Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0007125

Physical Location & Seq

Genomic Coordinates Forward (+)

24693122 .. 24697261

Gene Structure 4140 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG238200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGATGCGCCAAGCAGGAAGGTATATGGCTGTTTACAGAAAGCTTGCTGAGAAATACCCATCGTTCAGAGAGAGGTCAGAGACAACTGATCTCATCGTGGAAATTTCTTTGCAGCCTTGGGAAGCTTTCCGCCCTGATGGAGTGATTATATTCTCTGACATACTTACACCTCTACCTGCATTTGGTGTCCCATTTGACATAGAAGATGTTAGAGGTCCCATGATACAGTCACCAATTACTTCTGAAGAGGGCTTGAAGACTTTGCATCCAATTGACTTGGAGAAACTTCACTTTGTGGGAGAATCTTTAAAGATATTACGGCGGGAGGTTGGTGCAAATGCTGCTGTTTTGGGTTTTGTAGGGGCGCCTTGGACAATCGCTACATATATAGTAGAAGGGGGTTCAACTTCCACATATACAACCATAAAGAGCATGTGCCATACAGCACCGCATGTATTGAGGGCTCTGCTTTCTCATTTAACACAGGCAATAGCAGACTATATTGTTTTCCAAGTAGACGCAGGGGCTCATTGCATACAAATATTTGATTCATGGGGTGGGCAATTACCACCAGCCATGTGGGAAAGCTGGTCAAAGCCTTATATTGAAGAGATTGTGAGTTCTGTGCGAAAAAGATGCCCAGAAACACCACTTGTTCTCTACATTAATGGGAATGGTGGCCTCCTTGAGCGGATGAAAGGAACTGGTGTCGATGTGATTGGGCTTGACTGGACGGTGGACATGGCAGATGGTAGAAACCGATTGGGTAGTGGAATCAGTGTACAGGGAAATGTGGACCCTGCTTACTTATTTTCTCCTCTTCCGACATTGACTGAAGAAATTCAAAGGTTGGTTATGGAAAGATTTCTGAACTCTGATCTTCCTTACTATGAACTCCAATTGTTTTGGATCATTAATAGGGAATCACCTAATTTAGATTATTGGATTTCTCTGACTACTTACTCTGGAACCAAAAGTTGA

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

326

Amino Acids

36.56

Weight (kDa)

5.16

Isoelectric Point (pI)

37.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
URO-D	PF01208	1 - 286	3.1e-94	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)	184
AccB1I	GGYRCC	1 cut(s)	364
AccBSI	CCGCTC	1 cut(s)	691
AccI	GTMKAC	1 cut(s)	516
AciI	CCGC	4 cut(s)	130, 322, 449, 691
AclWI	GGATC	1 cut(s)	917
AcsI	RAATTY	2 cut(s)	102, 840
AcuI	CTGAAG	2 cut(s)	264, 855
AcyI	GRCGYC	1 cut(s)	365
AdeI	CACNNNGTG	1 cut(s)	295
AfaI	GTAC	1 cut(s)	783
AfiI	CCNNNNNNNGG	1 cut(s)	182
AgsI	TTSAA	4 cut(s)	256, 405, 608, 845
AluBI	AGCT	3 cut(s)	43, 125, 588
AluI	AGCT	3 cut(s)	43, 125, 588
Alw26I	GTCTC	1 cut(s)	74
AlwI	GGATC	1 cut(s)	917
AoxI	GGCC	1 cut(s)	679
ApeKI	GCWGC	2 cut(s)	112, 341
ApoI	RAATTY	2 cut(s)	102, 840
AseI	ATTAAT	2 cut(s)	666, 915
Asp700I	GAANNNNTTC	2 cut(s)	840, 864
AspLEI	GCGC	2 cut(s)	9, 367
AspS9I	GGNCC	2 cut(s)	215, 796
AsuHPI	GGTGA	2 cut(s)	222, 918
AvaII	GGWCC	2 cut(s)	215, 796
BanI	GGYRCC	1 cut(s)	364
BanII	GRGCYC	2 cut(s)	466, 529
BbsI	GAAGAC	1 cut(s)	263
BbvI	GCAGC	2 cut(s)	124, 328
BccI	CCATC	3 cut(s)	67, 131, 743
BceAI	ACGGC	1 cut(s)	335
BcgI	CGANNNNNNTGC	2 cut(s)	618, 652
BcoDI	GTCTC	1 cut(s)	74
BfoI	RGCGCY	1 cut(s)	368
BfuAI	ACCTGC	1 cut(s)	184
BisI	GCNGC	2 cut(s)	113, 342
BlsI	GCNGC	2 cut(s)	114, 343
Bme18I	GGWCC	2 cut(s)	215, 796
BmgT120I	GGNCC	2 cut(s)	215, 796
BmiI	GGNNCC	4 cut(s)	217, 366, 798, 970
BmsI	GCATC	2 cut(s)	274, 626
BpiI	GAAGAC	1 cut(s)	263
BpuEI	CTTGAG	1 cut(s)	707
BsaHI	GRCGYC	1 cut(s)	365
BsaJI	CCNNGG	2 cut(s)	116, 368
Bsc4I	CCNNNNNNNGG	1 cut(s)	182
Bse1I	ACTGG	2 cut(s)	709, 734
Bse3DI	GCAATG	1 cut(s)	529
BseDI	CCNNGG	2 cut(s)	116, 368
BseGI	GGATG	2 cut(s)	265, 699
BseLI	CCNNNNNNNGG	1 cut(s)	182
BseMI	GCAATG	1 cut(s)	529
BseMII	CTCAG	1 cut(s)	39
BseNI	ACTGG	2 cut(s)	709, 734
BseRI	GAGGAG	1 cut(s)	807
BseXI	GCAGC	2 cut(s)	124, 328
BshFI	GGCC	1 cut(s)	681
BshNI	GGYRCC	1 cut(s)	364
BslFI	GGGAC	2 cut(s)	173, 201
BslI	CCNNNNNNNGG	1 cut(s)	182
BsmAI	GTCTC	1 cut(s)	74
BsmFI	GGGAC	2 cut(s)	173, 201
BsnI	GGCC	1 cut(s)	681
Bsp1286I	GDGCHC	2 cut(s)	466, 529
Bsp1407I	TGTACA	1 cut(s)	781
Bsp143I	GATC	3 cut(s)	88, 877, 909
BspACI	CCGC	4 cut(s)	130, 322, 449, 691
BspANI	GGCC	1 cut(s)	681
BspCNI	CTCAG	1 cut(s)	40
BspLI	GGNNCC	4 cut(s)	217, 366, 798, 970
BspMI	ACCTGC	1 cut(s)	184
BspPI	GGATC	1 cut(s)	917
BspT107I	GGYRCC	1 cut(s)	364
BsrBI	CCGCTC	1 cut(s)	691
BsrDI	GCAATG	1 cut(s)	529
BsrGI	TGTACA	1 cut(s)	781
BsrI	ACTGG	2 cut(s)	709, 734
BssECI	CCNNGG	2 cut(s)	116, 368
BssMI	GATC	3 cut(s)	88, 877, 909
BssNI	GRCGYC	1 cut(s)	365
BssT1I	CCWWGG	2 cut(s)	116, 368
Bst4CI	ACNGT	2 cut(s)	228, 736
Bst6I	CTCTTC	3 cut(s)	240, 603, 825
BstACI	GRCGYC	1 cut(s)	365
BstAPI	GCANNNNNTGC	1 cut(s)	341
BstAUI	TGTACA	1 cut(s)	781
BstC8I	GCNNGC	1 cut(s)	45
BstDEI	CTNAG	1 cut(s)	48
BstF5I	GGATG	2 cut(s)	265, 699
BstH2I	RGCGCY	1 cut(s)	368
BstHHI	GCGC	2 cut(s)	9, 367
BstKTI	GATC	3 cut(s)	91, 880, 912
BstMAI	GTCTC	1 cut(s)	74
BstMBI	GATC	3 cut(s)	88, 877, 909
BstMWI	GCNNNNNNNGC	1 cut(s)	341
BstNSI	RCATGY	2 cut(s)	436, 455
BstV1I	GCAGC	2 cut(s)	124, 328
BstV2I	GAAGAC	1 cut(s)	263
BstXI	CCANNNNNNTGG	1 cut(s)	579
BsuRI	GGCC	1 cut(s)	681
BtsCI	GGATG	2 cut(s)	265, 699
BtsIMutI	CAGTG	1 cut(s)	784
BveI	ACCTGC	1 cut(s)	184
Cac8I	GCNNGC	1 cut(s)	45
CfoI	GCGC	2 cut(s)	9, 367
Cfr13I	GGNCC	2 cut(s)	215, 796
CseI	GACGC	1 cut(s)	527
Csp6I	GTAC	1 cut(s)	782
CviAII	CATG	6 cut(s)	220, 433, 452, 552, 577, 742
CviQI	GTAC	1 cut(s)	782
DdeI	CTNAG	1 cut(s)	48
DinI	GGCGCC	1 cut(s)	366
DpnI	GATC	3 cut(s)	90, 879, 911
DpnII	GATC	3 cut(s)	88, 877, 909
DraI	TTTAAA	1 cut(s)	309
DraIII	CACNNNGTG	1 cut(s)	295
Eam1104I	CTCTTC	3 cut(s)	240, 603, 825
EarI	CTCTTC	3 cut(s)	240, 603, 825
EciI	GGCGGA	1 cut(s)	119
Eco130I	CCWWGG	2 cut(s)	116, 368
Eco24I	GRGCYC	2 cut(s)	466, 529
Eco47I	GGWCC	2 cut(s)	215, 796
Eco57I	CTGAAG	2 cut(s)	264, 855
EcoO109I	RGGNCCY	1 cut(s)	215
EcoT14I	CCWWGG	2 cut(s)	116, 368
EcoT38I	GRGCYC	2 cut(s)	466, 529
EgeI	GGCGCC	1 cut(s)	366
EheI	GGCGCC	1 cut(s)	366
ErhI	CCWWGG	2 cut(s)	116, 368
FaeI	CATG	6 cut(s)	223, 436, 455, 555, 580, 745
FaqI	GGGAC	2 cut(s)	173, 201
FatI	CATG	6 cut(s)	219, 432, 451, 551, 576, 741
FauI	CCCGC	1 cut(s)	315
FblI	GTMKAC	1 cut(s)	516
Fnu4HI	GCNGC	2 cut(s)	113, 342
FokI	GGATG	2 cut(s)	252, 706
FriOI	GRGCYC	2 cut(s)	466, 529
Fsp4HI	GCNGC	2 cut(s)	113, 342
GlaI	GCGC	2 cut(s)	8, 366
GluI	GCNGC	2 cut(s)	113, 342
HaeII	RGCGCY	1 cut(s)	368
HaeIII	GGCC	1 cut(s)	681
HgaI	GACGC	1 cut(s)	527
HhaI	GCGC	2 cut(s)	9, 367
Hin1I	GRCGYC	1 cut(s)	365
Hin1II	CATG	6 cut(s)	223, 436, 455, 555, 580, 745
Hin6I	GCGC	2 cut(s)	7, 365
HinP1I	GCGC	2 cut(s)	7, 365
HindIII	AAGCTT	2 cut(s)	41, 123
HinfI	GANTC	4 cut(s)	302, 548, 774, 923
HphI	GGTGA	2 cut(s)	222, 918
Hpy166II	GTNNAC	5 cut(s)	34, 517, 739, 782, 796
Hpy188I	TCNGA	8 cut(s)	68, 79, 157, 244, 825, 870, 877, 954
Hpy188III	TCNNGA	1 cut(s)	966
Hpy8I	GTNNAC	5 cut(s)	34, 517, 739, 782, 796
HpyAV	CCTTC	2 cut(s)	12, 389
HpyCH4III	ACNGT	2 cut(s)	228, 736
HpyCH4V	TGCA	5 cut(s)	112, 179, 265, 335, 534
HpyF10VI	GCNNNNNNNGC	1 cut(s)	341
HpyF3I	CTNAG	1 cut(s)	48
Hsp92I	GRCGYC	1 cut(s)	365
Hsp92II	CATG	6 cut(s)	223, 436, 455, 555, 580, 745
HspAI	GCGC	2 cut(s)	7, 365
KasI	GGCGCC	1 cut(s)	364
Kzo9I	GATC	3 cut(s)	88, 877, 909
Lsp1109I	GCAGC	2 cut(s)	124, 328
LweI	GCATC	2 cut(s)	274, 626
MaeIII	GTNAC	1 cut(s)	228
MalI	GATC	3 cut(s)	90, 879, 911
MbiI	CCGCTC	1 cut(s)	691
MboI	GATC	3 cut(s)	88, 877, 909
MboII	GAAGA	7 cut(s)	215, 257, 268, 620, 812, 848, 872
MfeI	CAATTG	2 cut(s)	270, 899
MhlI	GDGCHC	2 cut(s)	466, 529
MluCI	AATT	7 cut(s)	102, 234, 270, 563, 840, 899, 931
Mly113I	GGCGCC	1 cut(s)	365
MmeI	TCCRAC	1 cut(s)	848
MnlI	CCTC	8 cut(s)	66, 180, 206, 241, 319, 453, 692, 828
MroXI	GAANNNNTTC	2 cut(s)	840, 864
MseI	TTAA	4 cut(s)	308, 479, 666, 915
MunI	CAATTG	2 cut(s)	270, 899
MwoI	GCNNNNNNNGC	1 cut(s)	341
NarI	GGCGCC	1 cut(s)	365
NdeII	GATC	3 cut(s)	88, 877, 909
NlaIII	CATG	6 cut(s)	223, 436, 455, 555, 580, 745
NlaIV	GGNNCC	4 cut(s)	217, 366, 798, 970
NmuCI	GTSAC	1 cut(s)	228
NspI	RCATGY	2 cut(s)	436, 455
PdmI	GAANNNNTTC	2 cut(s)	840, 864
PfeI	GAWTC	4 cut(s)	302, 548, 774, 923
PkrI	GCNGC	2 cut(s)	114, 343
PluTI	GGCGCC	1 cut(s)	368
PpuMI	RGGWCCY	1 cut(s)	215
PshBI	ATTAAT	2 cut(s)	666, 915
Psp5II	RGGWCCY	1 cut(s)	215
PspN4I	GGNNCC	4 cut(s)	217, 366, 798, 970
PspPI	GGNCC	2 cut(s)	215, 796
PspPPI	RGGWCCY	1 cut(s)	215
RsaI	GTAC	1 cut(s)	783
RsaNI	GTAC	1 cut(s)	782
SaqAI	TTAA	4 cut(s)	308, 479, 666, 915
SatI	GCNGC	2 cut(s)	113, 342
Sau3AI	GATC	3 cut(s)	88, 877, 909
Sau96I	GGNCC	2 cut(s)	215, 796
SduI	GDGCHC	2 cut(s)	466, 529
SfaNI	GCATC	2 cut(s)	274, 626
SfoI	GGCGCC	1 cut(s)	366
SinI	GGWCC	2 cut(s)	215, 796
SmlI	CTYRAG	1 cut(s)	686
SmoI	CTYRAG	1 cut(s)	686
Sse9I	AATT	7 cut(s)	102, 234, 270, 563, 840, 899, 931
SsiI	CCGC	4 cut(s)	130, 322, 449, 691
SspDI	GGCGCC	1 cut(s)	364
SspI	AATATT	1 cut(s)	543
StyI	CCWWGG	2 cut(s)	116, 368
TaaI	ACNGT	2 cut(s)	228, 736
TaqI	TCGA	1 cut(s)	711
TasI	AATT	7 cut(s)	102, 234, 270, 563, 840, 899, 931
TatI	WGTACW	1 cut(s)	781
TfiI	GAWTC	4 cut(s)	302, 548, 774, 923
Tru1I	TTAA	4 cut(s)	308, 479, 666, 915
Tru9I	TTAA	4 cut(s)	308, 479, 666, 915
TscAI	CASTG	1 cut(s)	784
TseFI	GTSAC	1 cut(s)	228
TseI	GCWGC	2 cut(s)	112, 341
Tsp45I	GTSAC	1 cut(s)	228
TspDTI	ATGAA	3 cut(s)	540, 710, 906
TspRI	CASTG	1 cut(s)	784
VpaK11BI	GGWCC	2 cut(s)	215, 796
VspI	ATTAAT	2 cut(s)	666, 915
XapI	RAATTY	2 cut(s)	102, 840
XceI	RCATGY	2 cut(s)	436, 455
XcmI	CCANNNNNNNNNTGG	1 cut(s)	576
XmiI	GTMKAC	1 cut(s)	516
XmnI	GAANNNNTTC	2 cut(s)	840, 864

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