Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002634

Physical Location & Seq

Genomic Coordinates Forward (+)

2024875 .. 2035141

Gene Structure 10267 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG029300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGGCAGCTCATGTGCAGAAAGAGGAATTGGTTTGTGATCTTTTGCTGCTGGTGGAAATCGATCGTGTGGATGTTTACACTGCCCTTTCTGGAGCTGTTGGAGCTCTATATGGTCCCCTTCATGGTGGAGCAAATGAGGCTGTGCTTAAGATGCTAAGTGAAATTGGATCTGTTGAGAACATTCCAGAGTTCATTGAGGGTGTGAAGAGCAGGGCAATGGGATTTCCAACGGAGTTCTTCCCAGTTTTATTTGCAATCCCTAGAATGGCTGGTTACTTGGCACATTGGAGAGAATCCCTGGATGCCCAAGCAGGTTTCATGCAGTCGCTCCGGACAGGTGACGGAGAAATCTCGGCGACGAACCTTGACCGGAGACCGTTAGATCTTGGGTTTATTCGATTACCACGACCTCTGCCCTCTGCTGTCTAG

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

142

Amino Acids

15.45

Weight (kDa)

4.98

Isoelectric Point (pI)

40.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synt	PF00285	23 - 70	7.2e-15	Citrate synthase, C-terminal domain
Citrate_synt	PF00285	64 - 100	3.1e-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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Align Labels (Cladogram)

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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)
Acc36I	ACCTGC	1 cut(s)	302
AccIII	TCCGGA	1 cut(s)	330
AclWI	GGATC	1 cut(s)	175
AfiI	CCNNNNNNNGG	2 cut(s)	122, 265
AflII	CTTAAG	1 cut(s)	146
AjnI	CCWGG	1 cut(s)	297
AjuI	GAANNNNNNNTTGG	2 cut(s)	11, 43
AluBI	AGCT	3 cut(s)	8, 95, 104
AluI	AGCT	3 cut(s)	8, 95, 104
Alw21I	GWGCWC	1 cut(s)	106
Alw26I	GTCTC	1 cut(s)	367
AlwI	GGATC	1 cut(s)	175
Aor13HI	TCCGGA	1 cut(s)	330
ApeKI	GCWGC	2 cut(s)	5, 46
AspS9I	GGNCC	1 cut(s)	113
AsuHPI	GGTGA	1 cut(s)	350
AvaII	GGWCC	1 cut(s)	113
BanII	GRGCYC	1 cut(s)	106
Bbv12I	GWGCWC	1 cut(s)	106
BbvI	GCAGC	2 cut(s)	17, 33
BciT130I	CCWGG	1 cut(s)	299
BcoDI	GTCTC	1 cut(s)	367
BfaI	CTAG	2 cut(s)	261, 427
BfrI	CTTAAG	1 cut(s)	146
BfuAI	ACCTGC	1 cut(s)	302
BglII	AGATCT	1 cut(s)	382
BisI	GCNGC	2 cut(s)	6, 47
BlsI	GCNGC	2 cut(s)	7, 48
Bme1390I	CCNGG	1 cut(s)	299
Bme18I	GGWCC	1 cut(s)	113
BmgT120I	GGNCC	1 cut(s)	113
BmiI	GGNNCC	1 cut(s)	115
BmrFI	CCNGG	1 cut(s)	299
BmrI	ACTGGG	1 cut(s)	236
BmsI	GCATC	2 cut(s)	141, 292
BmuI	ACTGGG	1 cut(s)	236
BpmI	CTGGAG	1 cut(s)	111
Bsa29I	ATCGAT	1 cut(s)	60
BsaI	GGTCTC	1 cut(s)	367
BsaJI	CCNNGG	1 cut(s)	297
BsaWI	WCCGGW	2 cut(s)	330, 369
Bsc4I	CCNNNNNNNGG	2 cut(s)	122, 265
Bse1I	ACTGG	1 cut(s)	242
Bse3DI	GCAATG	1 cut(s)	222
BseAI	TCCGGA	1 cut(s)	330
BseBI	CCWGG	1 cut(s)	299
BseCI	ATCGAT	1 cut(s)	60
BseDI	CCNNGG	1 cut(s)	297
BseGI	GGATG	2 cut(s)	76, 307
BseLI	CCNNNNNNNGG	2 cut(s)	122, 265
BseMI	GCAATG	1 cut(s)	222
BseNI	ACTGG	1 cut(s)	242
BseXI	GCAGC	2 cut(s)	17, 33
BsgI	GTGCAG	1 cut(s)	35
Bsh1285I	CGRYCG	1 cut(s)	64
BshVI	ATCGAT	1 cut(s)	60
BsiEI	CGRYCG	1 cut(s)	64
BsiHKAI	GWGCWC	1 cut(s)	106
BsiSI	CCGG	2 cut(s)	331, 370
BslFI	GGGAC	1 cut(s)	99
BslI	CCNNNNNNNGG	2 cut(s)	122, 265
BsmAI	GTCTC	1 cut(s)	367
BsmFI	GGGAC	1 cut(s)	99
Bso31I	GGTCTC	1 cut(s)	367
Bsp1286I	GDGCHC	1 cut(s)	106
Bsp13I	TCCGGA	1 cut(s)	330
Bsp143I	GATC	4 cut(s)	37, 61, 167, 382
BspDI	ATCGAT	1 cut(s)	60
BspEI	TCCGGA	1 cut(s)	330
BspLI	GGNNCC	1 cut(s)	115
BspMI	ACCTGC	1 cut(s)	302
BspPI	GGATC	1 cut(s)	175
BspQI	GCTCTTC	1 cut(s)	200
BspTI	CTTAAG	1 cut(s)	146
BspTNI	GGTCTC	1 cut(s)	367
BsrDI	GCAATG	1 cut(s)	222
BsrI	ACTGG	1 cut(s)	242
BssECI	CCNNGG	1 cut(s)	297
BssMI	GATC	4 cut(s)	37, 61, 167, 382
Bst2UI	CCWGG	1 cut(s)	299
Bst4CI	ACNGT	1 cut(s)	378
Bst6I	CTCTTC	1 cut(s)	200
BstAFI	CTTAAG	1 cut(s)	146
BstDEI	CTNAG	1 cut(s)	155
BstF5I	GGATG	2 cut(s)	76, 307
BstKTI	GATC	4 cut(s)	40, 64, 170, 385
BstMAI	GTCTC	1 cut(s)	367
BstMBI	GATC	4 cut(s)	37, 61, 167, 382
BstMCI	CGRYCG	1 cut(s)	64
BstMWI	GCNNNNNNNGC	3 cut(s)	101, 137, 151
BstNI	CCWGG	1 cut(s)	299
BstSCI	CCNGG	1 cut(s)	297
BstV1I	GCAGC	2 cut(s)	17, 33
BstX2I	RGATCY	2 cut(s)	167, 382
BstYI	RGATCY	2 cut(s)	167, 382
Bsu15I	ATCGAT	1 cut(s)	60
BsuTUI	ATCGAT	1 cut(s)	60
BtsCI	GGATG	2 cut(s)	76, 307
BtsI	GCAGTG	1 cut(s)	78
BtsIMutI	CAGTG	1 cut(s)	78
BveI	ACCTGC	1 cut(s)	302
Cfr13I	GGNCC	1 cut(s)	113
ClaI	ATCGAT	1 cut(s)	60
CviAII	CATG	3 cut(s)	11, 122, 319
CviJI	RGCY	5 cut(s)	8, 95, 104, 140, 269
CviKI_1	RGCY	5 cut(s)	8, 95, 104, 140, 269
DdeI	CTNAG	1 cut(s)	155
DpnI	GATC	4 cut(s)	39, 63, 169, 384
DpnII	GATC	4 cut(s)	37, 61, 167, 382
Eam1104I	CTCTTC	1 cut(s)	200
EarI	CTCTTC	1 cut(s)	200
Ecl136II	GAGCTC	1 cut(s)	104
Eco24I	GRGCYC	1 cut(s)	106
Eco31I	GGTCTC	1 cut(s)	367
Eco47I	GGWCC	1 cut(s)	113
Eco53kI	GAGCTC	1 cut(s)	104
EcoICRI	GAGCTC	1 cut(s)	104
EcoRII	CCWGG	1 cut(s)	297
EcoT38I	GRGCYC	1 cut(s)	106
FaeI	CATG	3 cut(s)	14, 125, 322
FaiI	YATR	5 cut(s)	12, 109, 111, 123, 320
FaqI	GGGAC	1 cut(s)	99
FatI	CATG	3 cut(s)	10, 121, 318
Fnu4HI	GCNGC	2 cut(s)	6, 47
FokI	GGATG	2 cut(s)	83, 314
FriOI	GRGCYC	1 cut(s)	106
Fsp4HI	GCNGC	2 cut(s)	6, 47
FspBI	CTAG	2 cut(s)	261, 427
GluI	GCNGC	2 cut(s)	6, 47
GsuI	CTGGAG	1 cut(s)	111
HapII	CCGG	2 cut(s)	331, 370
Hin1II	CATG	3 cut(s)	14, 125, 322
HinfI	GANTC	1 cut(s)	293
HpaII	CCGG	2 cut(s)	331, 370
HphI	GGTGA	1 cut(s)	350
Hpy166II	GTNNAC	1 cut(s)	76
Hpy188III	TCNNGA	3 cut(s)	90, 185, 331
Hpy8I	GTNNAC	1 cut(s)	76
Hpy99I	CGWCG	1 cut(s)	361
HpyAV	CCTTC	1 cut(s)	128
HpyCH4III	ACNGT	1 cut(s)	378
HpyCH4V	TGCA	3 cut(s)	16, 254, 322
HpyF10VI	GCNNNNNNNGC	3 cut(s)	101, 137, 151
HpyF3I	CTNAG	1 cut(s)	155
Hsp92II	CATG	3 cut(s)	14, 125, 322
Kpn2I	TCCGGA	1 cut(s)	330
Kzo9I	GATC	4 cut(s)	37, 61, 167, 382
LguI	GCTCTTC	1 cut(s)	200
LmnI	GCTCC	4 cut(s)	92, 101, 128, 333
Lsp1109I	GCAGC	2 cut(s)	17, 33
LweI	GCATC	2 cut(s)	141, 292
MaeI	CTAG	2 cut(s)	261, 427
MaeIII	GTNAC	2 cut(s)	272, 338
MalI	GATC	4 cut(s)	39, 63, 169, 384
MboI	GATC	4 cut(s)	37, 61, 167, 382
MboII	GAAGA	2 cut(s)	217, 229
MflI	RGATCY	2 cut(s)	167, 382
MhlI	GDGCHC	1 cut(s)	106
MluCI	AATT	2 cut(s)	26, 162
MmeI	TCCRAC	2 cut(s)	79, 251
MnlI	CCTC	5 cut(s)	16, 130, 190, 420, 427
MroI	TCCGGA	1 cut(s)	330
MseI	TTAA	1 cut(s)	147
MspCI	CTTAAG	1 cut(s)	146
MspI	CCGG	2 cut(s)	331, 370
MspR9I	CCNGG	1 cut(s)	299
MvaI	CCWGG	1 cut(s)	299
MwoI	GCNNNNNNNGC	3 cut(s)	101, 137, 151
NdeII	GATC	4 cut(s)	37, 61, 167, 382
NlaIII	CATG	3 cut(s)	14, 125, 322
NlaIV	GGNNCC	1 cut(s)	115
NmeAIII	GCCGAG	1 cut(s)	332
NmuCI	GTSAC	1 cut(s)	338
PciSI	GCTCTTC	1 cut(s)	200
PcsI	WCGNNNNNNNCGW	1 cut(s)	403
PfeI	GAWTC	1 cut(s)	293
PkrI	GCNGC	2 cut(s)	7, 48
Ple19I	CGATCG	1 cut(s)	64
Psp124BI	GAGCTC	1 cut(s)	106
Psp6I	CCWGG	1 cut(s)	297
PspGI	CCWGG	1 cut(s)	297
PspN4I	GGNNCC	1 cut(s)	115
PspPI	GGNCC	1 cut(s)	113
PsuI	RGATCY	2 cut(s)	167, 382
PvuI	CGATCG	1 cut(s)	64
SacI	GAGCTC	1 cut(s)	106
SapI	GCTCTTC	1 cut(s)	200
SaqAI	TTAA	1 cut(s)	147
SatI	GCNGC	2 cut(s)	6, 47
Sau3AI	GATC	4 cut(s)	37, 61, 167, 382
Sau96I	GGNCC	1 cut(s)	113
ScrFI	CCNGG	1 cut(s)	299
SduI	GDGCHC	1 cut(s)	106
SetI	ASST	7 cut(s)	10, 97, 106, 316, 340, 366, 412
SfaNI	GCATC	2 cut(s)	141, 292
SinI	GGWCC	1 cut(s)	113
SmlI	CTYRAG	1 cut(s)	146
SmoI	CTYRAG	1 cut(s)	146
Sse9I	AATT	2 cut(s)	26, 162
SspMI	CTAG	2 cut(s)	261, 427
SstI	GAGCTC	1 cut(s)	106
StyD4I	CCNGG	1 cut(s)	297
TaaI	ACNGT	1 cut(s)	378
TaqI	TCGA	2 cut(s)	60, 397
TasI	AATT	2 cut(s)	26, 162
TfiI	GAWTC	1 cut(s)	293
Tru1I	TTAA	1 cut(s)	147
Tru9I	TTAA	1 cut(s)	147
TscAI	CASTG	1 cut(s)	85
TseFI	GTSAC	1 cut(s)	338
TseI	GCWGC	2 cut(s)	5, 46
Tsp45I	GTSAC	1 cut(s)	338
TspDTI	ATGAA	3 cut(s)	110, 181, 307
TspGWI	ACGGA	2 cut(s)	245, 357
TspRI	CASTG	1 cut(s)	85
Vha464I	CTTAAG	1 cut(s)	146
VpaK11BI	GGWCC	1 cut(s)	113
XspI	CTAG	2 cut(s)	261, 427

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