Rh2DG019300

Uroporphyrinogen-III synthase HemD

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0016720
Physical Location & Seq
Forward (+)
1120893 .. 1121759
867 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG019300.1

Sequence Viewer

Length: 867 bp
ATGGCCACACCAAACACCGCCGTCACCACCCCCACCGTCGCATTCACCACTCCGCCAATCTACGCCGCCCGCCTCCGCCACTTCCTCACCCTCAACAACTTCACTCCCCTCTCCTCTCCCACACTCACCGTCCACCACACCCCCTCCACCGTCTCCGCCCTCAAACCCCACCTCTCGCCTCCTTCCCTAAACCTCTTCTCCGCCGTCGCCTTCCCTTCCCGCACCGCCATCGCCGCCTTCTCCGCCGCCGCAGACGACGTCGCTCATCCTCTCCTCTCCCCAAACGGCGCCGTCTTCACCGTCGCCGCGCTCGGCAAGGACGCCGAGCTCATCGACGACGGCTTCGTCCGCAAGCTCAGTCGAGATCGTCGCCGTGTCAGAATTCTCGTACCTCCGACCGCCACGCCGAGCGCGTTGGTTCACGCGCTCGGCGACGGCGGCGGCAGGAGGGTGCTGTGTCCGGTACCGGTGGTGTTTGGACTGACCGAGCCTCCGGTGGTGCCGGATTTTCTCCGGGAGCTCGGAGAAAGCGGTTGGGCTCCGGTTCGGGTCAATGCGTACGAGACGAGGTGGGCCGGGCCGGAGTGTGCGGCCCAAGTGGTGGAGAGAATCAAGAACGGGGCTTTGGATGCGATTGTGTTTACTAGCACTGCAGAGGTGGAGGGGTTACTGAAGAGCTTGAAGGAGTTTGGGCTGGGCTGGGAGAGTGTCAAGAAATTGTGCCCGAAACTGCTCGTTGCGGCCCACGGGCCCGTTACTGCCTCGGGAGCCCGAAACCTTGGTGTCGGAGTAGATTTGGTGAGTTCCAAGTTCGACAGTTTTCAAGGTGTTGTTGATTCTCTGCGTTCTGAGATTTTCAAAGCTTAG
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

288

Amino Acids

30.46

Weight (kDa)

9.07

Isoelectric Point (pI)

41.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HEM4 PF02602 34 - 272 1.1e-17 Uroporphyrinogen-III synthase HemD
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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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) 344
AatII GACGTC 1 cut(s) 261
Acc65I GGTACC 1 cut(s) 463
AccB1I GGYRCC 3 cut(s) 287, 463, 499
AccB7I CCANNNNNTGG 1 cut(s) 601
AccII CGCG 3 cut(s) 308, 413, 425
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 1 cut(s) 381
AcuI CTGAAG 1 cut(s) 692
AcyI GRCGYC 3 cut(s) 258, 288, 321
AfaI GTAC 3 cut(s) 390, 465, 560
AfiI CCNNNNNNNGG 1 cut(s) 601
AgeI ACCGGT 1 cut(s) 466
AgsI TTSAA 3 cut(s) 682, 824, 859
AjuI GAANNNNNNNTTGG 2 cut(s) 608, 640
AluBI AGCT 5 cut(s) 328, 355, 520, 678, 863
AluI AGCT 5 cut(s) 328, 355, 520, 678, 863
Alw21I GWGCWC 2 cut(s) 330, 522
Alw26I GTCTC 2 cut(s) 157, 557
Ama87I CYCGRG 1 cut(s) 763
AoxI GGCC 6 cut(s) 3, 573, 578, 591, 741, 749
ApaI GGGCCC 1 cut(s) 753
ApoI RAATTY 1 cut(s) 381
ArsI GACNNNNNNTTYG 2 cut(s) 326, 358
AsiGI ACCGGT 1 cut(s) 466
Asp718I GGTACC 1 cut(s) 463
AspLEI GCGC 4 cut(s) 290, 310, 413, 427
AspS9I GGNCC 6 cut(s) 573, 578, 592, 742, 749, 750
AsuC2I CCSGG 2 cut(s) 515, 577
AsuHPI GGTGA 6 cut(s) 16, 37, 79, 118, 289, 811
AvaI CYCGRG 1 cut(s) 763
BaeGI GKGCMC 2 cut(s) 725, 753
BalI TGGCCA 1 cut(s) 5
BanI GGYRCC 3 cut(s) 287, 463, 499
BanII GRGCYC 5 cut(s) 330, 522, 541, 753, 772
BbsI GAAGAC 1 cut(s) 286
Bbv12I GWGCWC 2 cut(s) 330, 522
BccI CCATC 1 cut(s) 236
BceAI ACGGC 7 cut(s) 5, 188, 275, 301, 355, 357, 451
BcgI CGANNNNNNTGC 2 cut(s) 211, 245
BcnI CCSGG 2 cut(s) 515, 577
BcoDI GTCTC 2 cut(s) 157, 557
BfaI CTAG 1 cut(s) 645
BfmI CTRYAG 1 cut(s) 651
BfoI RGCGCY 1 cut(s) 291
BisI GCNGC 9 cut(s) 66, 234, 246, 249, 306, 439, 442, 591, 741
BlsI GCNGC 9 cut(s) 67, 235, 247, 250, 307, 440, 443, 592, 742
Bme1390I CCNGG 2 cut(s) 515, 577
BmeT110I CYCGRG 1 cut(s) 763
BmgT120I GGNCC 6 cut(s) 573, 578, 592, 742, 749, 750
BmiI GGNNCC 6 cut(s) 289, 465, 501, 540, 751, 769
BmrFI CCNGG 2 cut(s) 515, 577
BmsI GCATC 1 cut(s) 619
BpiI GAAGAC 1 cut(s) 286
BpuMI CCSGG 2 cut(s) 515, 577
BsaHI GRCGYC 3 cut(s) 258, 288, 321
BsaJI CCNNGG 3 cut(s) 745, 762, 778
BsaWI WCCGGW 4 cut(s) 460, 466, 493, 541
BsaXI ACNNNNNCTCC 6 cut(s) 128, 158, 182, 212, 475, 505
Bsc4I CCNNNNNNNGG 1 cut(s) 601
Bse118I RCCGGY 1 cut(s) 466
BseDI CCNNGG 3 cut(s) 745, 762, 778
BseGI GGATG 2 cut(s) 265, 634
BseLI CCNNNNNNNGG 1 cut(s) 601
BseMII CTCAG 2 cut(s) 370, 840
BseRI GAGGAG 2 cut(s) 103, 263
BseSI GKGCMC 2 cut(s) 725, 753
BseYI CCCAGC 2 cut(s) 694, 699
Bsh1236I CGCG 3 cut(s) 308, 413, 425
Bsh1285I CGRYCG 1 cut(s) 399
BshFI GGCC 6 cut(s) 5, 575, 580, 593, 743, 751
BshNI GGYRCC 3 cut(s) 287, 463, 499
BshTI ACCGGT 1 cut(s) 466
BsiEI CGRYCG 1 cut(s) 399
BsiHKAI GWGCWC 2 cut(s) 330, 522
BsiHKCI CYCGRG 1 cut(s) 763
BsiSI CCGG 8 cut(s) 461, 467, 494, 503, 514, 542, 576, 581
BsiWI CGTACG 1 cut(s) 558
BslI CCNNNNNNNGG 1 cut(s) 601
BsmAI GTCTC 2 cut(s) 157, 557
BsmBI CGTCTC 2 cut(s) 157, 557
BsmI GAATGC 1 cut(s) 41
BsnI GGCC 6 cut(s) 5, 575, 580, 593, 743, 751
BsoBI CYCGRG 1 cut(s) 763
Bsp120I GGGCCC 1 cut(s) 749
Bsp1286I GDGCHC 6 cut(s) 330, 522, 541, 725, 753, 772
Bsp143I GATC 1 cut(s) 364
BspANI GGCC 6 cut(s) 5, 575, 580, 593, 743, 751
BspCNI CTCAG 2 cut(s) 369, 841
BspFNI CGCG 3 cut(s) 308, 413, 425
BspLI GGNNCC 6 cut(s) 289, 465, 501, 540, 751, 769
BspMAI CTGCAG 1 cut(s) 655
BspQI GCTCTTC 1 cut(s) 668
BspT107I GGYRCC 3 cut(s) 287, 463, 499
BsrFI RCCGGY 1 cut(s) 466
BssAI RCCGGY 1 cut(s) 466
BssECI CCNNGG 3 cut(s) 745, 762, 778
BssMI GATC 1 cut(s) 364
BssNI GRCGYC 3 cut(s) 258, 288, 321
BssT1I CCWWGG 1 cut(s) 778
Bst4CI ACNGT 5 cut(s) 37, 130, 151, 301, 818
Bst6I CTCTTC 2 cut(s) 200, 668
BstACI GRCGYC 3 cut(s) 258, 288, 321
BstC8I GCNNGC 2 cut(s) 70, 353
BstDEI CTNAG 3 cut(s) 356, 849, 864
BstDSI CCRYGG 1 cut(s) 745
BstF5I GGATG 2 cut(s) 265, 634
BstFNI CGCG 3 cut(s) 308, 413, 425
BstH2I RGCGCY 1 cut(s) 291
BstHHI GCGC 4 cut(s) 290, 310, 413, 427
BstKTI GATC 1 cut(s) 367
BstMAI GTCTC 2 cut(s) 157, 557
BstMBI GATC 1 cut(s) 364
BstMCI CGRYCG 1 cut(s) 399
BstMWI GCNNNNNNNGC 6 cut(s) 233, 242, 348, 438, 629, 767
BstSCI CCNGG 2 cut(s) 513, 575
BstSFI CTRYAG 1 cut(s) 651
BstSLI GKGCMC 2 cut(s) 725, 753
BstUI CGCG 3 cut(s) 308, 413, 425
BstV2I GAAGAC 1 cut(s) 286
BsuRI GGCC 6 cut(s) 5, 575, 580, 593, 743, 751
BtgI CCRYGG 1 cut(s) 745
BtgZI GCGATG 1 cut(s) 214
BtsCI GGATG 2 cut(s) 265, 634
BtsI GCAGTG 1 cut(s) 648
BtsIMutI CAGTG 1 cut(s) 648
Cac8I GCNNGC 2 cut(s) 70, 353
CfoI GCGC 4 cut(s) 290, 310, 413, 427
Cfr10I RCCGGY 1 cut(s) 466
Cfr13I GGNCC 6 cut(s) 573, 578, 592, 742, 749, 750
CseI GACGC 1 cut(s) 329
Csp6I GTAC 3 cut(s) 389, 464, 559
CspAI ACCGGT 1 cut(s) 466
CviQI GTAC 3 cut(s) 389, 464, 559
DdeI CTNAG 3 cut(s) 356, 849, 864
DinI GGCGCC 1 cut(s) 289
DpnI GATC 1 cut(s) 366
DpnII GATC 1 cut(s) 364
DrdI GACNNNNNNGTC 1 cut(s) 344
DseDI GACNNNNNNGTC 1 cut(s) 344
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 2 cut(s) 200, 668
EarI CTCTTC 2 cut(s) 200, 668
EciI GGCGGA 5 cut(s) 42, 65, 145, 190, 232
Ecl136II GAGCTC 2 cut(s) 328, 520
Eco130I CCWWGG 1 cut(s) 778
Eco24I GRGCYC 5 cut(s) 330, 522, 541, 753, 772
Eco53kI GAGCTC 2 cut(s) 328, 520
Eco57I CTGAAG 1 cut(s) 692
Eco88I CYCGRG 1 cut(s) 763
EcoICRI GAGCTC 2 cut(s) 328, 520
EcoRI GAATTC 1 cut(s) 381
EcoT14I CCWWGG 1 cut(s) 778
EcoT38I GRGCYC 5 cut(s) 330, 522, 541, 753, 772
EgeI GGCGCC 1 cut(s) 289
EheI GGCGCC 1 cut(s) 289
ErhI CCWWGG 1 cut(s) 778
Esp3I CGTCTC 2 cut(s) 157, 557
FauI CCCGC 2 cut(s) 77, 227
Fnu4HI GCNGC 9 cut(s) 66, 234, 246, 249, 306, 439, 442, 591, 741
FokI GGATG 2 cut(s) 252, 641
FriOI GRGCYC 5 cut(s) 330, 522, 541, 753, 772
Fsp4HI GCNGC 9 cut(s) 66, 234, 246, 249, 306, 439, 442, 591, 741
FspBI CTAG 1 cut(s) 645
GlaI GCGC 4 cut(s) 289, 309, 412, 426
GluI GCNGC 9 cut(s) 66, 234, 246, 249, 306, 439, 442, 591, 741
GsaI CCCAGC 2 cut(s) 698, 703
HaeII RGCGCY 1 cut(s) 291
HaeIII GGCC 6 cut(s) 5, 575, 580, 593, 743, 751
HapII CCGG 8 cut(s) 461, 467, 494, 503, 514, 542, 576, 581
HgaI GACGC 1 cut(s) 329
HhaI GCGC 4 cut(s) 290, 310, 413, 427
Hin1I GRCGYC 3 cut(s) 258, 288, 321
Hin6I GCGC 4 cut(s) 288, 308, 411, 425
HinP1I GCGC 4 cut(s) 288, 308, 411, 425
HindIII AAGCTT 1 cut(s) 861
HinfI GANTC 2 cut(s) 609, 836
HpaII CCGG 8 cut(s) 461, 467, 494, 503, 514, 542, 576, 581
HphI GGTGA 6 cut(s) 16, 37, 79, 118, 289, 811
Hpy166II GTNNAC 3 cut(s) 133, 421, 642
Hpy188I TCNGA 5 cut(s) 380, 396, 524, 788, 850
Hpy188III TCNNGA 4 cut(s) 362, 613, 712, 765
Hpy8I GTNNAC 3 cut(s) 133, 421, 642
Hpy99I CGWCG 9 cut(s) 41, 209, 260, 263, 305, 338, 341, 372, 437
HpyAV CCTTC 5 cut(s) 192, 220, 225, 247, 676
HpyCH4III ACNGT 5 cut(s) 37, 130, 151, 301, 818
HpyCH4IV ACGT 1 cut(s) 258
HpyCH4V TGCA 1 cut(s) 653
HpyF10VI GCNNNNNNNGC 6 cut(s) 233, 242, 348, 438, 629, 767
HpyF3I CTNAG 3 cut(s) 356, 849, 864
HpySE526I ACGT 1 cut(s) 258
Hsp92I GRCGYC 3 cut(s) 258, 288, 321
HspAI GCGC 4 cut(s) 288, 308, 411, 425
KasI GGCGCC 1 cut(s) 287
KpnI GGTACC 1 cut(s) 467
Kzo9I GATC 1 cut(s) 364
LguI GCTCTTC 1 cut(s) 668
LmnI GCTCC 3 cut(s) 517, 544, 767
LweI GCATC 1 cut(s) 619
MaeI CTAG 1 cut(s) 645
MaeII ACGT 1 cut(s) 258
MaeIII GTNAC 3 cut(s) 22, 666, 754
MalI GATC 1 cut(s) 366
MboI GATC 1 cut(s) 364
MboII GAAGA 3 cut(s) 187, 286, 685
MhlI GDGCHC 6 cut(s) 330, 522, 541, 725, 753, 772
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 2 cut(s) 381, 716
MluNI TGGCCA 1 cut(s) 5
Mly113I GGCGCC 1 cut(s) 288
MmeI TCCRAC 2 cut(s) 419, 766
Mox20I TGGCCA 1 cut(s) 5
MscI TGGCCA 1 cut(s) 5
Msp20I TGGCCA 1 cut(s) 5
MspI CCGG 8 cut(s) 461, 467, 494, 503, 514, 542, 576, 581
MspR9I CCNGG 2 cut(s) 515, 577
Mva1269I GAATGC 1 cut(s) 41
MvnI CGCG 3 cut(s) 308, 413, 425
MwoI GCNNNNNNNGC 6 cut(s) 233, 242, 348, 438, 629, 767
NarI GGCGCC 1 cut(s) 288
NciI CCSGG 2 cut(s) 515, 577
NdeII GATC 1 cut(s) 364
NlaIV GGNNCC 6 cut(s) 289, 465, 501, 540, 751, 769
NmeAIII GCCGAG 4 cut(s) 291, 349, 408, 432
NmuCI GTSAC 1 cut(s) 22
PciSI GCTCTTC 1 cut(s) 668
PcsI WCGNNNNNNNCGW 3 cut(s) 342, 410, 429
PctI GAATGC 1 cut(s) 41
PfeI GAWTC 2 cut(s) 609, 836
Pfl23II CGTACG 1 cut(s) 558
PflFI GACNNNGTC 1 cut(s) 257
PflMI CCANNNNNTGG 1 cut(s) 601
PfoI TCCNGGA 1 cut(s) 513
PinAI ACCGGT 1 cut(s) 466
PkrI GCNGC 9 cut(s) 67, 235, 247, 250, 307, 440, 443, 592, 742
PluTI GGCGCC 1 cut(s) 291
Psp124BI GAGCTC 2 cut(s) 330, 522
PspFI CCCAGC 2 cut(s) 694, 699
PspLI CGTACG 1 cut(s) 558
PspN4I GGNNCC 6 cut(s) 289, 465, 501, 540, 751, 769
PspOMI GGGCCC 1 cut(s) 749
PspPI GGNCC 6 cut(s) 573, 578, 592, 742, 749, 750
PstI CTGCAG 1 cut(s) 655
PsyI GACNNNGTC 1 cut(s) 257
RsaI GTAC 3 cut(s) 390, 465, 560
RsaNI GTAC 3 cut(s) 389, 464, 559
SacI GAGCTC 2 cut(s) 330, 522
SapI GCTCTTC 1 cut(s) 668
SatI GCNGC 9 cut(s) 66, 234, 246, 249, 306, 439, 442, 591, 741
Sau3AI GATC 1 cut(s) 364
Sau96I GGNCC 6 cut(s) 573, 578, 592, 742, 749, 750
ScrFI CCNGG 2 cut(s) 515, 577
SduI GDGCHC 6 cut(s) 330, 522, 541, 725, 753, 772
SfaNI GCATC 1 cut(s) 619
SfcI CTRYAG 1 cut(s) 651
SfoI GGCGCC 1 cut(s) 289
Sse9I AATT 2 cut(s) 381, 716
SspDI GGCGCC 1 cut(s) 287
SspMI CTAG 1 cut(s) 645
SstI GAGCTC 2 cut(s) 330, 522
StyD4I CCNGG 2 cut(s) 513, 575
StyI CCWWGG 1 cut(s) 778
TaaI ACNGT 5 cut(s) 37, 130, 151, 301, 818
TaiI ACGT 1 cut(s) 261
TaqI TCGA 3 cut(s) 333, 361, 813
TaqII GACCGA 1 cut(s) 500
TasI AATT 2 cut(s) 381, 716
TauI GCSGC 9 cut(s) 68, 236, 248, 251, 308, 441, 444, 593, 743
TfiI GAWTC 2 cut(s) 609, 836
TscAI CASTG 1 cut(s) 655
TseFI GTSAC 1 cut(s) 22
Tsp45I GTSAC 1 cut(s) 22
TspRI CASTG 1 cut(s) 655
Tth111I GACNNNGTC 1 cut(s) 257
Van91I CCANNNNNTGG 1 cut(s) 601
XapI RAATTY 1 cut(s) 381
XspI CTAG 1 cut(s) 645
ZraI GACGTC 1 cut(s) 259
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.