128, 297
FokI	GGATG	1 cut(s)	647
FriOI	GRGCYC	1 cut(s)	124
Fsp4HI	GCNGC	3 cut(s)	24, 128, 297
GluI	GCNGC	3 cut(s)	24, 128, 297
GsuI	CTGGAG	1 cut(s)	375
HaeIII	GGCC	1 cut(s)	199
HgaI	GACGC	1 cut(s)	551
Hin1II	CATG	5 cut(s)	22, 238, 284, 634, 661
HincII	GTYRAC	1 cut(s)	517
HindII	GTYRAC	1 cut(s)	517
HindIII	AAGCTT	1 cut(s)	599
HinfI	GANTC	3 cut(s)	84, 388, 642
HpaI	GTTAAC	1 cut(s)	517
HphI	GGTGA	2 cut(s)	149, 343
Hpy166II	GTNNAC	3 cut(s)	387, 412, 517
Hpy188I	TCNGA	3 cut(s)	333, 567, 577
Hpy188III	TCNNGA	2 cut(s)	392, 704
Hpy8I	GTNNAC	3 cut(s)	387, 412, 517
HpyCH4III	ACNGT	2 cut(s)	190, 503
HpyCH4IV	ACGT	1 cut(s)	468
HpyCH4V	TGCA	4 cut(s)	50, 323, 539, 638
HpyF10VI	GCNNNNNNNGC	1 cut(s)	23
HpyF3I	CTNAG	4 cut(s)	92, 123, 263, 702
HpySE526I	ACGT	1 cut(s)	468
Hsp92II	CATG	5 cut(s)	22, 238, 284, 634, 661
Ksp22I	TGATCA	1 cut(s)	328
KspAI	GTTAAC	1 cut(s)	517
KspI	CCGCGG	1 cut(s)	483
Kzo9I	GATC	3 cut(s)	328, 364, 436
LpnPI	CCDG	8 cut(s)	60, 120, 147, 213, 324, 331, 405, 689
Lsp1109I	GCAGC	3 cut(s)	35, 139, 283
LweI	GCATC	1 cut(s)	625
MabI	ACCWGGT	1 cut(s)	133
MaeII	ACGT	1 cut(s)	468
MalI	GATC	3 cut(s)	330, 366, 438
MboI	GATC	3 cut(s)	328, 364, 436
MboII	GAAGA	5 cut(s)	24, 90, 93, 114, 235
MfeI	CAATTG	1 cut(s)	212
MhlI	GDGCHC	2 cut(s)	124, 588
MluCI	AATT	4 cut(s)	53, 212, 491, 692
MlyI	GAGTC	2 cut(s)	382, 651
MmeI	TCCRAC	2 cut(s)	112, 392
MnlI	CCTC	3 cut(s)	279, 678, 711
MseI	TTAA	2 cut(s)	516, 648
MspA1I	CMGCKG	1 cut(s)	482
MspR9I	CCNGG	1 cut(s)	135
MunI	CAATTG	1 cut(s)	212
MvaI	CCWGG	1 cut(s)	135
MvnI	CGCG	2 cut(s)	482, 672
MwoI	GCNNNNNNNGC	1 cut(s)	23
NcoI	CCATGG	1 cut(s)	18
NdeII	GATC	3 cut(s)	328, 364, 436
NlaIII	CATG	5 cut(s)	22, 238, 284, 634, 661
NspI	RCATGY	1 cut(s)	284
PfeI	GAWTC	1 cut(s)	84
PkrI	GCNGC	3 cut(s)	25, 129, 298
PleI	GAGTC	2 cut(s)	382, 650
PpsI	GAGTC	2 cut(s)	382, 650
PsiI	TTATAA	1 cut(s)	116
Psp124BI	GAGCTC	1 cut(s)	124
Psp6I	CCWGG	1 cut(s)	133
PspGI	CCWGG	1 cut(s)	133
PsrI	GAACNNNNNNTAC	2 cut(s)	141, 173
RsaI	GTAC	2 cut(s)	159, 497
RsaNI	GTAC	2 cut(s)	158, 496
SacI	GAGCTC	1 cut(s)	124
SacII	CCGCGG	1 cut(s)	483
SaqAI	TTAA	2 cut(s)	516, 648
SatI	GCNGC	3 cut(s)	24, 128, 297
Sau3AI	GATC	3 cut(s)	328, 364, 436
SchI	GAGTC	2 cut(s)	382, 651
ScrFI	CCNGG	1 cut(s)	135
SduI	GDGCHC	2 cut(s)	124, 588
SexAI	ACCWGGT	1 cut(s)	133
SfaNI	GCATC	1 cut(s)	625
Sfr303I	CCGCGG	1 cut(s)	483
SgrBI	CCGCGG	1 cut(s)	483
Sse9I	AATT	4 cut(s)	53, 212, 491, 692
SsiI	CCGC	2 cut(s)	480, 482
SstI	GAGCTC	1 cut(s)	124
StyD4I	CCNGG	1 cut(s)	133
StyI	CCWWGG	2 cut(s)	18, 194
TaaI	ACNGT	2 cut(s)	190, 503
TaiI	ACGT	1 cut(s)	471
TasI	AATT	4 cut(s)	53, 212, 491, 692
TatI	WGTACW	2 cut(s)	157, 495
TfiI	GAWTC	1 cut(s)	84
Tru1I	TTAA	2 cut(s)	516, 648
Tru9I	TTAA	2 cut(s)	516, 648
TscAI	CASTG	3 cut(s)	195, 207, 508
TseI	GCWGC	3 cut(s)	23, 127, 296
TspGWI	ACGGA	1 cut(s)	627
TspRI	CASTG	3 cut(s)	195, 207, 508
XapI	RAATTY	2 cut(s)	53, 692
XceI	RCATGY	1 cut(s)	284
XmiI	GTMKAC	1 cut(s)	411

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