Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002634

Physical Location & Seq

Genomic Coordinates Forward (+)

39022374 .. 39023497

Gene Structure 1124 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG200800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGTTTGGGAGAGTTGGATGTTGGAAGGTTCTCTGGATGAGTGTAGGCTGGTTAACTGTAGAAATCCACTGGGGTAATAGAGCTTATAAACCAAATTCCCGCCTCGCCCAAGTATTGGACATTCTCTTCATACTCCACGCTGAACATGAGATGAATTGCTCAACGGCTGCTGCTCGGCATCTGGCGTCAAGTGGTGTGGATGTTTACACTGCCCTTTCTGGAGCTGTTGGAGCTCTATATGGTCCCCTTCATGGTGGAGCAAATGAGGCTGTGCTTAAGATGCTAAGTGAAATTGGATCTGTTGAGAACATTCCAGAGTTCATTGAGGGTGTGAAGAGCAGGGCAATGGGATTTCCAACGGAGTTCTTCCCAGTTTTATTTGCAATCCCTAGAATGGCTGGTTACTTGGCACACTGGAGAGAATCCCTGGATGCCCAAGCAGGTTTCATGCAGGGCTGTTCAAAAGCACAAGTCATGGATCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004108 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0005911 GO:0006082 GO:0006629 GO:0006631 GO:0006635 GO:0008150 GO:0008152 GO:0009056 GO:0009062 GO:0009506 GO:0009514 GO:0009987 GO:0016042 GO:0016054 GO:0016740 GO:0016746 GO:0019395 GO:0019752 GO:0030054 GO:0030258 GO:0032787 GO:0034440 GO:0036440 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044255 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0046395 GO:0046912 GO:0055044 GO:0055114 GO:0071704 GO:0072329 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00020 ko00630 ko01100 ko01110 ko01120 ko01130 ko01200 ko01210 ko01230 map00020 map00630 map01100 map01110 map01120 map01130 map01200 map01210 map01230

Pfam Domains

Protein Families

Citrate_synt

Protein Analysis

161

Amino Acids

17.64

Weight (kDa)

6.28

Isoelectric Point (pI)

32.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synt	PF00285	28 - 113	6.7e-34	Citrate synthase, C-terminal domain
Citrate_synt	PF00285	107 - 143	2e-08	Citrate synthase, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0002634)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42790 AT3G58740 AT3G58750
fragaria_vesca	FvH4_5g27540 FvH4_6g37750
malus_domestica	MD09G1156400.v1.1 MD17G1142900.v1.1
prunus_persica	Prupe.3G169400_v2.0.a1
pyrus_communis	pycom09g07510 pycom17g13590 pycom17g13600
rosa_chinensis	RchiOBHm_Chr2g0143111 RchiOBHm_Chr2g0150811 RchiOBHm_Chr7g0233461
rosa_laevigata	RLG00000020508
rosa_multiflora	Rmu_co8164368.1_g000001 Rmu_co8192116.1_g000001 Rmu_co8272387.1_g000001 Rmu_sc0003819.1_g000005 Rmu_sc0004794.1_g000003 Rmu_sc0020410.1_g000001
rosa_roxburghii	Rroxscaffold_2G00096940 Rroxscaffold_3G00251810
rosa_rugosa	Rorug02G0103600 Rorug02G0179700 Rorug02G0422600
rosa_samantha	Rh2AG024100 Rh2AG482700 Rh2BG495300 Rh2CG469000 Rh2DG450300 Rh2DG506100 Rh4CG229100 Rh4DG032400 Rh4DG200800 Rh5AG029300 Rh5CG031600 Rh5DG497900 Rh6CG201800
rosa_wichuraiana	Rw2G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	87
Acc36I	ACCTGC	1 cut(s)	431
AccB7I	CCANNNNNTGG	1 cut(s)	115
AciI	CCGC	1 cut(s)	100
AclWI	GGATC	1 cut(s)	304
AcsI	RAATTY	1 cut(s)	94
AcyI	GRCGYC	1 cut(s)	185
AfiI	CCNNNNNNNGG	3 cut(s)	115, 251, 394
AflII	CTTAAG	1 cut(s)	275
AgsI	TTSAA	1 cut(s)	462
AjnI	CCWGG	1 cut(s)	426
AluBI	AGCT	3 cut(s)	83, 224, 233
AluI	AGCT	3 cut(s)	83, 224, 233
Alw21I	GWGCWC	1 cut(s)	235
AlwI	GGATC	1 cut(s)	304
ApeKI	GCWGC	2 cut(s)	167, 170
ApoI	RAATTY	1 cut(s)	94
AspS9I	GGNCC	1 cut(s)	242
AvaII	GGWCC	1 cut(s)	242
BanII	GRGCYC	1 cut(s)	235
Bbv12I	GWGCWC	1 cut(s)	235
BbvI	GCAGC	2 cut(s)	154, 157
BceAI	ACGGC	1 cut(s)	180
BciT130I	CCWGG	1 cut(s)	428
BfaI	CTAG	1 cut(s)	390
BfmI	CTRYAG	1 cut(s)	57
BfrI	CTTAAG	1 cut(s)	275
BfuAI	ACCTGC	1 cut(s)	431
BisI	GCNGC	2 cut(s)	168, 171
BlsI	GCNGC	2 cut(s)	169, 172
Bme1390I	CCNGG	1 cut(s)	428
Bme18I	GGWCC	1 cut(s)	242
BmgT120I	GGNCC	1 cut(s)	242
BmiI	GGNNCC	1 cut(s)	244
BmrFI	CCNGG	1 cut(s)	428
BmrI	ACTGGG	2 cut(s)	79, 365
BmsI	GCATC	3 cut(s)	187, 270, 421
BmuI	ACTGGG	2 cut(s)	79, 365
BpmI	CTGGAG	2 cut(s)	240, 436
BsaHI	GRCGYC	1 cut(s)	185
BsaJI	CCNNGG	1 cut(s)	426
Bsc4I	CCNNNNNNNGG	3 cut(s)	115, 251, 394
Bse1I	ACTGG	3 cut(s)	74, 371, 419
Bse3DI	GCAATG	1 cut(s)	351
BseBI	CCWGG	1 cut(s)	428
BseDI	CCNNGG	1 cut(s)	426
BseGI	GGATG	4 cut(s)	23, 42, 205, 436
BseLI	CCNNNNNNNGG	3 cut(s)	115, 251, 394
BseMI	GCAATG	1 cut(s)	351
BseNI	ACTGG	3 cut(s)	74, 371, 419
BseXI	GCAGC	2 cut(s)	154, 157
BsiHKAI	GWGCWC	1 cut(s)	235
BslFI	GGGAC	1 cut(s)	228
BslI	CCNNNNNNNGG	3 cut(s)	115, 251, 394
BsmFI	GGGAC	1 cut(s)	228
Bsp1286I	GDGCHC	1 cut(s)	235
Bsp143I	GATC	2 cut(s)	296, 478
BspACI	CCGC	1 cut(s)	100
BspLI	GGNNCC	1 cut(s)	244
BspMI	ACCTGC	1 cut(s)	431
BspPI	GGATC	1 cut(s)	304
BspQI	GCTCTTC	1 cut(s)	329
BspTI	CTTAAG	1 cut(s)	275
BsrDI	GCAATG	1 cut(s)	351
BsrI	ACTGG	3 cut(s)	74, 371, 419
BssECI	CCNNGG	1 cut(s)	426
BssMI	GATC	2 cut(s)	296, 478
BssNI	GRCGYC	1 cut(s)	185
Bst2UI	CCWGG	1 cut(s)	428
Bst4CI	ACNGT	1 cut(s)	58
Bst6I	CTCTTC	2 cut(s)	131, 329
BstACI	GRCGYC	1 cut(s)	185
BstAFI	CTTAAG	1 cut(s)	275
BstDEI	CTNAG	1 cut(s)	284
BstF5I	GGATG	4 cut(s)	23, 42, 205, 436
BstKTI	GATC	2 cut(s)	299, 481
BstMBI	GATC	2 cut(s)	296, 478
BstMWI	GCNNNNNNNGC	3 cut(s)	230, 266, 280
BstNI	CCWGG	1 cut(s)	428
BstSCI	CCNGG	1 cut(s)	426
BstSFI	CTRYAG	1 cut(s)	57
BstV1I	GCAGC	2 cut(s)	154, 157
BstX2I	RGATCY	1 cut(s)	296
BstYI	RGATCY	1 cut(s)	296
BtsCI	GGATG	4 cut(s)	23, 42, 205, 436
BtsI	GCAGTG	1 cut(s)	207
BtsIMutI	CAGTG	3 cut(s)	67, 207, 412
BveI	ACCTGC	1 cut(s)	431
Cfr13I	GGNCC	1 cut(s)	242
CseI	GACGC	1 cut(s)	174
CspCI	CAANNNNNGTGG	2 cut(s)	177, 212
CviAII	CATG	4 cut(s)	146, 251, 448, 475
CviJI	RGCY	8 cut(s)	48, 83, 167, 224, 233, 269, 398, 456
CviKI_1	RGCY	8 cut(s)	48, 83, 167, 224, 233, 269, 398, 456
DdeI	CTNAG	1 cut(s)	284
DpnI	GATC	2 cut(s)	298, 480
DpnII	GATC	2 cut(s)	296, 478
Eam1104I	CTCTTC	2 cut(s)	131, 329
EarI	CTCTTC	2 cut(s)	131, 329
Ecl136II	GAGCTC	1 cut(s)	233
Eco24I	GRGCYC	1 cut(s)	235
Eco47I	GGWCC	1 cut(s)	242
Eco53kI	GAGCTC	1 cut(s)	233
EcoICRI	GAGCTC	1 cut(s)	233
EcoRII	CCWGG	1 cut(s)	426
EcoT38I	GRGCYC	1 cut(s)	235
FaeI	CATG	4 cut(s)	149, 254, 451, 478
FaiI	YATR	8 cut(s)	87, 131, 147, 238, 240, 252, 449, 476
FaqI	GGGAC	1 cut(s)	228
FatI	CATG	4 cut(s)	145, 250, 447, 474
FauI	CCCGC	1 cut(s)	107
Fnu4HI	GCNGC	2 cut(s)	168, 171
FokI	GGATG	4 cut(s)	30, 49, 212, 443
FriOI	GRGCYC	1 cut(s)	235
Fsp4HI	GCNGC	2 cut(s)	168, 171
FspBI	CTAG	1 cut(s)	390
GluI	GCNGC	2 cut(s)	168, 171
GsuI	CTGGAG	2 cut(s)	240, 436
HgaI	GACGC	1 cut(s)	174
Hin1I	GRCGYC	1 cut(s)	185
Hin1II	CATG	4 cut(s)	149, 254, 451, 478
HincII	GTYRAC	1 cut(s)	54
HindII	GTYRAC	1 cut(s)	54
HinfI	GANTC	1 cut(s)	422
HpaI	GTTAAC	1 cut(s)	54
Hpy166II	GTNNAC	2 cut(s)	54, 205
Hpy188III	TCNNGA	3 cut(s)	34, 219, 314
Hpy8I	GTNNAC	2 cut(s)	54, 205
HpyAV	CCTTC	2 cut(s)	19, 257
HpyCH4III	ACNGT	1 cut(s)	58
HpyCH4V	TGCA	2 cut(s)	383, 451
HpyF10VI	GCNNNNNNNGC	3 cut(s)	230, 266, 280
HpyF3I	CTNAG	1 cut(s)	284
Hsp92I	GRCGYC	1 cut(s)	185
Hsp92II	CATG	4 cut(s)	149, 254, 451, 478
KspAI	GTTAAC	1 cut(s)	54
Kzo9I	GATC	2 cut(s)	296, 478
LguI	GCTCTTC	1 cut(s)	329
LmnI	GCTCC	3 cut(s)	221, 230, 257
Lsp1109I	GCAGC	2 cut(s)	154, 157
LweI	GCATC	3 cut(s)	187, 270, 421
MaeI	CTAG	1 cut(s)	390
MaeIII	GTNAC	1 cut(s)	401
MalI	GATC	2 cut(s)	298, 480
MboI	GATC	2 cut(s)	296, 478
MboII	GAAGA	3 cut(s)	118, 346, 358
MflI	RGATCY	1 cut(s)	296
MhlI	GDGCHC	1 cut(s)	235
MluCI	AATT	3 cut(s)	94, 154, 291
MmeI	TCCRAC	2 cut(s)	208, 380
MnlI	CCTC	3 cut(s)	113, 259, 319
MseI	TTAA	2 cut(s)	53, 276
MspCI	CTTAAG	1 cut(s)	275
MspR9I	CCNGG	1 cut(s)	428
MvaI	CCWGG	1 cut(s)	428
MwoI	GCNNNNNNNGC	3 cut(s)	230, 266, 280
NdeII	GATC	2 cut(s)	296, 478
NlaIII	CATG	4 cut(s)	149, 254, 451, 478
NlaIV	GGNNCC	1 cut(s)	244
NmeAIII	GCCGAG	1 cut(s)	154
PciSI	GCTCTTC	1 cut(s)	329
PfeI	GAWTC	1 cut(s)	422
PflMI	CCANNNNNTGG	1 cut(s)	115
PkrI	GCNGC	2 cut(s)	169, 172
PsiI	TTATAA	1 cut(s)	87
Psp124BI	GAGCTC	1 cut(s)	235
Psp6I	CCWGG	1 cut(s)	426
PspGI	CCWGG	1 cut(s)	426
PspN4I	GGNNCC	1 cut(s)	244
PspPI	GGNCC	1 cut(s)	242
PsuI	RGATCY	1 cut(s)	296
SacI	GAGCTC	1 cut(s)	235
SapI	GCTCTTC	1 cut(s)	329
SaqAI	TTAA	2 cut(s)	53, 276
SatI	GCNGC	2 cut(s)	168, 171
Sau3AI	GATC	2 cut(s)	296, 478
Sau96I	GGNCC	1 cut(s)	242
ScrFI	CCNGG	1 cut(s)	428
SduI	GDGCHC	1 cut(s)	235
SetI	ASST	5 cut(s)	30, 85, 226, 235, 445
SfaNI	GCATC	3 cut(s)	187, 270, 421
SfcI	CTRYAG	1 cut(s)	57
SinI	GGWCC	1 cut(s)	242
SmlI	CTYRAG	1 cut(s)	275
SmoI	CTYRAG	1 cut(s)	275
Sse9I	AATT	3 cut(s)	94, 154, 291
SsiI	CCGC	1 cut(s)	100
SspMI	CTAG	1 cut(s)	390
SstI	GAGCTC	1 cut(s)	235
StyD4I	CCNGG	1 cut(s)	426
TaaI	ACNGT	1 cut(s)	58
TasI	AATT	3 cut(s)	94, 154, 291
TfiI	GAWTC	1 cut(s)	422
Tru1I	TTAA	2 cut(s)	53, 276
Tru9I	TTAA	2 cut(s)	53, 276
TscAI	CASTG	3 cut(s)	74, 214, 419
TseI	GCWGC	2 cut(s)	167, 170
TspDTI	ATGAA	5 cut(s)	118, 167, 239, 310, 436
TspGWI	ACGGA	1 cut(s)	374
TspRI	CASTG	3 cut(s)	74, 214, 419
Van91I	CCANNNNNTGG	1 cut(s)	115
Vha464I	CTTAAG	1 cut(s)	275
VpaK11BI	GGWCC	1 cut(s)	242
XapI	RAATTY	1 cut(s)	94
XspI	CTAG	1 cut(s)	390

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