Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0002607

Physical Location & Seq

Genomic Coordinates Forward (+)

20230901 .. 20235041

Gene Structure 4141 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG200000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 489 bp

ATGGCGAGCTCCCTGCAACGCATCTCGAGCCACGCTCGTCTTCTCCGGACCGCTATCGCTTCTGGGTCCAGACCATTCTCGGCCGACGCTTTGGTCGAGTACCGGCCCGGCGAGATCGGAAGAGTCTCCGGCATCCCCGATGAACATCTCCGCAGAAAGGTTGTGATATACTCACCTGCAAGAACTGCGAGTCAACAAGGATCAGGGAAAGTTGGCAAGTGGAAGATTAACTTTGTGTCCACACAGAAGTGGGAGAATCCATTGATGGGCTGGACTTCAACTGGGGACCCTTATGCCAACGTTGGTGATTCCGCACTCGGTTTTGACAGCGAAGAAGCTGCAAAGTACTTTGCAGAGAACCATGGTTGGGATTATGTGGTATGTTTTCTATTGCTTTCTCTATGCAGCTTTAAATACATTTCCTTTCGACTGTCTTCAAAATACTTTGTCGTACCATTGCAATTGCTATTTTCATATAGAAGACAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0003954 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005746 GO:0005747 GO:0006950 GO:0006970 GO:0008137 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009628 GO:0009631 GO:0016020 GO:0016491 GO:0016651 GO:0016655 GO:0019866 GO:0030964 GO:0031090 GO:0031966 GO:0031967 GO:0031975 GO:0032991 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0045271 GO:0046872 GO:0046914 GO:0050136 GO:0050896 GO:0050897 GO:0055114 GO:0070469 GO:0098796 GO:0098798 GO:0098800 GO:0098803 GO:1902494 GO:1990204

KEGG Pathways

Metabolic & Signaling

ko00190 ko01100 ko04714 ko04723 ko04932 ko05010 ko05012 ko05016 map00190 map01100 map04714 map04723 map04932 map05010 map05012 map05016

Pfam Domains

Protein Families

ETC_C1_NDUFA4

Protein Analysis

162

Amino Acids

18.19

Weight (kDa)

9.58

Isoelectric Point (pI)

38.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NDUS4	PF04800	53 - 127	1.8e-23	NADH dehydrogenase ubiquinone Fe-S protein 4

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: OG0002607)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G67590
fragaria_vesca	FvH4_1g17800 FvH4_2g32930
malus_domestica	MD02G1187000.v1.1 MD08G1080900.v1.1 MD15G1067900.v1.1 MD15G1298100.v1.1
prunus_persica	Prupe.1G421800_v2.0.a1 Prupe.1G421800_v2.0.a1 Prupe.1G421800_v2.0.a1 Prupe.1G421800_v2.0.a1 Prupe.6G219700_v2.0.a1 Prupe.6G219700_v2.0.a1
pyrus_communis	pycom02g15200 pycom08g06670 pycom15g06430 pycom15g26080
rosa_chinensis	RchiOBHm_Chr2g0108251 RchiOBHm_Chr6g0309771
rosa_laevigata	RLG00000010537 RLG00000017650
rosa_multiflora	Rmu_sc0007406.1_g000008 Rmu_sc0013358.1_g000002 Rmu_ssc0000373.1_g000009
rosa_roxburghii	Rroxscaffold_2G00135450 Rroxscaffold_7G00159200
rosa_rugosa	Rorug02G0151500 Rorug02G0151600.1 Rorug06G0374300 Rorug06G0374400
rosa_samantha	Rh2AG200000 Rh2BG212700 Rh2CG204700 Rh2DG207600 Rh6AG487900 Rh6BG497500 Rh6CG502300 Rh6DG488500
rosa_wichuraiana	Rw2G015920 Rw6G042490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	184
AasI	GACNNNNNNGTC	1 cut(s)	92
Acc36I	ACCTGC	1 cut(s)	184
AccIII	TCCGGA	1 cut(s)	45
AciI	CCGC	3 cut(s)	51, 151, 312
AclI	AACGTT	1 cut(s)	300
AclWI	GGATC	1 cut(s)	208
AcoI	YGGCCR	1 cut(s)	81
AfaI	GTAC	3 cut(s)	101, 347, 453
AfiI	CCNNNNNNNGG	3 cut(s)	157, 266, 367
AgsI	TTSAA	2 cut(s)	279, 438
AleI	CACNNNNGTG	1 cut(s)	247
AluBI	AGCT	3 cut(s)	9, 338, 408
AluI	AGCT	3 cut(s)	9, 338, 408
Alw21I	GWGCWC	1 cut(s)	11
Alw26I	GTCTC	1 cut(s)	130
AlwI	GGATC	1 cut(s)	208
Ama87I	CYCGRG	1 cut(s)	25
Aor13HI	TCCGGA	1 cut(s)	45
AoxI	GGCC	2 cut(s)	81, 104
ApeKI	GCWGC	2 cut(s)	338, 405
AspS9I	GGNCC	4 cut(s)	48, 66, 105, 286
AsuC2I	CCSGG	1 cut(s)	108
AsuHPI	GGTGA	2 cut(s)	165, 317
AvaI	CYCGRG	1 cut(s)	25
AvaII	GGWCC	3 cut(s)	48, 66, 286
BanII	GRGCYC	1 cut(s)	11
BbsI	GAAGAC	2 cut(s)	32, 426
Bbv12I	GWGCWC	1 cut(s)	11
BbvI	GCAGC	2 cut(s)	325, 417
BccI	CCATC	1 cut(s)	259
BcgI	CGANNNNNNTGC	3 cut(s)	29, 320, 354
BcnI	CCSGG	1 cut(s)	108
BcoDI	GTCTC	1 cut(s)	130
BfuAI	ACCTGC	1 cut(s)	184
BisI	GCNGC	2 cut(s)	339, 406
BlsI	GCNGC	2 cut(s)	340, 407
BmcAI	AGTACT	1 cut(s)	347
Bme1390I	CCNGG	1 cut(s)	108
Bme18I	GGWCC	3 cut(s)	48, 66, 286
BmeT110I	CYCGRG	1 cut(s)	25
BmgT120I	GGNCC	4 cut(s)	48, 66, 105, 286
BmiI	GGNNCC	3 cut(s)	67, 287, 288
BmrFI	CCNGG	1 cut(s)	108
BmrI	ACTGGG	1 cut(s)	291
BmsI	GCATC	2 cut(s)	30, 141
BmuI	ACTGGG	1 cut(s)	291
BpiI	GAAGAC	2 cut(s)	32, 426
BplI	GAGNNNNNCTC	2 cut(s)	19, 51
BpuMI	CCSGG	1 cut(s)	108
BsaBI	GATNNNNATC	1 cut(s)	144
BsaJI	CCNNGG	1 cut(s)	361
BsaWI	WCCGGW	1 cut(s)	45
Bsc4I	CCNNNNNNNGG	3 cut(s)	157, 266, 367
Bse118I	RCCGGY	1 cut(s)	102
Bse1I	ACTGG	1 cut(s)	286
Bse3DI	GCAATG	1 cut(s)	455
Bse8I	GATNNNNATC	1 cut(s)	144
BseAI	TCCGGA	1 cut(s)	45
BseDI	CCNNGG	1 cut(s)	361
BseGI	GGATG	1 cut(s)	132
BseJI	GATNNNNATC	1 cut(s)	144
BseLI	CCNNNNNNNGG	3 cut(s)	157, 266, 367
BseMI	GCAATG	1 cut(s)	455
BseNI	ACTGG	1 cut(s)	286
BseX3I	CGGCCG	1 cut(s)	81
BseXI	GCAGC	2 cut(s)	325, 417
Bsh1285I	CGRYCG	1 cut(s)	84
BshFI	GGCC	2 cut(s)	83, 106
BsiEI	CGRYCG	1 cut(s)	84
BsiHKAI	GWGCWC	1 cut(s)	11
BsiHKCI	CYCGRG	1 cut(s)	25
BsiSI	CCGG	4 cut(s)	46, 103, 108, 129
BslFI	GGGAC	1 cut(s)	299
BslI	CCNNNNNNNGG	3 cut(s)	157, 266, 367
BsmAI	GTCTC	1 cut(s)	130
BsmFI	GGGAC	1 cut(s)	299
BsnI	GGCC	2 cut(s)	83, 106
BsoBI	CYCGRG	1 cut(s)	25
Bsp1286I	GDGCHC	1 cut(s)	11
Bsp13I	TCCGGA	1 cut(s)	45
Bsp143I	GATC	2 cut(s)	114, 200
Bsp19I	CCATGG	1 cut(s)	361
BspACI	CCGC	3 cut(s)	51, 151, 312
BspANI	GGCC	2 cut(s)	83, 106
BspEI	TCCGGA	1 cut(s)	45
BspLI	GGNNCC	3 cut(s)	67, 287, 288
BspMI	ACCTGC	1 cut(s)	184
BspPI	GGATC	1 cut(s)	208
BsrDI	GCAATG	1 cut(s)	455
BsrFI	RCCGGY	1 cut(s)	102
BsrI	ACTGG	1 cut(s)	286
BssAI	RCCGGY	1 cut(s)	102
BssECI	CCNNGG	1 cut(s)	361
BssMI	GATC	2 cut(s)	114, 200
BssT1I	CCWWGG	1 cut(s)	361
Bst4CI	ACNGT	1 cut(s)	432
Bst6I	CTCTTC	1 cut(s)	115
BstAPI	GCANNNNNTGC	1 cut(s)	185
BstC8I	GCNNGC	1 cut(s)	7
BstDSI	CCRYGG	1 cut(s)	361
BstF5I	GGATG	1 cut(s)	132
BstKTI	GATC	2 cut(s)	117, 203
BstMAI	GTCTC	1 cut(s)	130
BstMBI	GATC	2 cut(s)	114, 200
BstMCI	CGRYCG	1 cut(s)	84
BstMWI	GCNNNNNNNGC	2 cut(s)	27, 185
BstSCI	CCNGG	1 cut(s)	106
BstV1I	GCAGC	2 cut(s)	325, 417
BstV2I	GAAGAC	2 cut(s)	32, 426
BstZI	CGGCCG	1 cut(s)	81
BsuRI	GGCC	2 cut(s)	83, 106
BtgI	CCRYGG	1 cut(s)	361
BtsCI	GGATG	1 cut(s)	132
BveI	ACCTGC	1 cut(s)	184
Cac8I	GCNNGC	1 cut(s)	7
Cfr10I	RCCGGY	1 cut(s)	102
Cfr13I	GGNCC	4 cut(s)	48, 66, 105, 286
CpoI	CGGWCCG	1 cut(s)	48
CseI	GACGC	1 cut(s)	95
Csp6I	GTAC	3 cut(s)	100, 346, 452
CspI	CGGWCCG	1 cut(s)	48
CviAII	CATG	1 cut(s)	362
CviJI	RGCY	7 cut(s)	9, 30, 83, 106, 270, 338, 408
CviKI_1	RGCY	7 cut(s)	9, 30, 83, 106, 270, 338, 408
CviQI	GTAC	3 cut(s)	100, 346, 452
DpnI	GATC	2 cut(s)	116, 202
DpnII	GATC	2 cut(s)	114, 200
DraI	TTTAAA	1 cut(s)	412
DrdI	GACNNNNNNGTC	1 cut(s)	92
DseDI	GACNNNNNNGTC	1 cut(s)	92
EaeI	YGGCCR	1 cut(s)	81
EagI	CGGCCG	1 cut(s)	81
Eam1104I	CTCTTC	1 cut(s)	115
EarI	CTCTTC	1 cut(s)	115
Ecl136II	GAGCTC	1 cut(s)	9
EclXI	CGGCCG	1 cut(s)	81
Eco130I	CCWWGG	1 cut(s)	361
Eco24I	GRGCYC	1 cut(s)	11
Eco47I	GGWCC	3 cut(s)	48, 66, 286
Eco52I	CGGCCG	1 cut(s)	81
Eco53kI	GAGCTC	1 cut(s)	9
Eco88I	CYCGRG	1 cut(s)	25
EcoICRI	GAGCTC	1 cut(s)	9
EcoO109I	RGGNCCY	1 cut(s)	286
EcoT14I	CCWWGG	1 cut(s)	361
EcoT38I	GRGCYC	1 cut(s)	11
ErhI	CCWWGG	1 cut(s)	361
FaeI	CATG	1 cut(s)	365
FaiI	YATR	8 cut(s)	169, 294, 363, 375, 382, 403, 475, 477
FalI	AAGNNNNNCTT	2 cut(s)	215, 247
FaqI	GGGAC	1 cut(s)	299
FatI	CATG	1 cut(s)	361
Fnu4HI	GCNGC	2 cut(s)	339, 406
FokI	GGATG	1 cut(s)	119
FriOI	GRGCYC	1 cut(s)	11
Fsp4HI	GCNGC	2 cut(s)	339, 406
GluI	GCNGC	2 cut(s)	339, 406
HaeIII	GGCC	2 cut(s)	83, 106
HapII	CCGG	4 cut(s)	46, 103, 108, 129
HgaI	GACGC	1 cut(s)	95
Hin1II	CATG	1 cut(s)	365
HincII	GTYRAC	1 cut(s)	194
HindII	GTYRAC	1 cut(s)	194
HinfI	GANTC	4 cut(s)	123, 190, 256, 308
HpaII	CCGG	4 cut(s)	46, 103, 108, 129
HphI	GGTGA	2 cut(s)	165, 317
Hpy166II	GTNNAC	2 cut(s)	194, 240
Hpy188I	TCNGA	1 cut(s)	119
Hpy188III	TCNNGA	3 cut(s)	25, 46, 69
Hpy8I	GTNNAC	2 cut(s)	194, 240
Hpy99I	CGWCG	1 cut(s)	89
HpyCH4III	ACNGT	1 cut(s)	432
HpyCH4IV	ACGT	1 cut(s)	300
HpyCH4V	TGCA	6 cut(s)	16, 179, 341, 353, 405, 460
HpyF10VI	GCNNNNNNNGC	2 cut(s)	27, 185
HpySE526I	ACGT	1 cut(s)	300
Hsp92II	CATG	1 cut(s)	365
KflI	GGGWCCC	1 cut(s)	286
Kpn2I	TCCGGA	1 cut(s)	45
Kzo9I	GATC	2 cut(s)	114, 200
LmnI	GCTCC	1 cut(s)	14
Lsp1109I	GCAGC	2 cut(s)	325, 417
LweI	GCATC	2 cut(s)	30, 141
MaeII	ACGT	1 cut(s)	300
MalI	GATC	2 cut(s)	116, 202
MboI	GATC	2 cut(s)	114, 200
MboII	GAAGA	5 cut(s)	32, 132, 235, 344, 426
MfeI	CAATTG	1 cut(s)	461
MhlI	GDGCHC	1 cut(s)	11
MluCI	AATT	1 cut(s)	461
MlyI	GAGTC	2 cut(s)	132, 199
MroI	TCCGGA	1 cut(s)	45
MseI	TTAA	2 cut(s)	228, 411
MslI	CAYNNNNRTG	1 cut(s)	247
MspI	CCGG	4 cut(s)	46, 103, 108, 129
MspR9I	CCNGG	1 cut(s)	108
MunI	CAATTG	1 cut(s)	461
MwoI	GCNNNNNNNGC	2 cut(s)	27, 185
NciI	CCSGG	1 cut(s)	108
NcoI	CCATGG	1 cut(s)	361
NdeII	GATC	2 cut(s)	114, 200
NlaIII	CATG	1 cut(s)	365
NlaIV	GGNNCC	3 cut(s)	67, 287, 288
NmeAIII	GCCGAG	1 cut(s)	59
OliI	CACNNNNGTG	1 cut(s)	247
PaeR7I	CTCGAG	1 cut(s)	25
PaqCI	CACCTGC	1 cut(s)	184
PcsI	WCGNNNNNNNCGW	1 cut(s)	93
PfeI	GAWTC	2 cut(s)	256, 308
PkrI	GCNGC	2 cut(s)	340, 407
PleI	GAGTC	2 cut(s)	131, 198
PpsI	GAGTC	2 cut(s)	131, 198
PpuMI	RGGWCCY	1 cut(s)	286
Psp124BI	GAGCTC	1 cut(s)	11
Psp1406I	AACGTT	1 cut(s)	300
Psp5II	RGGWCCY	1 cut(s)	286
PspN4I	GGNNCC	3 cut(s)	67, 287, 288
PspPI	GGNCC	4 cut(s)	48, 66, 105, 286
PspPPI	RGGWCCY	1 cut(s)	286
RsaI	GTAC	3 cut(s)	101, 347, 453
RsaNI	GTAC	3 cut(s)	100, 346, 452
RseI	CAYNNNNRTG	1 cut(s)	247
Rsr2I	CGGWCCG	1 cut(s)	48
RsrII	CGGWCCG	1 cut(s)	48
SacI	GAGCTC	1 cut(s)	11
SaqAI	TTAA	2 cut(s)	228, 411
SatI	GCNGC	2 cut(s)	339, 406
Sau3AI	GATC	2 cut(s)	114, 200
Sau96I	GGNCC	4 cut(s)	48, 66, 105, 286
ScaI	AGTACT	1 cut(s)	347
SchI	GAGTC	2 cut(s)	132, 199
ScrFI	CCNGG	1 cut(s)	108
SduI	GDGCHC	1 cut(s)	11
SetI	ASST	6 cut(s)	11, 162, 178, 303, 340, 410
SfaNI	GCATC	2 cut(s)	30, 141
Sfr274I	CTCGAG	1 cut(s)	25
SinI	GGWCC	3 cut(s)	48, 66, 286
SlaI	CTCGAG	1 cut(s)	25
SmiMI	CAYNNNNRTG	1 cut(s)	247
SmlI	CTYRAG	1 cut(s)	25
SmoI	CTYRAG	1 cut(s)	25
Sse9I	AATT	1 cut(s)	461
SsiI	CCGC	3 cut(s)	51, 151, 312
SstI	GAGCTC	1 cut(s)	11
StyD4I	CCNGG	1 cut(s)	106
StyI	CCWWGG	1 cut(s)	361
TaaI	ACNGT	1 cut(s)	432
TaiI	ACGT	1 cut(s)	303
TaqI	TCGA	3 cut(s)	26, 96, 427
TasI	AATT	1 cut(s)	461
TatI	WGTACW	1 cut(s)	345
TfiI	GAWTC	2 cut(s)	256, 308
Tru1I	TTAA	2 cut(s)	228, 411
Tru9I	TTAA	2 cut(s)	228, 411
TseI	GCWGC	2 cut(s)	338, 405
TspDTI	ATGAA	2 cut(s)	156, 462
VpaK11BI	GGWCC	3 cut(s)	48, 66, 286
XcmI	CCANNNNNNNNNTGG	1 cut(s)	267
XhoI	CTCGAG	1 cut(s)	25
ZrmI	AGTACT	1 cut(s)	347

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