Rroxscaffold_2G00154580

Uroporphyrinogen-III synthase HemD

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0016720
Physical Location & Seq
Reverse (-)
91156854 .. 91158476
1623 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00154580.1

Sequence Viewer

Length: 954 bp
ATGAGGAGCAACTTCCAAGACTTAGCAGATAATCATGCATTTACTCCCATTCATGTGACCAAAGTTACCCATGACGTAGCTAAAATGGCCACACCAAACACCGCCGTCACCACCACCCCCACCGTCGCGTTCACCACTCCGCCAATCTACGCCGCACGCCTCCGCCACCTCCTCACGCTCAACAACTTCACTCCCCTCTCCTCTCCCACACTCACCGTCCACCACACCCCCTCCACCGTCTCCGCCCTCAAACCCCACCTATCGCCTCCTTCCCTAAACCTCTTCTCCGCCGTCGCCTTCCCTTCACGCACCGCCATCGCCGCCTTCTCCGCCGCCGCAGACGACGTCGCTCATCCTCTCCTCTCCCCAAACGGCGCCGTCTTCACCGTCGCCGCGCTCGGCAAGGACGCCGAGCTCATCGACGACGGCTTCGTCCGCAAGCTCAGTCGAGATCGTCGCCGTGTCAGAATTCTGGTACCTCCGACCGCCACGCCGAGCGCGTTGGTTCACGCGCTCGGCGACGGCGGCGGAAGGAGGGTGCTGTGTCCGGTACCGGTTGTGTTGGGACTGACTGAGCCTCCAGTGGTGCCGGATTTTCTCCGGGAGCTTGGAGAAAGCGGTTGGGCTCCGGTTCGGGTCAATGCGTACGAGACTAGGTGGGCCGGGCCGGAGTGCGCGGCCCAAGTGGTGGAGAGAATCAAGAACGGGGCTTTGGATGCGATTGTGTTTACTAGCACTGCGGAGGTGGAGGGGTTACTGAAGAGCATCAAGGAGTTTGGGCTGGGCTGGGAGAGTGTCAAGAAATTGTGCCCGAAACTGCTCGTTGCGGCCCACGGGCCCGTTACTGCCTCCGGAGCCCGAAACCTTGGTGTCGGAGTAGATTTGGTGAGTTCTAAGTTCGACAGTTTTCAAGGTGTTGTTGATTCTTTGCGTTCTGAGATTTTCAAAGCTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HEM4 RsfS

Protein Analysis

317

Amino Acids

33.67

Weight (kDa)

9.03

Isoelectric Point (pI)

40.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HEM4 PF02602 56 - 301 7.4e-18 Uroporphyrinogen-III synthase HemD
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016720)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g01510
malus_domestica MD15G1157700.v1.1
prunus_persica Prupe.7G252900_v2.0.a1
pyrus_communis pycom15g14150
rosa_chinensis RchiOBHm_Chr2g0086431
rosa_laevigata RLG00000015758
rosa_multiflora Rmu_sc0005127.1_g000004
rosa_roxburghii Rroxscaffold_2G00154580
rosa_rugosa Rorug01G0467400
rosa_samantha Rh2AG018000 Rh2BG017700 Rh2CG018400 Rh2DG019300
rosa_wichuraiana Rw2G001510

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 431
AatII GACGTC 1 cut(s) 348
Acc65I GGTACC 2 cut(s) 475, 550
AccB1I GGYRCC 4 cut(s) 374, 475, 550, 586
AccB7I CCANNNNNTGG 1 cut(s) 688
AccII CGCG 5 cut(s) 128, 395, 500, 512, 677
AccIII TCCGGA 1 cut(s) 851
AcoI YGGCCR 1 cut(s) 87
AcsI RAATTY 1 cut(s) 468
AcuI CTGAAG 1 cut(s) 779
AcyI GRCGYC 3 cut(s) 345, 375, 408
AfaI GTAC 3 cut(s) 477, 552, 647
AfiI CCNNNNNNNGG 1 cut(s) 688
AgeI ACCGGT 1 cut(s) 553
AgsI TTSAA 2 cut(s) 911, 946
AjuI GAANNNNNNNTTGG 2 cut(s) 695, 727
AluBI AGCT 5 cut(s) 80, 415, 442, 607, 950
AluI AGCT 5 cut(s) 80, 415, 442, 607, 950
Alw21I GWGCWC 1 cut(s) 417
Alw26I GTCTC 2 cut(s) 244, 644
Aor13HI TCCGGA 1 cut(s) 851
AoxI GGCC 6 cut(s) 87, 660, 665, 678, 828, 836
ApaI GGGCCC 1 cut(s) 840
ApoI RAATTY 1 cut(s) 468
ArsI GACNNNNNNTTYG 2 cut(s) 413, 445
AsiGI ACCGGT 1 cut(s) 553
Asp718I GGTACC 2 cut(s) 475, 550
AspLEI GCGC 5 cut(s) 377, 397, 500, 514, 677
AspS9I GGNCC 6 cut(s) 660, 665, 679, 829, 836, 837
AsuC2I CCSGG 2 cut(s) 602, 664
AsuHPI GGTGA 5 cut(s) 100, 124, 205, 376, 898
BaeGI GKGCMC 2 cut(s) 812, 840
BalI TGGCCA 1 cut(s) 89
BanI GGYRCC 4 cut(s) 374, 475, 550, 586
BanII GRGCYC 4 cut(s) 417, 628, 840, 859
BbsI GAAGAC 1 cut(s) 373
Bbv12I GWGCWC 1 cut(s) 417
BccI CCATC 1 cut(s) 323
BceAI ACGGC 7 cut(s) 89, 275, 362, 388, 442, 444, 538
BcgI CGANNNNNNTGC 2 cut(s) 298, 332
BcnI CCSGG 2 cut(s) 602, 664
BcoDI GTCTC 2 cut(s) 244, 644
BfaI CTAG 2 cut(s) 654, 732
BfoI RGCGCY 1 cut(s) 378
BisI GCNGC 8 cut(s) 153, 321, 333, 336, 393, 526, 678, 828
BlsI GCNGC 8 cut(s) 154, 322, 334, 337, 394, 527, 679, 829
Bme1390I CCNGG 2 cut(s) 602, 664
BmgT120I GGNCC 6 cut(s) 660, 665, 679, 829, 836, 837
BmiI GGNNCC 7 cut(s) 376, 477, 552, 588, 627, 838, 856
BmrFI CCNGG 2 cut(s) 602, 664
BmsI GCATC 2 cut(s) 706, 774
BpiI GAAGAC 1 cut(s) 373
BpmI CTGGAG 1 cut(s) 564
BpuMI CCSGG 2 cut(s) 602, 664
BsaHI GRCGYC 3 cut(s) 345, 375, 408
BsaJI CCNNGG 2 cut(s) 832, 865
BsaWI WCCGGW 4 cut(s) 547, 553, 628, 851
BsaXI ACNNNNNCTCC 6 cut(s) 215, 245, 269, 299, 562, 592
Bsc4I CCNNNNNNNGG 1 cut(s) 688
Bse118I RCCGGY 1 cut(s) 553
Bse1I ACTGG 1 cut(s) 581
BseAI TCCGGA 1 cut(s) 851
BseDI CCNNGG 2 cut(s) 832, 865
BseGI GGATG 2 cut(s) 352, 721
BseLI CCNNNNNNNGG 1 cut(s) 688
BseMII CTCAG 3 cut(s) 457, 564, 927
BseNI ACTGG 1 cut(s) 581
BseRI GAGGAG 4 cut(s) 19, 161, 190, 350
BseSI GKGCMC 2 cut(s) 812, 840
BseYI CCCAGC 2 cut(s) 781, 786
Bsh1236I CGCG 5 cut(s) 128, 395, 500, 512, 677
Bsh1285I CGRYCG 1 cut(s) 486
BshFI GGCC 6 cut(s) 89, 662, 667, 680, 830, 838
BshNI GGYRCC 4 cut(s) 374, 475, 550, 586
BshTI ACCGGT 1 cut(s) 553
BsiEI CGRYCG 1 cut(s) 486
BsiHKAI GWGCWC 1 cut(s) 417
BsiSI CCGG 8 cut(s) 548, 554, 590, 601, 629, 663, 668, 852
BsiWI CGTACG 1 cut(s) 645
BslFI GGGAC 1 cut(s) 579
BslI CCNNNNNNNGG 1 cut(s) 688
BsmAI GTCTC 2 cut(s) 244, 644
BsmBI CGTCTC 1 cut(s) 244
BsmFI GGGAC 1 cut(s) 579
BsnI GGCC 6 cut(s) 89, 662, 667, 680, 830, 838
Bsp120I GGGCCC 1 cut(s) 836
Bsp1286I GDGCHC 5 cut(s) 417, 628, 812, 840, 859
Bsp13I TCCGGA 1 cut(s) 851
Bsp143I GATC 1 cut(s) 451
BspANI GGCC 6 cut(s) 89, 662, 667, 680, 830, 838
BspCNI CTCAG 3 cut(s) 456, 565, 928
BspEI TCCGGA 1 cut(s) 851
BspFNI CGCG 5 cut(s) 128, 395, 500, 512, 677
BspLI GGNNCC 7 cut(s) 376, 477, 552, 588, 627, 838, 856
BspQI GCTCTTC 1 cut(s) 755
BspT107I GGYRCC 4 cut(s) 374, 475, 550, 586
BsrFI RCCGGY 1 cut(s) 553
BsrI ACTGG 1 cut(s) 581
BssAI RCCGGY 1 cut(s) 553
BssECI CCNNGG 2 cut(s) 832, 865
BssMI GATC 1 cut(s) 451
BssNI GRCGYC 3 cut(s) 345, 375, 408
BssT1I CCWWGG 1 cut(s) 865
Bst4CI ACNGT 5 cut(s) 124, 217, 238, 388, 905
Bst6I CTCTTC 2 cut(s) 287, 755
BstACI GRCGYC 3 cut(s) 345, 375, 408
BstC8I GCNNGC 2 cut(s) 157, 440
BstDEI CTNAG 6 cut(s) 22, 443, 573, 894, 936, 951
BstDSI CCRYGG 1 cut(s) 832
BstF5I GGATG 2 cut(s) 352, 721
BstFNI CGCG 5 cut(s) 128, 395, 500, 512, 677
BstH2I RGCGCY 1 cut(s) 378
BstHHI GCGC 5 cut(s) 377, 397, 500, 514, 677
BstKTI GATC 1 cut(s) 454
BstMAI GTCTC 2 cut(s) 244, 644
BstMBI GATC 1 cut(s) 451
BstMCI CGRYCG 1 cut(s) 486
BstMWI GCNNNNNNNGC 7 cut(s) 86, 320, 329, 435, 525, 716, 854
BstSCI CCNGG 2 cut(s) 600, 662
BstSLI GKGCMC 2 cut(s) 812, 840
BstUI CGCG 5 cut(s) 128, 395, 500, 512, 677
BstV2I GAAGAC 1 cut(s) 373
BsuRI GGCC 6 cut(s) 89, 662, 667, 680, 830, 838
BtgI CCRYGG 1 cut(s) 832
BtgZI GCGATG 1 cut(s) 301
BtsCI GGATG 2 cut(s) 352, 721
BtsI GCAGTG 1 cut(s) 735
BtsIMutI CAGTG 2 cut(s) 588, 735
Cac8I GCNNGC 2 cut(s) 157, 440
CfoI GCGC 5 cut(s) 377, 397, 500, 514, 677
Cfr10I RCCGGY 1 cut(s) 553
Cfr13I GGNCC 6 cut(s) 660, 665, 679, 829, 836, 837
CseI GACGC 1 cut(s) 416
Csp6I GTAC 3 cut(s) 476, 551, 646
CspAI ACCGGT 1 cut(s) 553
CviAII CATG 3 cut(s) 35, 53, 71
CviQI GTAC 3 cut(s) 476, 551, 646
DdeI CTNAG 6 cut(s) 22, 443, 573, 894, 936, 951
DinI GGCGCC 1 cut(s) 376
DpnI GATC 1 cut(s) 453
DpnII GATC 1 cut(s) 451
DrdI GACNNNNNNGTC 1 cut(s) 431
DseDI GACNNNNNNGTC 1 cut(s) 431
EaeI YGGCCR 1 cut(s) 87
Eam1104I CTCTTC 2 cut(s) 287, 755
EarI CTCTTC 2 cut(s) 287, 755
EciI GGCGGA 6 cut(s) 129, 152, 232, 277, 319, 543
Ecl136II GAGCTC 1 cut(s) 415
Eco130I CCWWGG 1 cut(s) 865
Eco24I GRGCYC 4 cut(s) 417, 628, 840, 859
Eco53kI GAGCTC 1 cut(s) 415
Eco57I CTGAAG 1 cut(s) 779
EcoICRI GAGCTC 1 cut(s) 415
EcoRI GAATTC 1 cut(s) 468
EcoT14I CCWWGG 1 cut(s) 865
EcoT22I ATGCAT 1 cut(s) 40
EcoT38I GRGCYC 4 cut(s) 417, 628, 840, 859
EgeI GGCGCC 1 cut(s) 376
EheI GGCGCC 1 cut(s) 376
ErhI CCWWGG 1 cut(s) 865
Esp3I CGTCTC 1 cut(s) 244
FaeI CATG 3 cut(s) 38, 56, 74
FaiI YATR 3 cut(s) 36, 54, 72
FaqI GGGAC 1 cut(s) 579
FatI CATG 3 cut(s) 34, 52, 70
Fnu4HI GCNGC 8 cut(s) 153, 321, 333, 336, 393, 526, 678, 828
FokI GGATG 2 cut(s) 339, 728
FriOI GRGCYC 4 cut(s) 417, 628, 840, 859
Fsp4HI GCNGC 8 cut(s) 153, 321, 333, 336, 393, 526, 678, 828
FspBI CTAG 2 cut(s) 654, 732
GlaI GCGC 5 cut(s) 376, 396, 499, 513, 676
GluI GCNGC 8 cut(s) 153, 321, 333, 336, 393, 526, 678, 828
GsaI CCCAGC 2 cut(s) 785, 790
GsuI CTGGAG 1 cut(s) 564
HaeII RGCGCY 1 cut(s) 378
HaeIII GGCC 6 cut(s) 89, 662, 667, 680, 830, 838
HapII CCGG 8 cut(s) 548, 554, 590, 601, 629, 663, 668, 852
HgaI GACGC 1 cut(s) 416
HhaI GCGC 5 cut(s) 377, 397, 500, 514, 677
Hin1I GRCGYC 3 cut(s) 345, 375, 408
Hin1II CATG 3 cut(s) 38, 56, 74
Hin6I GCGC 5 cut(s) 375, 395, 498, 512, 675
HinP1I GCGC 5 cut(s) 375, 395, 498, 512, 675
HindIII AAGCTT 1 cut(s) 948
HinfI GANTC 2 cut(s) 696, 923
HpaII CCGG 8 cut(s) 548, 554, 590, 601, 629, 663, 668, 852
HphI GGTGA 5 cut(s) 100, 124, 205, 376, 898
Hpy166II GTNNAC 4 cut(s) 132, 220, 508, 729
Hpy188I TCNGA 4 cut(s) 467, 483, 875, 937
Hpy188III TCNNGA 4 cut(s) 449, 700, 799, 852
Hpy8I GTNNAC 4 cut(s) 132, 220, 508, 729
Hpy99I CGWCG 9 cut(s) 128, 296, 347, 350, 392, 425, 428, 459, 524
HpyAV CCTTC 5 cut(s) 279, 307, 312, 334, 525
HpyCH4III ACNGT 5 cut(s) 124, 217, 238, 388, 905
HpyCH4IV ACGT 2 cut(s) 75, 345
HpyCH4V TGCA 1 cut(s) 38
HpyF10VI GCNNNNNNNGC 7 cut(s) 86, 320, 329, 435, 525, 716, 854
HpyF3I CTNAG 6 cut(s) 22, 443, 573, 894, 936, 951
HpySE526I ACGT 2 cut(s) 75, 345
Hsp92I GRCGYC 3 cut(s) 345, 375, 408
Hsp92II CATG 3 cut(s) 38, 56, 74
HspAI GCGC 5 cut(s) 375, 395, 498, 512, 675
KasI GGCGCC 1 cut(s) 374
Kpn2I TCCGGA 1 cut(s) 851
KpnI GGTACC 2 cut(s) 479, 554
Kzo9I GATC 1 cut(s) 451
LguI GCTCTTC 1 cut(s) 755
LmnI GCTCC 4 cut(s) 6, 604, 631, 854
LweI GCATC 2 cut(s) 706, 774
MaeI CTAG 2 cut(s) 654, 732
MaeII ACGT 2 cut(s) 75, 345
MaeIII GTNAC 5 cut(s) 55, 64, 106, 753, 841
MalI GATC 1 cut(s) 453
MboI GATC 1 cut(s) 451
MboII GAAGA 3 cut(s) 274, 373, 772
MhlI GDGCHC 5 cut(s) 417, 628, 812, 840, 859
MlsI TGGCCA 1 cut(s) 89
MluCI AATT 2 cut(s) 468, 803
MluNI TGGCCA 1 cut(s) 89
Mly113I GGCGCC 1 cut(s) 375
MmeI TCCRAC 2 cut(s) 506, 853
Mox20I TGGCCA 1 cut(s) 89
Mph1103I ATGCAT 1 cut(s) 40
MroI TCCGGA 1 cut(s) 851
MscI TGGCCA 1 cut(s) 89
MslI CAYNNNNRTG 1 cut(s) 53
Msp20I TGGCCA 1 cut(s) 89
MspI CCGG 8 cut(s) 548, 554, 590, 601, 629, 663, 668, 852
MspR9I CCNGG 2 cut(s) 602, 664
MvnI CGCG 5 cut(s) 128, 395, 500, 512, 677
MwoI GCNNNNNNNGC 7 cut(s) 86, 320, 329, 435, 525, 716, 854
NarI GGCGCC 1 cut(s) 375
NciI CCSGG 2 cut(s) 602, 664
NdeII GATC 1 cut(s) 451
NlaIII CATG 3 cut(s) 38, 56, 74
NlaIV GGNNCC 7 cut(s) 376, 477, 552, 588, 627, 838, 856
NmeAIII GCCGAG 4 cut(s) 378, 436, 495, 519
NmuCI GTSAC 2 cut(s) 55, 106
NsiI ATGCAT 1 cut(s) 40
PciSI GCTCTTC 1 cut(s) 755
PcsI WCGNNNNNNNCGW 3 cut(s) 429, 497, 516
PfeI GAWTC 2 cut(s) 696, 923
Pfl23II CGTACG 1 cut(s) 645
PflFI GACNNNGTC 1 cut(s) 344
PflMI CCANNNNNTGG 1 cut(s) 688
PfoI TCCNGGA 1 cut(s) 600
PinAI ACCGGT 1 cut(s) 553
PkrI GCNGC 8 cut(s) 154, 322, 334, 337, 394, 527, 679, 829
PluTI GGCGCC 1 cut(s) 378
Psp124BI GAGCTC 1 cut(s) 417
PspFI CCCAGC 2 cut(s) 781, 786
PspLI CGTACG 1 cut(s) 645
PspN4I GGNNCC 7 cut(s) 376, 477, 552, 588, 627, 838, 856
PspOMI GGGCCC 1 cut(s) 836
PspPI GGNCC 6 cut(s) 660, 665, 679, 829, 836, 837
PsyI GACNNNGTC 1 cut(s) 344
RsaI GTAC 3 cut(s) 477, 552, 647
RsaNI GTAC 3 cut(s) 476, 551, 646
RseI CAYNNNNRTG 1 cut(s) 53
SacI GAGCTC 1 cut(s) 417
SapI GCTCTTC 1 cut(s) 755
SatI GCNGC 8 cut(s) 153, 321, 333, 336, 393, 526, 678, 828
Sau3AI GATC 1 cut(s) 451
Sau96I GGNCC 6 cut(s) 660, 665, 679, 829, 836, 837
ScrFI CCNGG 2 cut(s) 602, 664
SduI GDGCHC 5 cut(s) 417, 628, 812, 840, 859
SfaNI GCATC 2 cut(s) 706, 774
SfoI GGCGCC 1 cut(s) 376
SmiMI CAYNNNNRTG 1 cut(s) 53
Sse9I AATT 2 cut(s) 468, 803
SspDI GGCGCC 1 cut(s) 374
SspMI CTAG 2 cut(s) 654, 732
SstI GAGCTC 1 cut(s) 417
StyD4I CCNGG 2 cut(s) 600, 662
StyI CCWWGG 1 cut(s) 865
TaaI ACNGT 5 cut(s) 124, 217, 238, 388, 905
TaiI ACGT 2 cut(s) 78, 348
TaqI TCGA 3 cut(s) 420, 448, 900
TasI AATT 2 cut(s) 468, 803
TauI GCSGC 8 cut(s) 155, 323, 335, 338, 395, 528, 680, 830
TfiI GAWTC 2 cut(s) 696, 923
TscAI CASTG 2 cut(s) 588, 742
TseFI GTSAC 2 cut(s) 55, 106
Tsp45I GTSAC 2 cut(s) 55, 106
TspDTI ATGAA 1 cut(s) 41
TspRI CASTG 2 cut(s) 588, 742
Tth111I GACNNNGTC 1 cut(s) 344
Van91I CCANNNNNTGG 1 cut(s) 688
XapI RAATTY 1 cut(s) 468
XspI CTAG 2 cut(s) 654, 732
ZraI GACGTC 1 cut(s) 346
Zsp2I ATGCAT 1 cut(s) 40
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.