Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0004391

Physical Location & Seq

Genomic Coordinates Forward (+)

417362 .. 419514

Gene Structure 2153 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000005629

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1092 bp

ATGGAGGCTCTTCCTAGCTTTGCACGAGTTGGGTCCGTCTCTGTTGTTGACTTCTCTTTACCATCGCTCAAGACTCGAGCTTTCCCATATTGCATCAGAAAACAAGGCCTGGGGATCACACGAGCCTCTGTCGCAGTTGAGACCCAGAATCCCAAAGTGGCTCTGATCAAAATTGGCACCAGAGGAAGCCCACTAGCACTGGCTCAAGCTTATCAGACAAAAGACAAGCTCATTGCATCGCATCCCCAGCTAGCTGAAGAGGGGGCAATTGAAATCGTCATTATCAAAACTACTGGTGATAAAATACTAAGCCAACCCCTTGCAGACATAGGCGGGAAGGGACTGTTCACTAAGGAAATCGATGAAGCATTGATAAATGGTGATATTGACATTGCGGTACACTCAATGAAAGATGTACCTACTTATTTACCAGACAAGACAATTTTGCCTTGTAACCTTCCCCGTGAGGATGTTCGTGATTCATTTATATGCTTAACTGCATCGTCACTAGCAGAGCTGCCAGCTGGGAGTGTTATTGGTACTGCATCACTTAGAAGAAAGTCGCAGATACTCCATAGATATCCCTCCCTCAAAGTGGAGGAGAACTTTAGGGGTAATGTCCAGACTAGATTGAAAAAGCTTAATGAGAAGGTAGTCCAAGCTACCTTATTGGCGTTAGCTGGGCTCAAACGCCTAAATATGACAGAGAATGTAACTTCCATTCTCTCACTAGATGAAATGCTTCCCGCTGTTGCCCAAGGGGCAATTGGAATTGCCTGCCGTAGCAATGATGATAAAATGGCTGAGTACATAGATAAACTGAATCATGAAGAAACAAGACTAGCAGTTGCATGTGAGAGGGCATTTCTTTTGACCCTGGATGGGTCTTGCCGAACTCCTATTGCTGGATATGCCAGGAAAGATGCCGATGGTAACTGCATATTTAAAGGCTTGGTAGCTTCCCCTGATGGAACCCGCGTACTTGAGACGTCTAGGAAAGGCCCACACGCTTATGAAGAGATGATAGAGATGGGTAAGGATGCAGGGCAGGAACTTCTTAAACTGGCAGGTCCTGGTTTCTTTGGTTGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004418 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006778 GO:0006779 GO:0006783 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009451 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009607 GO:0009617 GO:0009941 GO:0009987 GO:0015994 GO:0015995 GO:0016070 GO:0016740 GO:0016765 GO:0018130 GO:0019438 GO:0031967 GO:0031975 GO:0033013 GO:0033014 GO:0034641 GO:0042168 GO:0042440 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046148 GO:0046483 GO:0048046 GO:0050896 GO:0051186 GO:0051188 GO:0051704 GO:0051707 GO:0071704 GO:0090304 GO:0098542 GO:1900865 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00860 ko01100 ko01110 ko01120 map00860 map01100 map01110 map01120

Pfam Domains

Protein Families

Porphobil_deam Porphobil_deamC

Protein Analysis

364

Amino Acids

39.2

Weight (kDa)

8.04

Isoelectric Point (pI)

31.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Porphobil_deam	PF01379	56 - 268	9e-79	Porphobilinogen deaminase, dipyromethane cofactor binding domain
Porphobil_deamC	PF03900	281 - 354	1.2e-14	Porphobilinogen deaminase, 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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004391)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08280
fragaria_vesca	FvH4_4g37020 FvH4_7g04700
malus_domestica	MD13G1004100.v1.1 MD16G1003400.v1.1
prunus_persica	Prupe.1G348400_v2.0.a1 Prupe.1G348400_v2.0.a1 Prupe.1G348400_v2.0.a1
pyrus_communis	pycom13g00340 pycom16g00240
rosa_chinensis	RchiOBHm_Chr1g0330101 RchiOBHm_Chr4g0446801
rosa_laevigata	RLG00000005629 RLG00000029832
rosa_multiflora	Rmu_co8512413.1_g000001 Rmu_sc0001753.1_g000022 Rmu_sc0004673.1_g000003
rosa_roxburghii	Rroxscaffold_4G00320380 Rroxscaffold_5G00387180
rosa_rugosa	Rorug01G0085800 Rorug01G0085900 Rorug04G0374900
rosa_samantha	Rh1AG104400 Rh1CG100000 Rh1DG107300 Rh1DG108400 Rh4AG436200 Rh4BG445300 Rh4CG462600 Rh4DG444000
rosa_wichuraiana	Rw0G015900 Rw4G037310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	992
Acc36I	ACCTGC	1 cut(s)	1058
AccB1I	GGYRCC	1 cut(s)	176
AccII	CGCG	1 cut(s)	978
AciI	CCGC	4 cut(s)	333, 395, 747, 976
AclWI	GGATC	1 cut(s)	122
AcuI	CTGAAG	1 cut(s)	276
AcyI	GRCGYC	1 cut(s)	989
AfaI	GTAC	5 cut(s)	399, 417, 541, 809, 981
AfiI	CCNNNNNNNGG	3 cut(s)	595, 882, 905
AgsI	TTSAA	2 cut(s)	272, 634
AjnI	CCWGG	4 cut(s)	108, 876, 914, 1072
Alw26I	GTCTC	3 cut(s)	43, 134, 980
AlwI	GGATC	1 cut(s)	122
AlwNI	CAGNNNCTG	1 cut(s)	1073
Ama87I	CYCGRG	1 cut(s)	75
AoxI	GGCC	2 cut(s)	106, 1000
ApeKI	GCWGC	1 cut(s)	517
Asp700I	GAANNNNTTC	1 cut(s)	741
AspS9I	GGNCC	3 cut(s)	33, 1001, 1070
AsuHPI	GGTGA	2 cut(s)	308, 392
AsuNHI	GCTAGC	1 cut(s)	250
AvaI	CYCGRG	1 cut(s)	75
AvaII	GGWCC	2 cut(s)	33, 1070
BanI	GGYRCC	1 cut(s)	176
BanII	GRGCYC	1 cut(s)	687
BauI	CACGAG	2 cut(s)	24, 120
BbvI	GCAGC	1 cut(s)	504
BccI	CCATC	5 cut(s)	70, 875, 923, 962, 1024
BceAI	ACGGC	1 cut(s)	765
BciT130I	CCWGG	4 cut(s)	110, 878, 916, 1074
BclI	TGATCA	1 cut(s)	165
BcoDI	GTCTC	3 cut(s)	43, 134, 980
BfaI	CTAG	8 cut(s)	15, 194, 251, 509, 627, 731, 842, 993
BfuAI	ACCTGC	1 cut(s)	1058
BglI	GCCNNNNNGGC	1 cut(s)	761
BisI	GCNGC	1 cut(s)	518
BlsI	GCNGC	1 cut(s)	519
Bme1390I	CCNGG	4 cut(s)	110, 878, 916, 1074
Bme18I	GGWCC	2 cut(s)	33, 1070
BmeT110I	CYCGRG	1 cut(s)	75
BmgT120I	GGNCC	3 cut(s)	33, 1001, 1070
BmiI	GGNNCC	3 cut(s)	34, 178, 973
BmrFI	CCNGG	4 cut(s)	110, 878, 916, 1074
BmsI	GCATC	7 cut(s)	102, 245, 250, 509, 554, 913, 1030
BmtI	GCTAGC	1 cut(s)	254
BpuEI	CTTGAG	3 cut(s)	53, 189, 1004
Bsa29I	ATCGAT	1 cut(s)	360
BsaHI	GRCGYC	1 cut(s)	989
BsaI	GGTCTC	1 cut(s)	134
BsaJI	CCNNGG	3 cut(s)	109, 757, 876
Bsc4I	CCNNNNNNNGG	3 cut(s)	595, 882, 905
Bse1I	ACTGG	3 cut(s)	204, 298, 1068
Bse3DI	GCAATG	3 cut(s)	231, 390, 793
BseBI	CCWGG	4 cut(s)	110, 878, 916, 1074
BseCI	ATCGAT	1 cut(s)	360
BseDI	CCNNGG	3 cut(s)	109, 757, 876
BseGI	GGATG	4 cut(s)	241, 475, 886, 1045
BseLI	CCNNNNNNNGG	3 cut(s)	595, 882, 905
BseMI	GCAATG	3 cut(s)	231, 390, 793
BseMII	CTCAG	1 cut(s)	795
BseNI	ACTGG	3 cut(s)	204, 298, 1068
BseRI	GAGGAG	1 cut(s)	614
BseXI	GCAGC	1 cut(s)	504
BseYI	CCCAGC	3 cut(s)	246, 524, 680
Bsh1236I	CGCG	1 cut(s)	978
BshFI	GGCC	2 cut(s)	108, 1002
BshNI	GGYRCC	1 cut(s)	176
BshVI	ATCGAT	1 cut(s)	360
BsiHKCI	CYCGRG	1 cut(s)	75
BslFI	GGGAC	1 cut(s)	354
BslI	CCNNNNNNNGG	3 cut(s)	595, 882, 905
BsmAI	GTCTC	3 cut(s)	43, 134, 980
BsmBI	CGTCTC	2 cut(s)	43, 980
BsmFI	GGGAC	1 cut(s)	354
BsnI	GGCC	2 cut(s)	108, 1002
Bso31I	GGTCTC	1 cut(s)	134
BsoBI	CYCGRG	1 cut(s)	75
Bsp1286I	GDGCHC	1 cut(s)	687
Bsp143I	GATC	2 cut(s)	114, 165
BspACI	CCGC	4 cut(s)	333, 395, 747, 976
BspANI	GGCC	2 cut(s)	108, 1002
BspCNI	CTCAG	1 cut(s)	796
BspDI	ATCGAT	1 cut(s)	360
BspFNI	CGCG	1 cut(s)	978
BspHI	TCATGA	1 cut(s)	826
BspLI	GGNNCC	3 cut(s)	34, 178, 973
BspMI	ACCTGC	1 cut(s)	1058
BspOI	GCTAGC	1 cut(s)	254
BspPI	GGATC	1 cut(s)	122
BspQI	GCTCTTC	1 cut(s)	15
BspT107I	GGYRCC	1 cut(s)	176
BspTNI	GGTCTC	1 cut(s)	134
BsrDI	GCAATG	3 cut(s)	231, 390, 793
BsrI	ACTGG	3 cut(s)	204, 298, 1068
BssECI	CCNNGG	3 cut(s)	109, 757, 876
BssMI	GATC	2 cut(s)	114, 165
BssNI	GRCGYC	1 cut(s)	989
BssSI	CACGAG	2 cut(s)	24, 120
BssT1I	CCWWGG	1 cut(s)	757
Bst2BI	CACGAG	2 cut(s)	24, 120
Bst2UI	CCWGG	4 cut(s)	110, 878, 916, 1074
Bst4CI	ACNGT	1 cut(s)	345
Bst6I	CTCTTC	3 cut(s)	15, 252, 1011
BstACI	GRCGYC	1 cut(s)	989
BstC8I	GCNNGC	3 cut(s)	252, 522, 778
BstDEI	CTNAG	4 cut(s)	308, 351, 551, 804
BstF5I	GGATG	4 cut(s)	241, 475, 886, 1045
BstFNI	CGCG	1 cut(s)	978
BstKTI	GATC	2 cut(s)	117, 168
BstMAI	GTCTC	3 cut(s)	43, 134, 980
BstMBI	GATC	2 cut(s)	114, 165
BstMWI	GCNNNNNNNGC	4 cut(s)	131, 247, 761, 911
BstNI	CCWGG	4 cut(s)	110, 878, 916, 1074
BstNSI	RCATGY	1 cut(s)	855
BstSCI	CCNGG	4 cut(s)	108, 876, 914, 1072
BstUI	CGCG	1 cut(s)	978
BstV1I	GCAGC	1 cut(s)	504
Bsu15I	ATCGAT	1 cut(s)	360
BsuRI	GGCC	2 cut(s)	108, 1002
BsuTUI	ATCGAT	1 cut(s)	360
BtgZI	GCGATG	2 cut(s)	48, 222
BtsCI	GGATG	4 cut(s)	241, 475, 886, 1045
BtsIMutI	CAGTG	1 cut(s)	197
BveI	ACCTGC	1 cut(s)	1058
Cac8I	GCNNGC	3 cut(s)	252, 522, 778
CaiI	CAGNNNCTG	1 cut(s)	1073
CciI	TCATGA	1 cut(s)	826
Cfr13I	GGNCC	3 cut(s)	33, 1001, 1070
ClaI	ATCGAT	1 cut(s)	360
Csp6I	GTAC	5 cut(s)	398, 416, 540, 808, 980
CviAII	CATG	2 cut(s)	827, 852
CviQI	GTAC	5 cut(s)	398, 416, 540, 808, 980
DdeI	CTNAG	4 cut(s)	308, 351, 551, 804
DpnI	GATC	2 cut(s)	116, 167
DpnII	GATC	2 cut(s)	114, 165
DraI	TTTAAA	1 cut(s)	946
Eam1104I	CTCTTC	3 cut(s)	15, 252, 1011
EarI	CTCTTC	3 cut(s)	15, 252, 1011
Eco130I	CCWWGG	1 cut(s)	757
Eco147I	AGGCCT	1 cut(s)	108
Eco24I	GRGCYC	1 cut(s)	687
Eco31I	GGTCTC	1 cut(s)	134
Eco32I	GATATC	1 cut(s)	581
Eco47I	GGWCC	2 cut(s)	33, 1070
Eco57I	CTGAAG	1 cut(s)	276
Eco88I	CYCGRG	1 cut(s)	75
EcoO109I	RGGNCCY	1 cut(s)	1070
EcoRII	CCWGG	4 cut(s)	108, 876, 914, 1072
EcoRV	GATATC	1 cut(s)	581
EcoT14I	CCWWGG	1 cut(s)	757
EcoT38I	GRGCYC	1 cut(s)	687
ErhI	CCWWGG	1 cut(s)	757
Esp3I	CGTCTC	2 cut(s)	43, 980
FaeI	CATG	2 cut(s)	830, 855
FaqI	GGGAC	1 cut(s)	354
FatI	CATG	2 cut(s)	826, 851
FauI	CCCGC	3 cut(s)	326, 754, 983
FbaI	TGATCA	1 cut(s)	165
Fnu4HI	GCNGC	1 cut(s)	518
FokI	GGATG	4 cut(s)	228, 482, 893, 1052
FriOI	GRGCYC	1 cut(s)	687
Fsp4HI	GCNGC	1 cut(s)	518
FspBI	CTAG	8 cut(s)	15, 194, 251, 509, 627, 731, 842, 993
GluI	GCNGC	1 cut(s)	518
GsaI	CCCAGC	3 cut(s)	250, 528, 684
HaeIII	GGCC	2 cut(s)	108, 1002
Hin1I	GRCGYC	1 cut(s)	989
Hin1II	CATG	2 cut(s)	830, 855
HincII	GTYRAC	1 cut(s)	49
HindII	GTYRAC	1 cut(s)	49
HindIII	AAGCTT	2 cut(s)	207, 638
HinfI	GANTC	4 cut(s)	73, 148, 479, 823
HphI	GGTGA	2 cut(s)	308, 392
Hpy166II	GTNNAC	3 cut(s)	49, 348, 400
Hpy188I	TCNGA	3 cut(s)	98, 165, 216
Hpy188III	TCNNGA	4 cut(s)	70, 476, 622, 827
Hpy8I	GTNNAC	3 cut(s)	49, 348, 400
HpyAV	CCTTC	3 cut(s)	331, 467, 643
HpyCH4III	ACNGT	1 cut(s)	345
HpyCH4IV	ACGT	1 cut(s)	989
HpyCH4V	TGCA	9 cut(s)	23, 93, 236, 323, 500, 545, 851, 939, 1043
HpyF10VI	GCNNNNNNNGC	4 cut(s)	131, 247, 761, 911
HpyF3I	CTNAG	4 cut(s)	308, 351, 551, 804
HpySE526I	ACGT	1 cut(s)	989
Hsp92I	GRCGYC	1 cut(s)	989
Hsp92II	CATG	2 cut(s)	830, 855
Ksp22I	TGATCA	1 cut(s)	165
Kzo9I	GATC	2 cut(s)	114, 165
LguI	GCTCTTC	1 cut(s)	15
Lsp1109I	GCAGC	1 cut(s)	504
LweI	GCATC	7 cut(s)	102, 245, 250, 509, 554, 913, 1030
MaeI	CTAG	8 cut(s)	15, 194, 251, 509, 627, 731, 842, 993
MaeII	ACGT	1 cut(s)	989
MaeIII	GTNAC	4 cut(s)	452, 504, 712, 932
MalI	GATC	2 cut(s)	116, 167
MboI	GATC	2 cut(s)	114, 165
MboII	GAAGA	4 cut(s)	269, 567, 842, 1028
MfeI	CAATTG	2 cut(s)	267, 765
MhlI	GDGCHC	1 cut(s)	687
MluCI	AATT	5 cut(s)	171, 267, 441, 765, 771
MlyI	GAGTC	1 cut(s)	67
MnlI	CCTC	8 cut(s)	136, 176, 253, 460, 592, 595, 599, 852
MroXI	GAANNNNTTC	1 cut(s)	741
MseI	TTAA	5 cut(s)	494, 642, 945, 1059, 1090
MslI	CAYNNNNRTG	2 cut(s)	487, 1011
MspA1I	CMGCKG	2 cut(s)	524, 749
MspR9I	CCNGG	4 cut(s)	110, 878, 916, 1074
MunI	CAATTG	2 cut(s)	267, 765
MvaI	CCWGG	4 cut(s)	110, 878, 916, 1074
MvnI	CGCG	1 cut(s)	978
MwoI	GCNNNNNNNGC	4 cut(s)	131, 247, 761, 911
NdeII	GATC	2 cut(s)	114, 165
NheI	GCTAGC	1 cut(s)	250
NlaIII	CATG	2 cut(s)	830, 855
NlaIV	GGNNCC	3 cut(s)	34, 178, 973
NmuCI	GTSAC	1 cut(s)	504
NspI	RCATGY	1 cut(s)	855
PaeR7I	CTCGAG	1 cut(s)	75
PagI	TCATGA	1 cut(s)	826
PceI	AGGCCT	1 cut(s)	108
PciSI	GCTCTTC	1 cut(s)	15
PdmI	GAANNNNTTC	1 cut(s)	741
PfeI	GAWTC	3 cut(s)	148, 479, 823
PkrI	GCNGC	1 cut(s)	519
PleI	GAGTC	1 cut(s)	67
PpsI	GAGTC	1 cut(s)	67
PpuMI	RGGWCCY	1 cut(s)	1070
Psp5II	RGGWCCY	1 cut(s)	1070
Psp6I	CCWGG	4 cut(s)	108, 876, 914, 1072
PspFI	CCCAGC	3 cut(s)	246, 524, 680
PspGI	CCWGG	4 cut(s)	108, 876, 914, 1072
PspN4I	GGNNCC	3 cut(s)	34, 178, 973
PspPI	GGNCC	3 cut(s)	33, 1001, 1070
PspPPI	RGGWCCY	1 cut(s)	1070
PspXI	VCTCGAGB	1 cut(s)	75
PstNI	CAGNNNCTG	1 cut(s)	1073
PvuII	CAGCTG	1 cut(s)	524
RsaI	GTAC	5 cut(s)	399, 417, 541, 809, 981
RsaNI	GTAC	5 cut(s)	398, 416, 540, 808, 980
RseI	CAYNNNNRTG	2 cut(s)	487, 1011
SapI	GCTCTTC	1 cut(s)	15
SaqAI	TTAA	5 cut(s)	494, 642, 945, 1059, 1090
SatI	GCNGC	1 cut(s)	518
Sau3AI	GATC	2 cut(s)	114, 165
Sau96I	GGNCC	3 cut(s)	33, 1001, 1070
SchI	GAGTC	1 cut(s)	67
ScrFI	CCNGG	4 cut(s)	110, 878, 916, 1074
SduI	GDGCHC	1 cut(s)	687
SfaNI	GCATC	7 cut(s)	102, 245, 250, 509, 554, 913, 1030
Sfr274I	CTCGAG	1 cut(s)	75
SinI	GGWCC	2 cut(s)	33, 1070
SlaI	CTCGAG	1 cut(s)	75
SmiMI	CAYNNNNRTG	2 cut(s)	487, 1011
SmlI	CTYRAG	4 cut(s)	68, 75, 204, 983
SmoI	CTYRAG	4 cut(s)	68, 75, 204, 983
Sse9I	AATT	5 cut(s)	171, 267, 441, 765, 771
SseBI	AGGCCT	1 cut(s)	108
SsiI	CCGC	4 cut(s)	333, 395, 747, 976
SspMI	CTAG	8 cut(s)	15, 194, 251, 509, 627, 731, 842, 993
StuI	AGGCCT	1 cut(s)	108
StyD4I	CCNGG	4 cut(s)	108, 876, 914, 1072
StyI	CCWWGG	1 cut(s)	757
TaaI	ACNGT	1 cut(s)	345
TaiI	ACGT	1 cut(s)	992
TaqI	TCGA	2 cut(s)	76, 360
TasI	AATT	5 cut(s)	171, 267, 441, 765, 771
TatI	WGTACW	1 cut(s)	807
TfiI	GAWTC	3 cut(s)	148, 479, 823
Tru1I	TTAA	5 cut(s)	494, 642, 945, 1059, 1090
Tru9I	TTAA	5 cut(s)	494, 642, 945, 1059, 1090
TscAI	CASTG	1 cut(s)	204
TseFI	GTSAC	1 cut(s)	504
TseI	GCWGC	1 cut(s)	517
Tsp45I	GTSAC	1 cut(s)	504
TspDTI	ATGAA	6 cut(s)	378, 422, 471, 750, 843, 1029
TspGWI	ACGGA	1 cut(s)	25
TspRI	CASTG	1 cut(s)	204
VpaK11BI	GGWCC	2 cut(s)	33, 1070
XceI	RCATGY	1 cut(s)	855
XcmI	CCANNNNNNNNNTGG	1 cut(s)	764
XhoI	CTCGAG	1 cut(s)	75
XmnI	GAANNNNTTC	1 cut(s)	741
XspI	CTAG	8 cut(s)	15, 194, 251, 509, 627, 731, 842, 993
ZraI	GACGTC	1 cut(s)	990

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