Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0005840

Physical Location & Seq

Genomic Coordinates Reverse (-)

25432403 .. 25443686

Gene Structure 11284 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG178400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGACACGATGGCTGTTCTCCACTAACCACAAGGATATAGGGACTCTATATTTCATCTTCGGTGCTATTGCTGGAGTGATGGGCACATGCTTCTCAGTACTGATTCGTATGGAATTAGCACGACCCGGCGATCAAATTCTTGGTGGGAATCATCAACTTTATAATGTTTTAATAACGGCTCATGCTTTTTTAATGATCTTTTTTATGGTTATGCCGGCGATGATAGGTGGATTTGGTAATTGGTTTGTTCCGATTCTGATAGGTGCATCTGACATGGCATTTCCACGATTAAATAATATTTCATTCTGGTTGTTGCCACCAAGTCTCTTGCTCCTATTAAGCTCAGCCTTAGTAGAAGTGGGTAGCGGGACTGGGTGGACGGTCTATCCGCCCTTAAGTGGTATTACCAGCCATTCTGGGGGAGCTGTTGATTTAGCAATTTTTAGTCTTCATCTATCTGGGCTTTCGGGTATGCCACGTCGCATTCCAGATTATCCAGATGCTTACGCTGGATGGAATGCCCTTAGCAGTTTTGGCTCTTATATATCCGTAGTTGGGATTTGTTGTTTCTTCGTGGTCGTAACAATCACTTCAAGCAGTGGAAATAACAAAAGATGTGCTCCAAGTCCTTGGGCTGTTCAACAGAATTCAACCACACTGGAATGGATGGTACAAAGTCCTCCAGCTTTTCATACTTTTGGAGAACTTCCTGCTATCAAGGAGACGAAAAGCTATGTGAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005746 GO:0005751 GO:0006091 GO:0006119 GO:0006123 GO:0006139 GO:0006163 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006810 GO:0006811 GO:0006812 GO:0008150 GO:0008152 GO:0009060 GO:0009117 GO:0009123 GO:0009126 GO:0009141 GO:0009144 GO:0009150 GO:0009161 GO:0009167 GO:0009199 GO:0009205 GO:0009259 GO:0009987 GO:0015672 GO:0015980 GO:0015988 GO:0015990 GO:0016020 GO:0016310 GO:0017144 GO:0019637 GO:0019646 GO:0019693 GO:0019866 GO:0022900 GO:0022904 GO:0031090 GO:0031966 GO:0031967 GO:0031975 GO:0032991 GO:0034220 GO:0034641 GO:0042773 GO:0042775 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044281 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0045277 GO:0045333 GO:0046034 GO:0046483 GO:0051179 GO:0051234 GO:0055085 GO:0055086 GO:0055114 GO:0070069 GO:0070469 GO:0071704 GO:0072521 GO:0098655 GO:0098660 GO:0098662 GO:0098796 GO:0098798 GO:0098800 GO:0098803 GO:1901135 GO:1901360 GO:1901564 GO:1902600

KEGG Pathways

Metabolic & Signaling

ko00190 ko01100 ko04260 ko04714 ko04932 ko05010 ko05012 ko05016 map00190 map01100 map04260 map04714 map04932 map05010 map05012 map05016

Pfam Domains

Protein Families

COX1

Protein Analysis

247

Amino Acids

26.82

Weight (kDa)

7.73

Isoelectric Point (pI)

40.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
COX1	PF00115	12 - 151	1.9e-33	Cytochrome C and Quinol oxidase polypeptide I

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0005840)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG01360
malus_domestica	MD13G1127000.v1.1
pyrus_communis	pycom461g00250
rosa_chinensis	RchiOBHm_Chr6g0256731 RchiOBHm_Chr6g0263801 RchiOBHm_MTg0498781 RchiOBHm_MTg0498791
rosa_laevigata	RLG00000000130 RLG00000000185 RLG00000000436 RLG00000000473 RLG00000000496 RLG00000002909
rosa_multiflora	Rmu_sc0000046.1_g000012 Rmu_sc0009290.1_g000004
rosa_roxburghii	Rroxscaffold_2G00118940 Rroxscaffold_2G00119310
rosa_rugosa	Rorug05G0209600
rosa_samantha	Rh1BG209200 Rh1BG209300 Rh1DG235800 Rh5CG352000 Rh6BG284800 Rh6CG178300 Rh6CG178400 Rh6DG170100 Rh6DG170200
rosa_wichuraiana	Rw4G000200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	162
AciI	CCGC	2 cut(s)	366, 389
AcsI	RAATTY	2 cut(s)	135, 646
AfaI	GTAC	2 cut(s)	99, 672
AfiI	CCNNNNNNNGG	3 cut(s)	398, 418, 555
AflII	CTTAAG	1 cut(s)	394
AgsI	TTSAA	3 cut(s)	594, 641, 651
AjiI	CACGTC	1 cut(s)	479
AluBI	AGCT	4 cut(s)	342, 425, 686, 732
AluI	AGCT	4 cut(s)	342, 425, 686, 732
Alw21I	GWGCWC	1 cut(s)	622
Alw26I	GTCTC	2 cut(s)	329, 716
ApoI	RAATTY	2 cut(s)	135, 646
AsuC2I	CCSGG	1 cut(s)	126
BaeGI	GKGCMC	1 cut(s)	86
BbsI	GAAGAC	1 cut(s)	440
Bbv12I	GWGCWC	1 cut(s)	622
BccI	CCATC	4 cut(s)	3, 73, 507, 661
BceAI	ACGGC	1 cut(s)	192
BcnI	CCSGG	1 cut(s)	126
BcoDI	GTCTC	2 cut(s)	329, 716
BfrI	CTTAAG	1 cut(s)	394
BlpI	GCTNAGC	1 cut(s)	343
BmcAI	AGTACT	1 cut(s)	99
Bme1390I	CCNGG	1 cut(s)	126
BmgBI	CACGTC	1 cut(s)	479
BmrFI	CCNGG	1 cut(s)	126
BmrI	ACTGGG	1 cut(s)	381
BmsI	GCATC	2 cut(s)	275, 490
BmuI	ACTGGG	1 cut(s)	381
BpiI	GAAGAC	1 cut(s)	440
BpmI	CTGGAG	2 cut(s)	93, 666
Bpu10I	CCTNAGC	1 cut(s)	524
Bpu1102I	GCTNAGC	1 cut(s)	343
BpuMI	CCSGG	1 cut(s)	126
BsaJI	CCNNGG	1 cut(s)	629
Bsc4I	CCNNNNNNNGG	3 cut(s)	398, 418, 555
Bse118I	RCCGGY	1 cut(s)	214
Bse1I	ACTGG	2 cut(s)	376, 663
BseDI	CCNNGG	1 cut(s)	629
BseGI	GGATG	2 cut(s)	518, 672
BseLI	CCNNNNNNNGG	3 cut(s)	398, 418, 555
BseMII	CTCAG	2 cut(s)	108, 357
BseNI	ACTGG	2 cut(s)	376, 663
BseSI	GKGCMC	1 cut(s)	86
BsiHKAI	GWGCWC	1 cut(s)	622
BsiSI	CCGG	2 cut(s)	126, 215
BslFI	GGGAC	2 cut(s)	55, 382
BslI	CCNNNNNNNGG	3 cut(s)	398, 418, 555
BsmAI	GTCTC	2 cut(s)	329, 716
BsmBI	CGTCTC	1 cut(s)	716
BsmFI	GGGAC	2 cut(s)	55, 382
BsmI	GAATGC	2 cut(s)	483, 523
Bsp1286I	GDGCHC	2 cut(s)	86, 622
Bsp143I	GATC	2 cut(s)	130, 195
Bsp1720I	GCTNAGC	1 cut(s)	343
BspACI	CCGC	2 cut(s)	366, 389
BspCNI	CTCAG	2 cut(s)	107, 356
BspTI	CTTAAG	1 cut(s)	394
BsrFI	RCCGGY	1 cut(s)	214
BsrI	ACTGG	2 cut(s)	376, 663
BssAI	RCCGGY	1 cut(s)	214
BssECI	CCNNGG	1 cut(s)	629
BssMI	GATC	2 cut(s)	130, 195
BssT1I	CCWWGG	1 cut(s)	629
Bst4CI	ACNGT	1 cut(s)	382
BstAFI	CTTAAG	1 cut(s)	394
BstC8I	GCNNGC	1 cut(s)	216
BstDEI	CTNAG	4 cut(s)	94, 343, 349, 524
BstF5I	GGATG	2 cut(s)	518, 672
BstKTI	GATC	2 cut(s)	133, 198
BstMAI	GTCTC	2 cut(s)	329, 716
BstMBI	GATC	2 cut(s)	130, 195
BstMWI	GCNNNNNNNGC	1 cut(s)	534
BstNSI	RCATGY	1 cut(s)	90
BstSCI	CCNGG	1 cut(s)	124
BstSLI	GKGCMC	1 cut(s)	86
BstV2I	GAAGAC	1 cut(s)	440
BstXI	CCANNNNNNTGG	1 cut(s)	630
BtgZI	GCGATG	1 cut(s)	233
BtrI	CACGTC	1 cut(s)	479
BtsCI	GGATG	2 cut(s)	518, 672
BtsI	GCAGTG	1 cut(s)	604
BtsIMutI	CAGTG	2 cut(s)	604, 656
Cac8I	GCNNGC	1 cut(s)	216
Cfr10I	RCCGGY	1 cut(s)	214
Csp6I	GTAC	2 cut(s)	98, 671
CviAII	CATG	3 cut(s)	87, 182, 274
CviQI	GTAC	2 cut(s)	98, 671
DdeI	CTNAG	4 cut(s)	94, 343, 349, 524
DpnI	GATC	2 cut(s)	132, 197
DpnII	GATC	2 cut(s)	130, 195
EciI	GGCGGA	1 cut(s)	378
Eco130I	CCWWGG	1 cut(s)	629
EcoRI	GAATTC	1 cut(s)	646
EcoT14I	CCWWGG	1 cut(s)	629
ErhI	CCWWGG	1 cut(s)	629
Esp3I	CGTCTC	1 cut(s)	716
FaeI	CATG	3 cut(s)	90, 185, 277
FaqI	GGGAC	2 cut(s)	55, 382
FatI	CATG	3 cut(s)	86, 181, 273
FauI	CCCGC	1 cut(s)	359
FokI	GGATG	2 cut(s)	525, 679
GsuI	CTGGAG	2 cut(s)	93, 666
HapII	CCGG	2 cut(s)	126, 215
Hin1II	CATG	3 cut(s)	90, 185, 277
HinfI	GANTC	4 cut(s)	43, 103, 148, 253
HpaII	CCGG	2 cut(s)	126, 215
Hpy166II	GTNNAC	1 cut(s)	378
Hpy188I	TCNGA	3 cut(s)	252, 258, 271
Hpy188III	TCNNGA	2 cut(s)	488, 497
Hpy8I	GTNNAC	1 cut(s)	378
Hpy99I	CGWCG	1 cut(s)	483
HpyCH4III	ACNGT	1 cut(s)	382
HpyCH4IV	ACGT	1 cut(s)	478
HpyCH4V	TGCA	1 cut(s)	266
HpyF10VI	GCNNNNNNNGC	1 cut(s)	534
HpyF3I	CTNAG	4 cut(s)	94, 343, 349, 524
HpySE526I	ACGT	1 cut(s)	478
Hsp92II	CATG	3 cut(s)	90, 185, 277
KroI	GCCGGC	1 cut(s)	214
KroNI	GCCGGC	1 cut(s)	216
Kzo9I	GATC	2 cut(s)	130, 195
LmnI	GCTCC	3 cut(s)	336, 422, 625
LweI	GCATC	2 cut(s)	275, 490
MaeII	ACGT	1 cut(s)	478
MaeIII	GTNAC	1 cut(s)	580
MalI	GATC	2 cut(s)	132, 197
MboI	GATC	2 cut(s)	130, 195
MboII	GAAGA	3 cut(s)	49, 440, 562
MhlI	GDGCHC	2 cut(s)	86, 622
MluCI	AATT	5 cut(s)	113, 135, 238, 438, 646
MlyI	GAGTC	1 cut(s)	37
MnlI	CCTC	1 cut(s)	690
MroNI	GCCGGC	1 cut(s)	214
MseI	TTAA	5 cut(s)	170, 191, 290, 338, 395
MslI	CAYNNNNRTG	1 cut(s)	661
MspCI	CTTAAG	1 cut(s)	394
MspI	CCGG	2 cut(s)	126, 215
MspR9I	CCNGG	1 cut(s)	126
Mva1269I	GAATGC	2 cut(s)	483, 523
MwoI	GCNNNNNNNGC	1 cut(s)	534
NaeI	GCCGGC	1 cut(s)	216
NciI	CCSGG	1 cut(s)	126
NdeII	GATC	2 cut(s)	130, 195
NgoMIV	GCCGGC	1 cut(s)	214
NlaIII	CATG	3 cut(s)	90, 185, 277
NspI	RCATGY	1 cut(s)	90
PctI	GAATGC	2 cut(s)	483, 523
PdiI	GCCGGC	1 cut(s)	216
PfeI	GAWTC	3 cut(s)	103, 148, 253
PleI	GAGTC	1 cut(s)	37
PpsI	GAGTC	1 cut(s)	37
PsiI	TTATAA	1 cut(s)	162
RsaI	GTAC	2 cut(s)	99, 672
RsaNI	GTAC	2 cut(s)	98, 671
RseI	CAYNNNNRTG	1 cut(s)	661
SaqAI	TTAA	5 cut(s)	170, 191, 290, 338, 395
Sau3AI	GATC	2 cut(s)	130, 195
ScaI	AGTACT	1 cut(s)	99
SchI	GAGTC	1 cut(s)	37
ScrFI	CCNGG	1 cut(s)	126
SduI	GDGCHC	2 cut(s)	86, 622
SetI	ASST	7 cut(s)	229, 265, 344, 427, 481, 688, 734
SfaNI	GCATC	2 cut(s)	275, 490
SmiMI	CAYNNNNRTG	1 cut(s)	661
SmlI	CTYRAG	1 cut(s)	394
SmoI	CTYRAG	1 cut(s)	394
Sse9I	AATT	5 cut(s)	113, 135, 238, 438, 646
SsiI	CCGC	2 cut(s)	366, 389
SspI	AATATT	1 cut(s)	298
StyD4I	CCNGG	1 cut(s)	124
StyI	CCWWGG	1 cut(s)	629
TaaI	ACNGT	1 cut(s)	382
TaiI	ACGT	1 cut(s)	481
TasI	AATT	5 cut(s)	113, 135, 238, 438, 646
TatI	WGTACW	1 cut(s)	97
TfiI	GAWTC	3 cut(s)	103, 148, 253
Tru1I	TTAA	5 cut(s)	170, 191, 290, 338, 395
Tru9I	TTAA	5 cut(s)	170, 191, 290, 338, 395
TscAI	CASTG	2 cut(s)	604, 663
TspDTI	ATGAA	4 cut(s)	43, 291, 440, 680
TspGWI	ACGGA	1 cut(s)	538
TspRI	CASTG	2 cut(s)	604, 663
Vha464I	CTTAAG	1 cut(s)	394
XapI	RAATTY	2 cut(s)	135, 646
XceI	RCATGY	1 cut(s)	90
ZrmI	AGTACT	1 cut(s)	99

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