Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0013844

Physical Location & Seq

Genomic Coordinates Forward (+)

49327747 .. 49330865

Gene Structure 3119 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG273800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 987 bp

ATGGGAGGGTGTAAGGCGCCCATAACGACGTTTATAGTGGAGCCGTTTATGCCTCATGACCAAGAGTTTTACCTCTCGATTGTATCCGAAAGGCTTGGAAGCACGATAAGCTTTTCGGAGTGCGGAGGTATTGAAATTGAAGAGAATTGGGACAAGGTCAAGACTATTTTTCTTCCAACCGAGAAGTCTCTGACGAATGAGGCTTGTGCTCCGCTGATTGCTACTCTTCCGCTGGAGGTCAAGGAGAAAATTGGAGATTTCATAAAAGCCGTATTTGCTGTATTTCAGGATTTGGATTTTAGCTTCCTGGAAATGAACCCGTTTACCTTGGTTAATGGTGAACCTTTTCCATTAGATATGAGGGGGGAGCTAGATGACACTGCGGCTTTCAAGAACTTCAACAAATGGGGTAATGTGGAGTTTCCACTGCCTTTTGGCAGAGTTTTAAGTCCAACAGAAACATTTATTCATACTTTGGATGAAAAGACAAGTGCGTCCTTAAAATTCACAGTGCTGAATCCAAAAGGACGCATCTGGACCATGGTAGCTGGAGGTGGTGCAAGCGTTATTTATGCTGATACTGTTGGAGATTTGGGTTATGCATCAGAACTTGGAAACTATGCAGAGTATAGTGGAGCTCCAAATGAAGAAGAGGTGTTGCAATATGCAAGAGTAGTGATTGATTGTGCAACAGCAAATCCAGATGGTCGTAAAAGAGCTCTTCTGATTGGAGGTGGTATAGCTAATTTCACAGATGTTGCTGCTACATTTAATGGAATTATTAGAGCGCTGAAGGAGAAGGAATCCAAGCTCAAAGCGTCGAGAATGCATATATATGTAAGAAGGGGTGGTCCAAACTATCAAACTGGTTTGGCAAAGATGCGTGCATTAGGAGATGAACTTGGTGTTCCTCTTGAGGTTTATGGGCCTGAGGCAACTATGACAGGAATTTGTAAGGAAGCAATTGATTGCGTCATGAGTGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0003878 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006084 GO:0006085 GO:0006139 GO:0006163 GO:0006164 GO:0006629 GO:0006631 GO:0006633 GO:0006637 GO:0006725 GO:0006732 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009108 GO:0009117 GO:0009150 GO:0009152 GO:0009165 GO:0009259 GO:0009260 GO:0009346 GO:0009987 GO:0016053 GO:0016740 GO:0016746 GO:0018130 GO:0019438 GO:0019637 GO:0019693 GO:0019752 GO:0032787 GO:0032991 GO:0033865 GO:0033866 GO:0033875 GO:0034030 GO:0034032 GO:0034033 GO:0034641 GO:0034654 GO:0035383 GO:0035384 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044271 GO:0044272 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046390 GO:0046394 GO:0046483 GO:0046912 GO:0051186 GO:0051188 GO:0055086 GO:0071616 GO:0071704 GO:0072330 GO:0072521 GO:0072522 GO:0090407 GO:1901135 GO:1901137 GO:1901293 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00020 ko00720 ko01100 ko01110 ko01120 ko01130 map00020 map00720 map01100 map01110 map01120 map01130

Pfam Domains

Protein Families

ATP-grasp_2 Citrate_bind

Protein Analysis

328

Amino Acids

35.9

Weight (kDa)

4.83

Isoelectric Point (pI)

39.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synth_N	PF24948	2 - 136	1.7e-39	ATP-citrate synthase ATP-grasp domain
ATP-grasp_2	PF08442	9 - 109	2.1e-07	ATP-grasp domain
Citrate_bind	PF16114	147 - 323	8.5e-85	ATP citrate lyase citrate-binding

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: OG0013844)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09430
fragaria_vesca	FvH4_4g21220
malus_domestica	MD13G1143800.v1.1
prunus_persica	Prupe.1G108300_v2.0.a1 Prupe.6G110400_v2.0.a1
pyrus_communis	pycom13g12470
rosa_chinensis	RchiOBHm_Chr4g0426831
rosa_laevigata	RLG00000007274
rosa_multiflora	Rmu_sc0000953.1_g000013 Rmu_sc0004341.1_g000006
rosa_roxburghii	Rroxscaffold_5G00368800
rosa_rugosa	Rorug04G0215200
rosa_samantha	Rh4AG270200 Rh4BG276500 Rh4CG291300 Rh4DG273800
rosa_wichuraiana	Rw4G023450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	493
AccB1I	GGYRCC	1 cut(s)	16
AciI	CCGC	4 cut(s)	123, 212, 230, 383
AcsI	RAATTY	2 cut(s)	503, 948
AcuI	CTGAAG	1 cut(s)	812
AcyI	GRCGYC	1 cut(s)	17
AfeI	AGCGCT	1 cut(s)	789
AgsI	TTSAA	4 cut(s)	134, 140, 391, 400
AjnI	CCWGG	1 cut(s)	306
AluBI	AGCT	8 cut(s)	111, 303, 370, 548, 638, 719, 743, 811
AluI	AGCT	8 cut(s)	111, 303, 370, 548, 638, 719, 743, 811
Alw21I	GWGCWC	3 cut(s)	211, 640, 721
Alw26I	GTCTC	1 cut(s)	192
Aor51HI	AGCGCT	1 cut(s)	789
AoxI	GGCC	1 cut(s)	926
ApeKI	GCWGC	1 cut(s)	761
ApoI	RAATTY	2 cut(s)	503, 948
Asp700I	GAANNNNTTC	1 cut(s)	345
AspLEI	GCGC	2 cut(s)	19, 790
AspS9I	GGNCC	3 cut(s)	537, 851, 926
AsuHPI	GGTGA	1 cut(s)	350
AvaII	GGWCC	2 cut(s)	537, 851
AxyI	CCTNAGG	1 cut(s)	930
BanI	GGYRCC	1 cut(s)	16
BanII	GRGCYC	2 cut(s)	640, 721
Bbv12I	GWGCWC	3 cut(s)	211, 640, 721
BbvI	GCAGC	1 cut(s)	748
BccI	CCATC	1 cut(s)	698
BceAI	ACGGC	2 cut(s)	28, 254
BciT130I	CCWGG	1 cut(s)	308
BciVI	GTATCC	1 cut(s)	94
BcoDI	GTCTC	1 cut(s)	192
BfaI	CTAG	1 cut(s)	371
BfoI	RGCGCY	2 cut(s)	20, 791
BfuI	GTATCC	1 cut(s)	94
BisI	GCNGC	2 cut(s)	384, 762
BlsI	GCNGC	2 cut(s)	385, 763
Bme1390I	CCNGG	1 cut(s)	308
Bme18I	GGWCC	2 cut(s)	537, 851
BmgT120I	GGNCC	3 cut(s)	537, 851, 926
BmiI	GGNNCC	2 cut(s)	18, 42
BmrFI	CCNGG	1 cut(s)	308
BmsI	GCATC	3 cut(s)	540, 611, 870
BpmI	CTGGAG	2 cut(s)	254, 570
BpuEI	CTTGAG	1 cut(s)	935
BsaHI	GRCGYC	1 cut(s)	17
BsaJI	CCNNGG	2 cut(s)	327, 540
Bse1I	ACTGG	1 cut(s)	871
Bse21I	CCTNAGG	1 cut(s)	930
BseBI	CCWGG	1 cut(s)	308
BseDI	CCNNGG	2 cut(s)	327, 540
BseGI	GGATG	1 cut(s)	484
BseMII	CTCAG	1 cut(s)	921
BseNI	ACTGG	1 cut(s)	871
BseXI	GCAGC	1 cut(s)	748
BshFI	GGCC	1 cut(s)	928
BshNI	GGYRCC	1 cut(s)	16
BsiHKAI	GWGCWC	3 cut(s)	211, 640, 721
BslFI	GGGAC	1 cut(s)	164
BsmAI	GTCTC	1 cut(s)	192
BsmFI	GGGAC	1 cut(s)	164
BsmI	GAATGC	1 cut(s)	831
BsnI	GGCC	1 cut(s)	928
Bsp1286I	GDGCHC	3 cut(s)	211, 640, 721
Bsp19I	CCATGG	1 cut(s)	540
BspACI	CCGC	4 cut(s)	123, 212, 230, 383
BspANI	GGCC	1 cut(s)	928
BspCNI	CTCAG	1 cut(s)	922
BspHI	TCATGA	2 cut(s)	55, 975
BspLI	GGNNCC	2 cut(s)	18, 42
BspQI	GCTCTTC	1 cut(s)	726
BspT107I	GGYRCC	1 cut(s)	16
BsrI	ACTGG	1 cut(s)	871
BssECI	CCNNGG	2 cut(s)	327, 540
BssNI	GRCGYC	1 cut(s)	17
BssT1I	CCWWGG	2 cut(s)	327, 540
Bst2UI	CCWGG	1 cut(s)	308
Bst4CI	ACNGT	2 cut(s)	511, 583
Bst6I	CTCTTC	4 cut(s)	135, 231, 645, 726
BstACI	GRCGYC	1 cut(s)	17
BstC8I	GCNNGC	2 cut(s)	562, 885
BstDEI	CTNAG	1 cut(s)	930
BstDSI	CCRYGG	1 cut(s)	540
BstF5I	GGATG	1 cut(s)	484
BstH2I	RGCGCY	2 cut(s)	20, 791
BstHHI	GCGC	2 cut(s)	19, 790
BstMAI	GTCTC	1 cut(s)	192
BstMWI	GCNNNNNNNGC	3 cut(s)	49, 108, 275
BstNI	CCWGG	1 cut(s)	308
BstSCI	CCNGG	1 cut(s)	306
BstV1I	GCAGC	1 cut(s)	748
Bsu36I	CCTNAGG	1 cut(s)	930
BsuI	GTATCC	1 cut(s)	94
BsuRI	GGCC	1 cut(s)	928
BtgI	CCRYGG	1 cut(s)	540
BtsCI	GGATG	1 cut(s)	484
BtsI	GCAGTG	2 cut(s)	378, 425
BtsIMutI	CAGTG	3 cut(s)	378, 425, 516
Cac8I	GCNNGC	2 cut(s)	562, 885
CciI	TCATGA	2 cut(s)	55, 975
CfoI	GCGC	2 cut(s)	19, 790
Cfr13I	GGNCC	3 cut(s)	537, 851, 926
CseI	GACGC	4 cut(s)	483, 537, 807, 961
CviAII	CATG	3 cut(s)	56, 541, 976
DdeI	CTNAG	1 cut(s)	930
DinI	GGCGCC	1 cut(s)	18
DrdI	GACNNNNNNGTC	1 cut(s)	493
DseDI	GACNNNNNNGTC	1 cut(s)	493
Eam1104I	CTCTTC	4 cut(s)	135, 231, 645, 726
EarI	CTCTTC	4 cut(s)	135, 231, 645, 726
Ecl136II	GAGCTC	2 cut(s)	638, 719
Eco130I	CCWWGG	2 cut(s)	327, 540
Eco24I	GRGCYC	2 cut(s)	640, 721
Eco47I	GGWCC	2 cut(s)	537, 851
Eco47III	AGCGCT	1 cut(s)	789
Eco53kI	GAGCTC	2 cut(s)	638, 719
Eco57I	CTGAAG	1 cut(s)	812
Eco81I	CCTNAGG	1 cut(s)	930
EcoICRI	GAGCTC	2 cut(s)	638, 719
EcoRII	CCWGG	1 cut(s)	306
EcoT14I	CCWWGG	2 cut(s)	327, 540
EcoT22I	ATGCAT	2 cut(s)	604, 831
EcoT38I	GRGCYC	2 cut(s)	640, 721
EgeI	GGCGCC	1 cut(s)	18
EheI	GGCGCC	1 cut(s)	18
ErhI	CCWWGG	2 cut(s)	327, 540
FaeI	CATG	3 cut(s)	59, 544, 979
FaqI	GGGAC	1 cut(s)	164
FatI	CATG	3 cut(s)	55, 540, 975
Fnu4HI	GCNGC	2 cut(s)	384, 762
FokI	GGATG	1 cut(s)	491
FriOI	GRGCYC	2 cut(s)	640, 721
Fsp4HI	GCNGC	2 cut(s)	384, 762
FspBI	CTAG	1 cut(s)	371
GlaI	GCGC	2 cut(s)	18, 789
GluI	GCNGC	2 cut(s)	384, 762
GsuI	CTGGAG	2 cut(s)	254, 570
HaeII	RGCGCY	2 cut(s)	20, 791
HaeIII	GGCC	1 cut(s)	928
HgaI	GACGC	4 cut(s)	483, 537, 807, 961
HhaI	GCGC	2 cut(s)	19, 790
Hin1I	GRCGYC	1 cut(s)	17
Hin1II	CATG	3 cut(s)	59, 544, 979
Hin6I	GCGC	2 cut(s)	17, 788
HinP1I	GCGC	2 cut(s)	17, 788
HindIII	AAGCTT	1 cut(s)	109
HinfI	GANTC	2 cut(s)	517, 803
HphI	GGTGA	1 cut(s)	350
Hpy166II	GTNNAC	2 cut(s)	324, 341
Hpy188I	TCNGA	5 cut(s)	88, 118, 192, 607, 726
Hpy8I	GTNNAC	2 cut(s)	324, 341
Hpy99I	CGWCG	2 cut(s)	31, 823
HpyAV	CCTTC	3 cut(s)	787, 793, 837
HpyCH4III	ACNGT	2 cut(s)	511, 583
HpyCH4IV	ACGT	1 cut(s)	29
HpyCH4V	TGCA	8 cut(s)	560, 602, 623, 661, 668, 689, 829, 887
HpyF10VI	GCNNNNNNNGC	3 cut(s)	49, 108, 275
HpyF3I	CTNAG	1 cut(s)	930
HpySE526I	ACGT	1 cut(s)	29
Hsp92I	GRCGYC	1 cut(s)	17
Hsp92II	CATG	3 cut(s)	59, 544, 979
HspAI	GCGC	2 cut(s)	17, 788
KasI	GGCGCC	1 cut(s)	16
LguI	GCTCTTC	1 cut(s)	726
LmnI	GCTCC	5 cut(s)	40, 214, 367, 635, 643
Lsp1109I	GCAGC	1 cut(s)	748
LweI	GCATC	3 cut(s)	540, 611, 870
MaeI	CTAG	1 cut(s)	371
MaeII	ACGT	1 cut(s)	29
MboII	GAAGA	6 cut(s)	152, 164, 218, 659, 662, 713
MfeI	CAATTG	1 cut(s)	963
MhlI	GDGCHC	3 cut(s)	211, 640, 721
MluCI	AATT	8 cut(s)	135, 145, 249, 503, 745, 777, 948, 963
Mly113I	GGCGCC	1 cut(s)	17
MmeI	TCCRAC	3 cut(s)	200, 476, 565
Mph1103I	ATGCAT	2 cut(s)	604, 831
MroXI	GAANNNNTTC	1 cut(s)	345
MseI	TTAA	4 cut(s)	333, 446, 500, 771
MslI	CAYNNNNRTG	1 cut(s)	834
MspA1I	CMGCKG	2 cut(s)	214, 232
MspR9I	CCNGG	1 cut(s)	308
MunI	CAATTG	1 cut(s)	963
Mva1269I	GAATGC	1 cut(s)	831
MvaI	CCWGG	1 cut(s)	308
MwoI	GCNNNNNNNGC	3 cut(s)	49, 108, 275
NarI	GGCGCC	1 cut(s)	17
NcoI	CCATGG	1 cut(s)	540
NlaIII	CATG	3 cut(s)	59, 544, 979
NlaIV	GGNNCC	2 cut(s)	18, 42
NsiI	ATGCAT	2 cut(s)	604, 831
PagI	TCATGA	2 cut(s)	55, 975
PciSI	GCTCTTC	1 cut(s)	726
PctI	GAATGC	1 cut(s)	831
PdmI	GAANNNNTTC	1 cut(s)	345
PfeI	GAWTC	2 cut(s)	517, 803
PflFI	GACNNNGTC	1 cut(s)	155
PfoI	TCCNGGA	1 cut(s)	306
PkrI	GCNGC	2 cut(s)	385, 763
PluTI	GGCGCC	1 cut(s)	20
Psp124BI	GAGCTC	2 cut(s)	640, 721
Psp6I	CCWGG	1 cut(s)	306
PspGI	CCWGG	1 cut(s)	306
PspN4I	GGNNCC	2 cut(s)	18, 42
PspPI	GGNCC	3 cut(s)	537, 851, 926
PsyI	GACNNNGTC	1 cut(s)	155
RseI	CAYNNNNRTG	1 cut(s)	834
SacI	GAGCTC	2 cut(s)	640, 721
SapI	GCTCTTC	1 cut(s)	726
SaqAI	TTAA	4 cut(s)	333, 446, 500, 771
SatI	GCNGC	2 cut(s)	384, 762
Sau96I	GGNCC	3 cut(s)	537, 851, 926
ScrFI	CCNGG	1 cut(s)	308
SduI	GDGCHC	3 cut(s)	211, 640, 721
SfaNI	GCATC	3 cut(s)	540, 611, 870
SfoI	GGCGCC	1 cut(s)	18
SinI	GGWCC	2 cut(s)	537, 851
SmiMI	CAYNNNNRTG	1 cut(s)	834
SmlI	CTYRAG	1 cut(s)	914
SmoI	CTYRAG	1 cut(s)	914
Sse9I	AATT	8 cut(s)	135, 145, 249, 503, 745, 777, 948, 963
SsiI	CCGC	4 cut(s)	123, 212, 230, 383
SspDI	GGCGCC	1 cut(s)	16
SspMI	CTAG	1 cut(s)	371
SstI	GAGCTC	2 cut(s)	640, 721
StyD4I	CCNGG	1 cut(s)	306
StyI	CCWWGG	2 cut(s)	327, 540
TaaI	ACNGT	2 cut(s)	511, 583
TaiI	ACGT	1 cut(s)	32
TaqI	TCGA	2 cut(s)	77, 821
TasI	AATT	8 cut(s)	135, 145, 249, 503, 745, 777, 948, 963
TauI	GCSGC	1 cut(s)	386
TfiI	GAWTC	2 cut(s)	517, 803
Tru1I	TTAA	4 cut(s)	333, 446, 500, 771
Tru9I	TTAA	4 cut(s)	333, 446, 500, 771
TscAI	CASTG	3 cut(s)	385, 432, 516
TseI	GCWGC	1 cut(s)	761
TspDTI	ATGAA	6 cut(s)	250, 329, 458, 495, 660, 912
TspRI	CASTG	3 cut(s)	385, 432, 516
Tth111I	GACNNNGTC	1 cut(s)	155
VpaK11BI	GGWCC	2 cut(s)	537, 851
XapI	RAATTY	2 cut(s)	503, 948
XmnI	GAANNNNTTC	1 cut(s)	345
XspI	CTAG	1 cut(s)	371
Zsp2I	ATGCAT	2 cut(s)	604, 831

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