Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0007125

Physical Location & Seq

Genomic Coordinates Forward (+)

24656038 .. 24659333

Gene Structure 3296 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG218900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1287 bp

ATGGTTGTCTGTTTGCTTCTCTCTGGCAAAATTATCATAATATCCCAAATGGGTTTATCTGCTCCAGCCAGTGTGTGCAGCTCTCTGGGATGGAAGTCTTCCAGCTTGTGCCTACAGCTAGGGGCCCCTACTCATCTCACTGCATTTTCGGTTTCTTCTACAACAAAATGTCCCCAAAAGAAAGCTTCTCTAACTTGCTCTTCTTCCTCTTCCTCGTCTGATCCACTCTTGGTTAAGGCTGCAAGAGGAGATCCTGTAAGTCGACCTCCAGCATGGATGATGCGCCAAGCAGGAAGGTATATGGCTGTTTACAGAAAGCTTGCTGAGAAATACCCATCGTTCAGAGAGAGGTCAGAGACAACTGATCTCATCGTGGAAATTTCTTTGCAGCCTTGGGAAGCTTTCCGCCCTGATGGAGTGATTATATTCTCAGACATACTTACACCTCTACCTGCATTTGGTGTCCCATTTGACATAGAAGATGTTAGAGGTCCCGTGATACAGTCACCAATTACTTCTGAAGAGGGCTTGAAGACTTTGCATCCAATTGACTTGGAGAAACTTCACTTTGTGGGAGAATCTTTAAAGATATTACGGCGGGAGGTTGGTGCAAATGCTGCTGTTTTGGGTTTTGTAGGGGCGCCTTGGACAATCGCTACGTATATAGTAGAAGGGGGTTCAACTTCCACATATACAACCATAAAGAGCATGTGCCATACAGCACCGCATGTATTGAGGGCTCTGCTTTCTCATTTAACACAGGCAATAGCAGACTATATTGTTTTCCAAGTAGACGCAGGGGCTCATTGCATACAAATATTTGATTCATGGGGTGGGCAATTACCACCAGCCATGTGGGAAAGCTGGTCAAAGCCTTATATTGAAGAGATTGTGAGTTCTGTGCGAAAAAGATGCCCAGAAACACCACTTGTTCTCTACATTAATGGGAATGGTGGCCTCCTTGAGCGGATGAAAGGAACTGGTGTCGATGTGATTGGGCTTGACTGGACGGTGGACATGGCAGATGGTAGAAAACGATTGGGTAGTGGAATCAGTGTACAGGGAAATGTGGACCCTGCTTACTTATTTTCTCCTCTTCCGACATTGACTGAAGAAATTCAAAGGGTGGTGAGGTCTGCAGGGCCAAGAGGACACATCCTCAATCTAGGGCATGGTGTTCTTCAACGGACGCCCGAAGAAGCTGTTAAACATTTCTTTGAAGTGGCAAGAAGCTTGAACTATGATACGTTTCTTCAAAAACAACCGCAAAAGGAATTGGTAGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004853 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006725 GO:0006778 GO:0006779 GO:0006783 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0010035 GO:0010038 GO:0016829 GO:0016830 GO:0016831 GO:0018130 GO:0019438 GO:0033013 GO:0033014 GO:0034641 GO:0042168 GO:0042221 GO:0042440 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046148 GO:0046483 GO:0046686 GO:0050896 GO:0051186 GO:0051188 GO:0071704 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00860 ko01100 ko01110 map00860 map01100 map01110

Pfam Domains

Protein Families

URO-D

Protein Analysis

428

Amino Acids

46.71

Weight (kDa)

7.62

Isoelectric Point (pI)

48.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
URO-D	PF01208	75 - 411	1.9e-116	Uroporphyrinogen decarboxylase (URO-D)

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: OG0007125)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14930 AT3G14930 AT3G14930
fragaria_vesca	FvH4_3g18330 FvH4_3g18330 FvH4_3g18330 FvH4_3g18330 FvH4_3g18330
malus_domestica	MD03G1242800.v1.1 MD11G1263300.v1.1
prunus_persica	Prupe.4G165200_v2.0.a1 Prupe.4G165200_v2.0.a1 Prupe.4G165200_v2.0.a1
pyrus_communis	pycom03g18990 pycom11g23190
rosa_chinensis	RchiOBHm_Chr5g0030981
rosa_laevigata	RLG00000033278
rosa_multiflora	Rmu_sc0001974.1_g000002
rosa_roxburghii	Rroxscaffold_1G00049270
rosa_rugosa	Rorug05G0122000
rosa_samantha	Rh5AG215300 Rh5BG214300 Rh5CG238200 Rh5DG218900
rosa_wichuraiana	Rw5G019690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	460
AccB1I	GGYRCC	1 cut(s)	640
AccBSI	CCGCTC	1 cut(s)	967
AccI	GTMKAC	2 cut(s)	262, 792
AciI	CCGC	5 cut(s)	406, 598, 725, 967, 1265
AclWI	GGATC	2 cut(s)	215, 245
AcsI	RAATTY	2 cut(s)	378, 1116
AcuI	CTGAAG	2 cut(s)	540, 1131
AcyI	GRCGYC	2 cut(s)	641, 1190
AdeI	CACNNNGTG	1 cut(s)	571
AfaI	GTAC	1 cut(s)	1059
AfiI	CCNNNNNNNGG	1 cut(s)	458
AgsI	TTSAA	8 cut(s)	532, 681, 884, 1121, 1184, 1220, 1237, 1256
Alw26I	GTCTC	1 cut(s)	350
AlwI	GGATC	2 cut(s)	215, 245
AoxI	GGCC	3 cut(s)	123, 955, 1142
ApaI	GGGCCC	1 cut(s)	127
ApeKI	GCWGC	4 cut(s)	78, 239, 388, 617
ApoI	RAATTY	2 cut(s)	378, 1116
AseI	ATTAAT	1 cut(s)	942
Asp700I	GAANNNNTTC	1 cut(s)	1116
AspLEI	GCGC	2 cut(s)	285, 643
AspS9I	GGNCC	5 cut(s)	123, 124, 491, 1072, 1142
AsuHPI	GGTGA	2 cut(s)	498, 1141
AvaII	GGWCC	2 cut(s)	491, 1072
BaeGI	GKGCMC	1 cut(s)	127
BanI	GGYRCC	1 cut(s)	640
BanII	GRGCYC	3 cut(s)	127, 742, 805
BbsI	GAAGAC	2 cut(s)	90, 539
BbvI	GCAGC	4 cut(s)	90, 226, 400, 604
BccI	CCATC	4 cut(s)	84, 343, 407, 1019
BceAI	ACGGC	1 cut(s)	611
BcgI	CGANNNNNNTGC	2 cut(s)	894, 928
BcoDI	GTCTC	1 cut(s)	350
BfaI	CTAG	2 cut(s)	119, 1166
BfmI	CTRYAG	2 cut(s)	113, 1137
BfoI	RGCGCY	1 cut(s)	644
BfuAI	ACCTGC	1 cut(s)	460
BisI	GCNGC	4 cut(s)	79, 240, 389, 618
BlsI	GCNGC	4 cut(s)	80, 241, 390, 619
Bme18I	GGWCC	2 cut(s)	491, 1072
BmgT120I	GGNCC	5 cut(s)	123, 124, 491, 1072, 1142
BmiI	GGNNCC	6 cut(s)	124, 125, 126, 493, 642, 1074
BmsI	GCATC	3 cut(s)	270, 550, 902
BpiI	GAAGAC	2 cut(s)	90, 539
BpmI	CTGGAG	2 cut(s)	48, 252
BpuEI	CTTGAG	1 cut(s)	983
BsaAI	YACGTR	1 cut(s)	660
BsaHI	GRCGYC	2 cut(s)	641, 1190
BsaJI	CCNNGG	2 cut(s)	392, 644
BsaXI	ACNNNNNCTCC	2 cut(s)	240, 270
Bsc4I	CCNNNNNNNGG	1 cut(s)	458
Bse1I	ACTGG	3 cut(s)	69, 985, 1010
Bse3DI	GCAATG	1 cut(s)	805
BseDI	CCNNGG	2 cut(s)	392, 644
BseGI	GGATG	5 cut(s)	95, 282, 541, 975, 1155
BseLI	CCNNNNNNNGG	1 cut(s)	458
BseMI	GCAATG	1 cut(s)	805
BseMII	CTCAG	2 cut(s)	315, 444
BseNI	ACTGG	3 cut(s)	69, 985, 1010
BseRI	GAGGAG	2 cut(s)	261, 1083
BseSI	GKGCMC	1 cut(s)	127
BseXI	GCAGC	4 cut(s)	90, 226, 400, 604
BsgI	GTGCAG	1 cut(s)	97
BshFI	GGCC	3 cut(s)	125, 957, 1144
BshNI	GGYRCC	1 cut(s)	640
BslFI	GGGAC	3 cut(s)	156, 449, 477
BslI	CCNNNNNNNGG	1 cut(s)	458
BsmAI	GTCTC	1 cut(s)	350
BsmFI	GGGAC	3 cut(s)	156, 449, 477
BsnI	GGCC	3 cut(s)	125, 957, 1144
Bsp120I	GGGCCC	1 cut(s)	123
Bsp1286I	GDGCHC	3 cut(s)	127, 742, 805
Bsp1407I	TGTACA	1 cut(s)	1057
Bsp143I	GATC	3 cut(s)	220, 250, 364
BspACI	CCGC	5 cut(s)	406, 598, 725, 967, 1265
BspANI	GGCC	3 cut(s)	125, 957, 1144
BspCNI	CTCAG	2 cut(s)	316, 443
BspLI	GGNNCC	6 cut(s)	124, 125, 126, 493, 642, 1074
BspMAI	CTGCAG	1 cut(s)	1141
BspMI	ACCTGC	1 cut(s)	460
BspPI	GGATC	2 cut(s)	215, 245
BspQI	GCTCTTC	1 cut(s)	205
BspT107I	GGYRCC	1 cut(s)	640
BsrBI	CCGCTC	1 cut(s)	967
BsrDI	GCAATG	1 cut(s)	805
BsrGI	TGTACA	1 cut(s)	1057
BsrI	ACTGG	3 cut(s)	69, 985, 1010
BssECI	CCNNGG	2 cut(s)	392, 644
BssMI	GATC	3 cut(s)	220, 250, 364
BssNI	GRCGYC	2 cut(s)	641, 1190
BssT1I	CCWWGG	2 cut(s)	392, 644
Bst4CI	ACNGT	2 cut(s)	504, 1012
Bst6I	CTCTTC	5 cut(s)	205, 214, 516, 879, 1101
BstACI	GRCGYC	2 cut(s)	641, 1190
BstAPI	GCANNNNNTGC	1 cut(s)	617
BstAUI	TGTACA	1 cut(s)	1057
BstBAI	YACGTR	1 cut(s)	660
BstC8I	GCNNGC	1 cut(s)	321
BstDEI	CTNAG	3 cut(s)	324, 430, 1284
BstF5I	GGATG	5 cut(s)	95, 282, 541, 975, 1155
BstH2I	RGCGCY	1 cut(s)	644
BstHHI	GCGC	2 cut(s)	285, 643
BstKTI	GATC	3 cut(s)	223, 253, 367
BstMAI	GTCTC	1 cut(s)	350
BstMBI	GATC	3 cut(s)	220, 250, 364
BstMWI	GCNNNNNNNGC	1 cut(s)	617
BstNSI	RCATGY	2 cut(s)	712, 731
BstSFI	CTRYAG	2 cut(s)	113, 1137
BstSLI	GKGCMC	1 cut(s)	127
BstSNI	TACGTA	1 cut(s)	660
BstV1I	GCAGC	4 cut(s)	90, 226, 400, 604
BstV2I	GAAGAC	2 cut(s)	90, 539
BstX2I	RGATCY	1 cut(s)	250
BstXI	CCANNNNNNTGG	1 cut(s)	855
BstYI	RGATCY	1 cut(s)	250
BsuRI	GGCC	3 cut(s)	125, 957, 1144
BtsCI	GGATG	5 cut(s)	95, 282, 541, 975, 1155
BtsI	GCAGTG	1 cut(s)	138
BtsIMutI	CAGTG	3 cut(s)	76, 138, 1060
BveI	ACCTGC	1 cut(s)	460
Cac8I	GCNNGC	1 cut(s)	321
CfoI	GCGC	2 cut(s)	285, 643
Cfr13I	GGNCC	5 cut(s)	123, 124, 491, 1072, 1142
CseI	GACGC	2 cut(s)	803, 1198
Csp6I	GTAC	1 cut(s)	1058
CviAII	CATG	7 cut(s)	273, 709, 728, 828, 853, 1018, 1172
CviQI	GTAC	1 cut(s)	1058
DdeI	CTNAG	3 cut(s)	324, 430, 1284
DinI	GGCGCC	1 cut(s)	642
DpnI	GATC	3 cut(s)	222, 252, 366
DpnII	GATC	3 cut(s)	220, 250, 364
DraI	TTTAAA	1 cut(s)	585
DraIII	CACNNNGTG	1 cut(s)	571
Eam1104I	CTCTTC	5 cut(s)	205, 214, 516, 879, 1101
EarI	CTCTTC	5 cut(s)	205, 214, 516, 879, 1101
EciI	GGCGGA	1 cut(s)	395
Eco105I	TACGTA	1 cut(s)	660
Eco130I	CCWWGG	2 cut(s)	392, 644
Eco24I	GRGCYC	3 cut(s)	127, 742, 805
Eco47I	GGWCC	2 cut(s)	491, 1072
Eco57I	CTGAAG	2 cut(s)	540, 1131
EcoO109I	RGGNCCY	3 cut(s)	123, 124, 491
EcoT14I	CCWWGG	2 cut(s)	392, 644
EcoT38I	GRGCYC	3 cut(s)	127, 742, 805
EgeI	GGCGCC	1 cut(s)	642
EheI	GGCGCC	1 cut(s)	642
ErhI	CCWWGG	2 cut(s)	392, 644
FaeI	CATG	7 cut(s)	276, 712, 731, 831, 856, 1021, 1175
FaqI	GGGAC	3 cut(s)	156, 449, 477
FatI	CATG	7 cut(s)	272, 708, 727, 827, 852, 1017, 1171
FauI	CCCGC	1 cut(s)	591
FblI	GTMKAC	2 cut(s)	262, 792
Fnu4HI	GCNGC	4 cut(s)	79, 240, 389, 618
FokI	GGATG	5 cut(s)	102, 289, 528, 982, 1142
FriOI	GRGCYC	3 cut(s)	127, 742, 805
Fsp4HI	GCNGC	4 cut(s)	79, 240, 389, 618
FspBI	CTAG	2 cut(s)	119, 1166
GlaI	GCGC	2 cut(s)	284, 642
GluI	GCNGC	4 cut(s)	79, 240, 389, 618
GsuI	CTGGAG	2 cut(s)	48, 252
HaeII	RGCGCY	1 cut(s)	644
HaeIII	GGCC	3 cut(s)	125, 957, 1144
HgaI	GACGC	2 cut(s)	803, 1198
HhaI	GCGC	2 cut(s)	285, 643
Hin1I	GRCGYC	2 cut(s)	641, 1190
Hin1II	CATG	7 cut(s)	276, 712, 731, 831, 856, 1021, 1175
Hin6I	GCGC	2 cut(s)	283, 641
HinP1I	GCGC	2 cut(s)	283, 641
HincII	GTYRAC	1 cut(s)	263
HindII	GTYRAC	1 cut(s)	263
HindIII	AAGCTT	4 cut(s)	183, 317, 399, 1231
HinfI	GANTC	3 cut(s)	578, 824, 1050
HphI	GGTGA	2 cut(s)	498, 1141
Hpy166II	GTNNAC	6 cut(s)	263, 310, 793, 1015, 1058, 1072
Hpy188I	TCNGA	6 cut(s)	220, 344, 355, 433, 520, 1101
Hpy8I	GTNNAC	6 cut(s)	263, 310, 793, 1015, 1058, 1072
HpyAV	CCTTC	2 cut(s)	288, 665
HpyCH4III	ACNGT	2 cut(s)	504, 1012
HpyCH4IV	ACGT	2 cut(s)	659, 1247
HpyCH4V	TGCA	9 cut(s)	78, 143, 242, 388, 455, 541, 611, 810, 1139
HpyF10VI	GCNNNNNNNGC	1 cut(s)	617
HpyF3I	CTNAG	3 cut(s)	324, 430, 1284
HpySE526I	ACGT	2 cut(s)	659, 1247
Hsp92I	GRCGYC	2 cut(s)	641, 1190
Hsp92II	CATG	7 cut(s)	276, 712, 731, 831, 856, 1021, 1175
HspAI	GCGC	2 cut(s)	283, 641
KasI	GGCGCC	1 cut(s)	640
Kzo9I	GATC	3 cut(s)	220, 250, 364
LguI	GCTCTTC	1 cut(s)	205
LmnI	GCTCC	1 cut(s)	67
Lsp1109I	GCAGC	4 cut(s)	90, 226, 400, 604
LweI	GCATC	3 cut(s)	270, 550, 902
MaeI	CTAG	2 cut(s)	119, 1166
MaeII	ACGT	2 cut(s)	659, 1247
MaeIII	GTNAC	1 cut(s)	504
MalI	GATC	3 cut(s)	222, 252, 366
MbiI	CCGCTC	1 cut(s)	967
MboI	GATC	3 cut(s)	220, 250, 364
MfeI	CAATTG	1 cut(s)	546
MflI	RGATCY	1 cut(s)	250
MhlI	GDGCHC	3 cut(s)	127, 742, 805
MluCI	AATT	7 cut(s)	30, 378, 510, 546, 839, 1116, 1274
Mly113I	GGCGCC	1 cut(s)	641
MmeI	TCCRAC	1 cut(s)	1124
MroXI	GAANNNNTTC	1 cut(s)	1116
MseI	TTAA	5 cut(s)	234, 584, 755, 942, 1206
MunI	CAATTG	1 cut(s)	546
MwoI	GCNNNNNNNGC	1 cut(s)	617
NarI	GGCGCC	1 cut(s)	641
NdeII	GATC	3 cut(s)	220, 250, 364
NlaIII	CATG	7 cut(s)	276, 712, 731, 831, 856, 1021, 1175
NlaIV	GGNNCC	6 cut(s)	124, 125, 126, 493, 642, 1074
NmuCI	GTSAC	1 cut(s)	504
NspI	RCATGY	2 cut(s)	712, 731
PciSI	GCTCTTC	1 cut(s)	205
PdmI	GAANNNNTTC	1 cut(s)	1116
PfeI	GAWTC	3 cut(s)	578, 824, 1050
PkrI	GCNGC	4 cut(s)	80, 241, 390, 619
PluTI	GGCGCC	1 cut(s)	644
Ppu21I	YACGTR	1 cut(s)	660
PpuMI	RGGWCCY	1 cut(s)	491
PshBI	ATTAAT	1 cut(s)	942
Psp5II	RGGWCCY	1 cut(s)	491
PspN4I	GGNNCC	6 cut(s)	124, 125, 126, 493, 642, 1074
PspOMI	GGGCCC	1 cut(s)	123
PspPI	GGNCC	5 cut(s)	123, 124, 491, 1072, 1142
PspPPI	RGGWCCY	1 cut(s)	491
PstI	CTGCAG	1 cut(s)	1141
PsuI	RGATCY	1 cut(s)	250
RsaI	GTAC	1 cut(s)	1059
RsaNI	GTAC	1 cut(s)	1058
SalI	GTCGAC	1 cut(s)	261
SapI	GCTCTTC	1 cut(s)	205
SaqAI	TTAA	5 cut(s)	234, 584, 755, 942, 1206
SatI	GCNGC	4 cut(s)	79, 240, 389, 618
Sau3AI	GATC	3 cut(s)	220, 250, 364
Sau96I	GGNCC	5 cut(s)	123, 124, 491, 1072, 1142
SduI	GDGCHC	3 cut(s)	127, 742, 805
SfaNI	GCATC	3 cut(s)	270, 550, 902
SfcI	CTRYAG	2 cut(s)	113, 1137
SfoI	GGCGCC	1 cut(s)	642
SinI	GGWCC	2 cut(s)	491, 1072
SmlI	CTYRAG	1 cut(s)	962
SmoI	CTYRAG	1 cut(s)	962
SnaBI	TACGTA	1 cut(s)	660
Sse9I	AATT	7 cut(s)	30, 378, 510, 546, 839, 1116, 1274
SsiI	CCGC	5 cut(s)	406, 598, 725, 967, 1265
SspDI	GGCGCC	1 cut(s)	640
SspI	AATATT	1 cut(s)	819
SspMI	CTAG	2 cut(s)	119, 1166
StyI	CCWWGG	2 cut(s)	392, 644
TaaI	ACNGT	2 cut(s)	504, 1012
TaiI	ACGT	2 cut(s)	662, 1250
TaqI	TCGA	2 cut(s)	262, 987
TasI	AATT	7 cut(s)	30, 378, 510, 546, 839, 1116, 1274
TatI	WGTACW	1 cut(s)	1057
TfiI	GAWTC	3 cut(s)	578, 824, 1050
Tru1I	TTAA	5 cut(s)	234, 584, 755, 942, 1206
Tru9I	TTAA	5 cut(s)	234, 584, 755, 942, 1206
TscAI	CASTG	3 cut(s)	76, 145, 1060
TseFI	GTSAC	1 cut(s)	504
TseI	GCWGC	4 cut(s)	78, 239, 388, 617
Tsp45I	GTSAC	1 cut(s)	504
TspDTI	ATGAA	2 cut(s)	816, 986
TspGWI	ACGGA	1 cut(s)	1201
TspRI	CASTG	3 cut(s)	76, 145, 1060
VpaK11BI	GGWCC	2 cut(s)	491, 1072
VspI	ATTAAT	1 cut(s)	942
XapI	RAATTY	2 cut(s)	378, 1116
XceI	RCATGY	2 cut(s)	712, 731
XcmI	CCANNNNNNNNNTGG	1 cut(s)	852
XmiI	GTMKAC	2 cut(s)	262, 792
XmnI	GAANNNNTTC	1 cut(s)	1116
XspI	CTAG	2 cut(s)	119, 1166

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