Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001986

Physical Location & Seq

Genomic Coordinates Reverse (-)

5696972 .. 5700043

Gene Structure 3072 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG033300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 477 bp

ATGATGGTTGAATTTGAGGATGGAGGTGGAAGGATTGCATACAGTCCGACATGCCTATTCATTTGCAAGGTTATTGAGGAGGGTCCAATAACTGCAGCTCCACCAGAGACAATTAGAAAGTTGGAGCAGGCAGCTCGAAGGCTGGCTAAAAGTGTTAACTATGTTGGAGCAGCTAGTGTTGAGTATCTGTACAGTATGGACACTGGTGAGTACTATTTCTTAGAGTTGAACCCTCGGTTGCAGGGGATAAGAATAAAATGGCAGATATGTCCTGGAGGGCTCAGAGCTTATCGAGAGGAAAGAAGTAGACTTAAAGTTGGTTTATACTCTATTGCGTTTCAAGGAATTTATACGAGAGATTCTTTTTATTACGACGCCTGGCAGCAAATCCTCCATTGGAATTGGATCAGAAGTTATAAACAGAAAGATTTTTATTATATAGTTATACACTTGTGTATACTTGCAAAAACTAGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0003989 GO:0005575 GO:0005623 GO:0005886 GO:0006082 GO:0006629 GO:0006631 GO:0006633 GO:0007275 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009653 GO:0009719 GO:0009725 GO:0009735 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009933 GO:0009987 GO:0010014 GO:0010016 GO:0010033 GO:0010072 GO:0010154 GO:0016020 GO:0016053 GO:0016421 GO:0016874 GO:0016885 GO:0019752 GO:0022414 GO:0022622 GO:0030497 GO:0032501 GO:0032502 GO:0032787 GO:0042221 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044283 GO:0044464 GO:0046394 GO:0048316 GO:0048364 GO:0048367 GO:0048507 GO:0048508 GO:0048532 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0071704 GO:0071944 GO:0072330 GO:0090421 GO:0099402 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00061 ko00254 ko00620 ko00640 ko01100 ko01110 ko01212 ko04152 ko04910 ko04922 map00061 map00254 map00620 map00640 map01100 map01110 map01212 map04152 map04910 map04922

Pfam Domains

Protein Families

ACC_central Biotin_carb_C Biotin_carb_N Biotin_lipoyl CPSase_L_D2 Carboxyl_trans

Protein Analysis

158

Amino Acids

18.53

Weight (kDa)

9.0

Isoelectric Point (pI)

48.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CPSase_L_D2	PF02786	23 - 81	1.4e-10	Carbamoyl-phosphate synthase L chain, ATP binding 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)

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Publication-ready

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Orthologous Genes (Group: OG0001986)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G36160 AT1G36160 AT1G36180 AT1G36180 AT1G36180
fragaria_vesca	FvH4_5g38000 FvH4_5g38000 FvH4_5g38000 FvH4_5g38000 FvH4_5g38000 FvH4_5g38000
malus_domestica	MD08G1178000.v1.1 MD15G1363500.v1.1
prunus_persica	Prupe.1G512000_v2.0.a1 Prupe.1G512000_v2.0.a1 Prupe.1G512000_v2.0.a1
pyrus_communis	pycom08g15250 pycom15g32670
rosa_chinensis	RchiOBHm_Chr2g0140771 RchiOBHm_Chr2g0144971 RchiOBHm_Chr7g0239931
rosa_laevigata	RLG00000000716 RLG00000013564 RLG00000020589
rosa_multiflora	Rmu_co8457723.1_g000001 Rmu_sc0000540.1_g000024 Rmu_sc0001684.1_g000001 Rmu_sc0006326.1_g000027 Rmu_sc0041871.1_g000001 Rmu_sc0041872.1_g000001
rosa_roxburghii	Rroxscaffold_3G00220610
rosa_rugosa	Rorug03G0235100 Rorug07G0331300 Rorug07G0331300
rosa_samantha	Rh1CG081500 Rh1DG087900 Rh4AG110300 Rh4DG033300 Rh5BG555900 Rh5CG578700 Rh5DG265800 Rh7AG485000 Rh7BG458000 Rh7DG470600
rosa_wichuraiana	Rw7G040680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	417
AccI	GTMKAC	2 cut(s)	307, 457
AclWI	GGATC	1 cut(s)	413
AcsI	RAATTY	2 cut(s)	11, 345
AcyI	GRCGYC	1 cut(s)	375
AfaI	GTAC	2 cut(s)	191, 212
AgsI	TTSAA	3 cut(s)	11, 229, 341
AjnI	CCWGG	2 cut(s)	271, 377
AluBI	AGCT	4 cut(s)	98, 134, 173, 287
AluI	AGCT	4 cut(s)	98, 134, 173, 287
Alw26I	GTCTC	1 cut(s)	101
AlwI	GGATC	1 cut(s)	413
ApeKI	GCWGC	4 cut(s)	95, 131, 170, 382
ApoI	RAATTY	2 cut(s)	11, 345
AspS9I	GGNCC	1 cut(s)	83
AsuHPI	GGTGA	1 cut(s)	218
AvaII	GGWCC	1 cut(s)	83
BanII	GRGCYC	1 cut(s)	282
BbvI	GCAGC	4 cut(s)	107, 143, 182, 394
BccI	CCATC	1 cut(s)	14
BcgI	CGANNNNNNTGC	2 cut(s)	116, 150
BciT130I	CCWGG	2 cut(s)	273, 379
BcoDI	GTCTC	1 cut(s)	101
BfaI	CTAG	2 cut(s)	174, 471
BfmI	CTRYAG	1 cut(s)	93
BisI	GCNGC	4 cut(s)	96, 132, 171, 383
BlsI	GCNGC	4 cut(s)	97, 133, 172, 384
BmcAI	AGTACT	1 cut(s)	212
Bme1390I	CCNGG	2 cut(s)	273, 379
Bme18I	GGWCC	1 cut(s)	83
BmgT120I	GGNCC	1 cut(s)	83
BmiI	GGNNCC	1 cut(s)	84
BmrFI	CCNGG	2 cut(s)	273, 379
BpmI	CTGGAG	1 cut(s)	294
BsaHI	GRCGYC	1 cut(s)	375
BsaJI	CCNNGG	1 cut(s)	233
BsaXI	ACNNNNNCTCC	2 cut(s)	82, 112
Bse1I	ACTGG	1 cut(s)	208
BseBI	CCWGG	2 cut(s)	273, 379
BseDI	CCNNGG	1 cut(s)	233
BseGI	GGATG	1 cut(s)	25
BseMII	CTCAG	1 cut(s)	295
BseNI	ACTGG	1 cut(s)	208
BseRI	GAGGAG	1 cut(s)	92
BseXI	GCAGC	4 cut(s)	107, 143, 182, 394
BsmAI	GTCTC	1 cut(s)	101
Bsp1286I	GDGCHC	1 cut(s)	282
Bsp1407I	TGTACA	1 cut(s)	189
Bsp143I	GATC	1 cut(s)	405
BspCNI	CTCAG	1 cut(s)	294
BspLI	GGNNCC	1 cut(s)	84
BspMAI	CTGCAG	1 cut(s)	97
BspPI	GGATC	1 cut(s)	413
BsrGI	TGTACA	1 cut(s)	189
BsrI	ACTGG	1 cut(s)	208
BssECI	CCNNGG	1 cut(s)	233
BssMI	GATC	1 cut(s)	405
BssNAI	GTATAC	1 cut(s)	458
BssNI	GRCGYC	1 cut(s)	375
Bst1107I	GTATAC	1 cut(s)	458
Bst2UI	CCWGG	2 cut(s)	273, 379
Bst4CI	ACNGT	2 cut(s)	44, 194
BstACI	GRCGYC	1 cut(s)	375
BstAUI	TGTACA	1 cut(s)	189
BstC8I	GCNNGC	2 cut(s)	129, 144
BstDEI	CTNAG	2 cut(s)	220, 281
BstF5I	GGATG	1 cut(s)	25
BstKTI	GATC	1 cut(s)	408
BstMAI	GTCTC	1 cut(s)	101
BstMBI	GATC	1 cut(s)	405
BstNI	CCWGG	2 cut(s)	273, 379
BstNSI	RCATGY	1 cut(s)	54
BstSCI	CCNGG	2 cut(s)	271, 377
BstSFI	CTRYAG	1 cut(s)	93
BstV1I	GCAGC	4 cut(s)	107, 143, 182, 394
BstZ17I	GTATAC	1 cut(s)	458
BtsCI	GGATG	1 cut(s)	25
BtsIMutI	CAGTG	1 cut(s)	201
Cac8I	GCNNGC	2 cut(s)	129, 144
Cfr13I	GGNCC	1 cut(s)	83
CseI	GACGC	1 cut(s)	383
Csp6I	GTAC	2 cut(s)	190, 211
CviAII	CATG	1 cut(s)	51
CviJI	RGCY	7 cut(s)	98, 134, 142, 146, 173, 280, 287
CviKI_1	RGCY	7 cut(s)	98, 134, 142, 146, 173, 280, 287
CviQI	GTAC	2 cut(s)	190, 211
DdeI	CTNAG	2 cut(s)	220, 281
DpnI	GATC	1 cut(s)	407
DpnII	GATC	1 cut(s)	405
Eco24I	GRGCYC	1 cut(s)	282
Eco47I	GGWCC	1 cut(s)	83
EcoRII	CCWGG	2 cut(s)	271, 377
EcoT38I	GRGCYC	1 cut(s)	282
FaeI	CATG	1 cut(s)	54
FatI	CATG	1 cut(s)	50
FblI	GTMKAC	2 cut(s)	307, 457
Fnu4HI	GCNGC	4 cut(s)	96, 132, 171, 383
FokI	GGATG	1 cut(s)	32
FriOI	GRGCYC	1 cut(s)	282
Fsp4HI	GCNGC	4 cut(s)	96, 132, 171, 383
FspBI	CTAG	2 cut(s)	174, 471
GluI	GCNGC	4 cut(s)	96, 132, 171, 383
GsuI	CTGGAG	1 cut(s)	294
HgaI	GACGC	1 cut(s)	383
Hin1I	GRCGYC	1 cut(s)	375
Hin1II	CATG	1 cut(s)	54
HincII	GTYRAC	1 cut(s)	157
HindII	GTYRAC	1 cut(s)	157
HinfI	GANTC	1 cut(s)	359
HpaI	GTTAAC	1 cut(s)	157
HphI	GGTGA	1 cut(s)	218
Hpy166II	GTNNAC	3 cut(s)	157, 308, 458
Hpy188I	TCNGA	3 cut(s)	48, 284, 410
Hpy188III	TCNNGA	1 cut(s)	293
Hpy8I	GTNNAC	3 cut(s)	157, 308, 458
Hpy99I	CGWCG	1 cut(s)	377
HpyAV	CCTTC	2 cut(s)	24, 132
HpyCH4III	ACNGT	2 cut(s)	44, 194
HpyCH4V	TGCA	5 cut(s)	38, 66, 95, 241, 464
HpyF3I	CTNAG	2 cut(s)	220, 281
Hsp92I	GRCGYC	1 cut(s)	375
Hsp92II	CATG	1 cut(s)	54
KspAI	GTTAAC	1 cut(s)	157
Kzo9I	GATC	1 cut(s)	405
LmnI	GCTCC	3 cut(s)	103, 124, 167
LpnPI	CCDG	9 cut(s)	113, 117, 128, 189, 227, 258, 285, 364, 391
Lsp1109I	GCAGC	4 cut(s)	107, 143, 182, 394
MaeI	CTAG	2 cut(s)	174, 471
MalI	GATC	1 cut(s)	407
MboI	GATC	1 cut(s)	405
MhlI	GDGCHC	1 cut(s)	282
MluCI	AATT	4 cut(s)	11, 111, 345, 400
MmeI	TCCRAC	3 cut(s)	71, 102, 145
MnlI	CCTC	8 cut(s)	10, 17, 70, 73, 243, 269, 289, 401
MseI	TTAA	2 cut(s)	156, 312
MspR9I	CCNGG	2 cut(s)	273, 379
MvaI	CCWGG	2 cut(s)	273, 379
NdeII	GATC	1 cut(s)	405
NlaIII	CATG	1 cut(s)	54
NlaIV	GGNNCC	1 cut(s)	84
NspI	RCATGY	1 cut(s)	54
PfeI	GAWTC	1 cut(s)	359
PfoI	TCCNGGA	1 cut(s)	271
PkrI	GCNGC	4 cut(s)	97, 133, 172, 384
PsiI	TTATAA	1 cut(s)	417
Psp6I	CCWGG	2 cut(s)	271, 377
PspGI	CCWGG	2 cut(s)	271, 377
PspN4I	GGNNCC	1 cut(s)	84
PspPI	GGNCC	1 cut(s)	83
PstI	CTGCAG	1 cut(s)	97
RsaI	GTAC	2 cut(s)	191, 212
RsaNI	GTAC	2 cut(s)	190, 211
SaqAI	TTAA	2 cut(s)	156, 312
SatI	GCNGC	4 cut(s)	96, 132, 171, 383
Sau3AI	GATC	1 cut(s)	405
Sau96I	GGNCC	1 cut(s)	83
ScaI	AGTACT	1 cut(s)	212
ScrFI	CCNGG	2 cut(s)	273, 379
SduI	GDGCHC	1 cut(s)	282
SetI	ASST	6 cut(s)	28, 72, 100, 136, 175, 289
SfcI	CTRYAG	1 cut(s)	93
SinI	GGWCC	1 cut(s)	83
Sse9I	AATT	4 cut(s)	11, 111, 345, 400
SspMI	CTAG	2 cut(s)	174, 471
StyD4I	CCNGG	2 cut(s)	271, 377
TaaI	ACNGT	2 cut(s)	44, 194
TaqI	TCGA	2 cut(s)	136, 292
TasI	AATT	4 cut(s)	11, 111, 345, 400
TatI	WGTACW	2 cut(s)	189, 210
TfiI	GAWTC	1 cut(s)	359
Tru1I	TTAA	2 cut(s)	156, 312
Tru9I	TTAA	2 cut(s)	156, 312
TscAI	CASTG	1 cut(s)	208
TseI	GCWGC	4 cut(s)	95, 131, 170, 382
TspDTI	ATGAA	1 cut(s)	49
TspRI	CASTG	1 cut(s)	208
VpaK11BI	GGWCC	1 cut(s)	83
XapI	RAATTY	2 cut(s)	11, 345
XceI	RCATGY	1 cut(s)	54
XmiI	GTMKAC	2 cut(s)	307, 457
XspI	CTAG	2 cut(s)	174, 471
ZrmI	AGTACT	1 cut(s)	212

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