Rh2AG018000

Uroporphyrinogen-III synthase HemD

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2A
OG0016720
Physical Location & Seq
Forward (+)
1372982 .. 1374222
1241 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2AG018000.1

Sequence Viewer

Length: 636 bp
ATGGAGATCGACACTTTCTGTGACGACGTCGCTCATCCTCTCCTCTCCCTAAACGGCGCCGTCTTCACCGTCGCCGCGCTCGGCAAGGACGCCGAGCTCATCGACGACGGCTTCGTCCGCAAGCTCAGTCGGGATCGTCGCCGTGTCAGAATTCTGGTACCTCCGACCGCCACGCCGAGCGCGTTGGTTCACGCGCTCGGCGAGGGCGGAGGCAGGAGGGTGCTGTGTCCGGTACCGGTGGTGTTTGGACTGACCGAGCCTCCGGTGGTGCCGGATTTTCTCCGGGAGCTCGGAGAAAGCGGTTGGGCTCCGGTTCGGGTCAATGCGTACGAGACGAGGTGGGCCGGGCCGGAGTGTGCGGCCCAAGTGGTGGAGAGAATCAAGGAGGGGGCTTTGGATGCGATCGTGTTTACTAGCACTGCGGAGGTGGAGGGGTTACTGAAGAGCTTGAAGGAGTTTGGGCTGGGCTGGGAGAGTGTCAAGAAATTGTGCCCGAAACTGCTCGTTGCGGCCCACGGGCCCGTTACTGCCTCCGGAGCCCGAAACCTTGGTGTCGGAGTAGATCTGGTGAGTTCCAAGTTCGACAGTTTTCAAGGTGTTGTTGATTCTTTGCGTTCTGAGATTTTCAAAGCTTAG
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

211

Amino Acids

22.56

Weight (kDa)

5.7

Isoelectric Point (pI)

42.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HEM4 PF02602 51 - 195 7e-16 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) 113
AatII GACGTC 1 cut(s) 30
Acc65I GGTACC 2 cut(s) 157, 232
AccB1I GGYRCC 4 cut(s) 56, 157, 232, 268
AccB7I CCANNNNNTGG 1 cut(s) 370
AccII CGCG 3 cut(s) 77, 182, 194
AccIII TCCGGA 1 cut(s) 533
AciI CCGC 8 cut(s) 75, 118, 168, 207, 300, 359, 422, 509
AclWI GGATC 1 cut(s) 141
AcsI RAATTY 1 cut(s) 150
AcuI CTGAAG 1 cut(s) 461
AcyI GRCGYC 3 cut(s) 27, 57, 90
AfaI GTAC 3 cut(s) 159, 234, 329
AfiI CCNNNNNNNGG 1 cut(s) 370
AgeI ACCGGT 1 cut(s) 235
AgsI TTSAA 3 cut(s) 451, 593, 628
AluBI AGCT 5 cut(s) 97, 124, 289, 447, 632
AluI AGCT 5 cut(s) 97, 124, 289, 447, 632
Alw21I GWGCWC 2 cut(s) 99, 291
Alw26I GTCTC 1 cut(s) 326
AlwI GGATC 1 cut(s) 141
Aor13HI TCCGGA 1 cut(s) 533
AoxI GGCC 5 cut(s) 342, 347, 360, 510, 518
ApaI GGGCCC 1 cut(s) 522
ApoI RAATTY 1 cut(s) 150
ArsI GACNNNNNNTTYG 2 cut(s) 95, 127
AsiGI ACCGGT 1 cut(s) 235
Asp718I GGTACC 2 cut(s) 157, 232
AspLEI GCGC 4 cut(s) 59, 79, 182, 196
AspS9I GGNCC 6 cut(s) 342, 347, 361, 511, 518, 519
AsuC2I CCSGG 2 cut(s) 284, 346
AsuHPI GGTGA 2 cut(s) 58, 580
BaeGI GKGCMC 2 cut(s) 494, 522
BanI GGYRCC 4 cut(s) 56, 157, 232, 268
BanII GRGCYC 5 cut(s) 99, 291, 310, 522, 541
BbsI GAAGAC 1 cut(s) 55
Bbv12I GWGCWC 2 cut(s) 99, 291
BceAI ACGGC 4 cut(s) 44, 70, 124, 126
BcnI CCSGG 2 cut(s) 284, 346
BcoDI GTCTC 1 cut(s) 326
BfaI CTAG 1 cut(s) 414
BfoI RGCGCY 1 cut(s) 60
BglII AGATCT 1 cut(s) 562
BisI GCNGC 3 cut(s) 75, 360, 510
BlsI GCNGC 3 cut(s) 76, 361, 511
Bme1390I CCNGG 2 cut(s) 284, 346
BmgT120I GGNCC 6 cut(s) 342, 347, 361, 511, 518, 519
BmiI GGNNCC 7 cut(s) 58, 159, 234, 270, 309, 520, 538
BmrFI CCNGG 2 cut(s) 284, 346
BmsI GCATC 1 cut(s) 388
BpiI GAAGAC 1 cut(s) 55
BpuMI CCSGG 2 cut(s) 284, 346
BsaHI GRCGYC 3 cut(s) 27, 57, 90
BsaJI CCNNGG 2 cut(s) 514, 547
BsaWI WCCGGW 5 cut(s) 229, 235, 262, 310, 533
BsaXI ACNNNNNCTCC 2 cut(s) 244, 274
Bsc4I CCNNNNNNNGG 1 cut(s) 370
Bse118I RCCGGY 1 cut(s) 235
BseAI TCCGGA 1 cut(s) 533
BseDI CCNNGG 2 cut(s) 514, 547
BseGI GGATG 2 cut(s) 34, 403
BseLI CCNNNNNNNGG 1 cut(s) 370
BseMII CTCAG 2 cut(s) 139, 609
BseRI GAGGAG 1 cut(s) 32
BseSI GKGCMC 2 cut(s) 494, 522
BseYI CCCAGC 2 cut(s) 463, 468
Bsh1236I CGCG 3 cut(s) 77, 182, 194
Bsh1285I CGRYCG 2 cut(s) 168, 405
BshFI GGCC 5 cut(s) 344, 349, 362, 512, 520
BshNI GGYRCC 4 cut(s) 56, 157, 232, 268
BshTI ACCGGT 1 cut(s) 235
BsiEI CGRYCG 2 cut(s) 168, 405
BsiHKAI GWGCWC 2 cut(s) 99, 291
BsiSI CCGG 9 cut(s) 230, 236, 263, 272, 283, 311, 345, 350, 534
BsiWI CGTACG 1 cut(s) 327
BslI CCNNNNNNNGG 1 cut(s) 370
BsmAI GTCTC 1 cut(s) 326
BsmBI CGTCTC 1 cut(s) 326
BsnI GGCC 5 cut(s) 344, 349, 362, 512, 520
Bsp120I GGGCCC 1 cut(s) 518
Bsp1286I GDGCHC 6 cut(s) 99, 291, 310, 494, 522, 541
Bsp13I TCCGGA 1 cut(s) 533
Bsp143I GATC 4 cut(s) 6, 133, 402, 562
BspACI CCGC 8 cut(s) 75, 118, 168, 207, 300, 359, 422, 509
BspANI GGCC 5 cut(s) 344, 349, 362, 512, 520
BspCNI CTCAG 2 cut(s) 138, 610
BspEI TCCGGA 1 cut(s) 533
BspFNI CGCG 3 cut(s) 77, 182, 194
BspLI GGNNCC 7 cut(s) 58, 159, 234, 270, 309, 520, 538
BspPI GGATC 1 cut(s) 141
BspQI GCTCTTC 1 cut(s) 437
BspT107I GGYRCC 4 cut(s) 56, 157, 232, 268
BsrFI RCCGGY 1 cut(s) 235
BssAI RCCGGY 1 cut(s) 235
BssECI CCNNGG 2 cut(s) 514, 547
BssMI GATC 4 cut(s) 6, 133, 402, 562
BssNI GRCGYC 3 cut(s) 27, 57, 90
BssT1I CCWWGG 1 cut(s) 547
Bst4CI ACNGT 2 cut(s) 70, 587
Bst6I CTCTTC 1 cut(s) 437
BstACI GRCGYC 3 cut(s) 27, 57, 90
BstC8I GCNNGC 1 cut(s) 122
BstDEI CTNAG 3 cut(s) 125, 618, 633
BstDSI CCRYGG 1 cut(s) 514
BstF5I GGATG 2 cut(s) 34, 403
BstFNI CGCG 3 cut(s) 77, 182, 194
BstH2I RGCGCY 1 cut(s) 60
BstHHI GCGC 4 cut(s) 59, 79, 182, 196
BstKTI GATC 4 cut(s) 9, 136, 405, 565
BstMAI GTCTC 1 cut(s) 326
BstMBI GATC 4 cut(s) 6, 133, 402, 562
BstMCI CGRYCG 2 cut(s) 168, 405
BstMWI GCNNNNNNNGC 3 cut(s) 117, 398, 536
BstSCI CCNGG 2 cut(s) 282, 344
BstSLI GKGCMC 2 cut(s) 494, 522
BstUI CGCG 3 cut(s) 77, 182, 194
BstV2I GAAGAC 1 cut(s) 55
BstX2I RGATCY 1 cut(s) 562
BstYI RGATCY 1 cut(s) 562
BsuRI GGCC 5 cut(s) 344, 349, 362, 512, 520
BtgI CCRYGG 1 cut(s) 514
BtsCI GGATG 2 cut(s) 34, 403
BtsI GCAGTG 1 cut(s) 417
BtsIMutI CAGTG 1 cut(s) 417
Cac8I GCNNGC 1 cut(s) 122
CfoI GCGC 4 cut(s) 59, 79, 182, 196
Cfr10I RCCGGY 1 cut(s) 235
Cfr13I GGNCC 6 cut(s) 342, 347, 361, 511, 518, 519
CseI GACGC 1 cut(s) 98
Csp6I GTAC 3 cut(s) 158, 233, 328
CspAI ACCGGT 1 cut(s) 235
CviQI GTAC 3 cut(s) 158, 233, 328
DdeI CTNAG 3 cut(s) 125, 618, 633
DinI GGCGCC 1 cut(s) 58
DpnI GATC 4 cut(s) 8, 135, 404, 564
DpnII GATC 4 cut(s) 6, 133, 402, 562
DrdI GACNNNNNNGTC 1 cut(s) 113
DseDI GACNNNNNNGTC 1 cut(s) 113
Eam1104I CTCTTC 1 cut(s) 437
EarI CTCTTC 1 cut(s) 437
EciI GGCGGA 1 cut(s) 222
Ecl136II GAGCTC 2 cut(s) 97, 289
Eco130I CCWWGG 1 cut(s) 547
Eco24I GRGCYC 5 cut(s) 99, 291, 310, 522, 541
Eco53kI GAGCTC 2 cut(s) 97, 289
Eco57I CTGAAG 1 cut(s) 461
EcoICRI GAGCTC 2 cut(s) 97, 289
EcoRI GAATTC 1 cut(s) 150
EcoT14I CCWWGG 1 cut(s) 547
EcoT38I GRGCYC 5 cut(s) 99, 291, 310, 522, 541
EgeI GGCGCC 1 cut(s) 58
EheI GGCGCC 1 cut(s) 58
ErhI CCWWGG 1 cut(s) 547
Esp3I CGTCTC 1 cut(s) 326
Fnu4HI GCNGC 3 cut(s) 75, 360, 510
FokI GGATG 2 cut(s) 21, 410
FriOI GRGCYC 5 cut(s) 99, 291, 310, 522, 541
Fsp4HI GCNGC 3 cut(s) 75, 360, 510
FspBI CTAG 1 cut(s) 414
GlaI GCGC 4 cut(s) 58, 78, 181, 195
GluI GCNGC 3 cut(s) 75, 360, 510
GsaI CCCAGC 2 cut(s) 467, 472
HaeII RGCGCY 1 cut(s) 60
HaeIII GGCC 5 cut(s) 344, 349, 362, 512, 520
HapII CCGG 9 cut(s) 230, 236, 263, 272, 283, 311, 345, 350, 534
HgaI GACGC 1 cut(s) 98
HhaI GCGC 4 cut(s) 59, 79, 182, 196
Hin1I GRCGYC 3 cut(s) 27, 57, 90
Hin6I GCGC 4 cut(s) 57, 77, 180, 194
HinP1I GCGC 4 cut(s) 57, 77, 180, 194
HindIII AAGCTT 1 cut(s) 630
HinfI GANTC 2 cut(s) 378, 605
HpaII CCGG 9 cut(s) 230, 236, 263, 272, 283, 311, 345, 350, 534
HphI GGTGA 2 cut(s) 58, 580
Hpy166II GTNNAC 2 cut(s) 190, 411
Hpy188I TCNGA 5 cut(s) 149, 165, 293, 557, 619
Hpy188III TCNNGA 3 cut(s) 131, 481, 534
Hpy8I GTNNAC 2 cut(s) 190, 411
Hpy99I CGWCG 6 cut(s) 29, 32, 74, 107, 110, 141
HpyAV CCTTC 1 cut(s) 445
HpyCH4III ACNGT 2 cut(s) 70, 587
HpyCH4IV ACGT 1 cut(s) 27
HpyF10VI GCNNNNNNNGC 3 cut(s) 117, 398, 536
HpyF3I CTNAG 3 cut(s) 125, 618, 633
HpySE526I ACGT 1 cut(s) 27
Hsp92I GRCGYC 3 cut(s) 27, 57, 90
HspAI GCGC 4 cut(s) 57, 77, 180, 194
KasI GGCGCC 1 cut(s) 56
Kpn2I TCCGGA 1 cut(s) 533
KpnI GGTACC 2 cut(s) 161, 236
Kzo9I GATC 4 cut(s) 6, 133, 402, 562
LguI GCTCTTC 1 cut(s) 437
LmnI GCTCC 3 cut(s) 286, 313, 536
LweI GCATC 1 cut(s) 388
MaeI CTAG 1 cut(s) 414
MaeII ACGT 1 cut(s) 27
MaeIII GTNAC 3 cut(s) 20, 435, 523
MalI GATC 4 cut(s) 8, 135, 404, 564
MboI GATC 4 cut(s) 6, 133, 402, 562
MboII GAAGA 2 cut(s) 55, 454
MflI RGATCY 1 cut(s) 562
MhlI GDGCHC 6 cut(s) 99, 291, 310, 494, 522, 541
MluCI AATT 2 cut(s) 150, 485
Mly113I GGCGCC 1 cut(s) 57
MmeI TCCRAC 2 cut(s) 188, 535
MroI TCCGGA 1 cut(s) 533
MspI CCGG 9 cut(s) 230, 236, 263, 272, 283, 311, 345, 350, 534
MspR9I CCNGG 2 cut(s) 284, 346
MvnI CGCG 3 cut(s) 77, 182, 194
MwoI GCNNNNNNNGC 3 cut(s) 117, 398, 536
NarI GGCGCC 1 cut(s) 57
NciI CCSGG 2 cut(s) 284, 346
NdeII GATC 4 cut(s) 6, 133, 402, 562
NlaIV GGNNCC 7 cut(s) 58, 159, 234, 270, 309, 520, 538
NmeAIII GCCGAG 4 cut(s) 60, 118, 177, 201
NmuCI GTSAC 1 cut(s) 20
PciSI GCTCTTC 1 cut(s) 437
PcsI WCGNNNNNNNCGW 3 cut(s) 111, 179, 198
PfeI GAWTC 2 cut(s) 378, 605
Pfl23II CGTACG 1 cut(s) 327
PflFI GACNNNGTC 1 cut(s) 26
PflMI CCANNNNNTGG 1 cut(s) 370
PfoI TCCNGGA 1 cut(s) 282
PinAI ACCGGT 1 cut(s) 235
PkrI GCNGC 3 cut(s) 76, 361, 511
Ple19I CGATCG 1 cut(s) 405
PluTI GGCGCC 1 cut(s) 60
Psp124BI GAGCTC 2 cut(s) 99, 291
PspFI CCCAGC 2 cut(s) 463, 468
PspLI CGTACG 1 cut(s) 327
PspN4I GGNNCC 7 cut(s) 58, 159, 234, 270, 309, 520, 538
PspOMI GGGCCC 1 cut(s) 518
PspPI GGNCC 6 cut(s) 342, 347, 361, 511, 518, 519
PsuI RGATCY 1 cut(s) 562
PsyI GACNNNGTC 1 cut(s) 26
PvuI CGATCG 1 cut(s) 405
RsaI GTAC 3 cut(s) 159, 234, 329
RsaNI GTAC 3 cut(s) 158, 233, 328
SacI GAGCTC 2 cut(s) 99, 291
SapI GCTCTTC 1 cut(s) 437
SatI GCNGC 3 cut(s) 75, 360, 510
Sau3AI GATC 4 cut(s) 6, 133, 402, 562
Sau96I GGNCC 6 cut(s) 342, 347, 361, 511, 518, 519
ScrFI CCNGG 2 cut(s) 284, 346
SduI GDGCHC 6 cut(s) 99, 291, 310, 494, 522, 541
SfaNI GCATC 1 cut(s) 388
SfoI GGCGCC 1 cut(s) 58
Sse9I AATT 2 cut(s) 150, 485
SsiI CCGC 8 cut(s) 75, 118, 168, 207, 300, 359, 422, 509
SspDI GGCGCC 1 cut(s) 56
SspMI CTAG 1 cut(s) 414
SstI GAGCTC 2 cut(s) 99, 291
StyD4I CCNGG 2 cut(s) 282, 344
StyI CCWWGG 1 cut(s) 547
TaaI ACNGT 2 cut(s) 70, 587
TaiI ACGT 1 cut(s) 30
TaqI TCGA 3 cut(s) 9, 102, 582
TaqII GACCGA 1 cut(s) 269
TasI AATT 2 cut(s) 150, 485
TauI GCSGC 3 cut(s) 77, 362, 512
TfiI GAWTC 2 cut(s) 378, 605
TscAI CASTG 1 cut(s) 424
TseFI GTSAC 1 cut(s) 20
Tsp45I GTSAC 1 cut(s) 20
TspRI CASTG 1 cut(s) 424
Tth111I GACNNNGTC 1 cut(s) 26
Van91I CCANNNNNTGG 1 cut(s) 370
XapI RAATTY 1 cut(s) 150
XspI CTAG 1 cut(s) 414
ZraI GACGTC 1 cut(s) 28
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.