RchiOBHm_Chr6g0249611

Glycerophosphoryl diester phosphodiesterase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0012249
Physical Location & Seq
Reverse (-)
5559253 .. 5563857
4605 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 975 bp
ATGGCGATCTCAACGAGAGTGGGAAGGAGGCAATCCTTACATCAACAACAGCGGAGGTTTCCGATCAGGTTTTCTTCAAAGAGACTCTTCCGGACGATTCTCATCAGCCTCGCCTTCATCGCTCTCGTCCCTCCCCTTTTCTTCATCTTCAAGCTCAAGACCTTTCGTCTCACTCAGTTGCGAAAGTGTGGTTGGCTAAATAGTCCTCCTCTTGTATGTGCGCATGGCGGTGACTCAAGTTCCGCCTTTCCAAACACGATGGCTGCATATCACTCTGCTCTTAATTCTCAAGTAGACTGCATTGAGATTGATGTTTCTCGTTCTTCAGATGGAGTTCTGCTTGCGCTTCATGACAGGGATTTGCAGCGGATATCTGGAAACAATACTTCGAAGGTTGGACACTTCAGCATGAAAGAGATAAAACATCTTGGTTCGGTGCATCAATCTGCAAAGTTCCACGATGCAAATATTCCTACAATTGAAGAGGCTCTTAAGTTGGTATCAAGTTCAGTTAGGCAGGTGGTTTTAGATGTAAAAGTCGGGCCTCCATCGTATGAAAAAGGTCTTGCAAGGGATGTTCTTGCTGTTATTGAGAGGATCCAGTGTAGGAATTGCGTTGTATGGGCCAAAAGCGACAATTTAGCAAGGGATGTGATCAGACTATCCTCAGATGTCATGGTGGGGTATATTGTTATGATTGATCAGTCAACCGGGGCTAGGACCAACTTACTGAGAATGAGAGATGCGCGTGTTGTTGGCGTTTACCATCCCTTGATTGATGAAAAGCTTGTGAGAATTCTGCATGGGAGAAATAAGAAGGTATATGCGTGGACTGTTGACGATGCGGAGTCCATGGAAAATATGTTGTTTGAGCAGGTCGATGCGATTGTCACAAGCAAACCGAGGATGCTTCAAGCTCTAATGCAAGATACCAGAAGACAGTGTCTTGAGCATGGTTTCTCATTATCAGAATAA
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
GDPD

Protein Analysis

324

Amino Acids

36.57

Weight (kDa)

9.69

Isoelectric Point (pI)

40.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
GDPD PF03009 75 - 301 6.7e-25 Glycerophosphoryl diester phosphodiesterase family
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 508
Acc16I TGCGCA 1 cut(s) 222
Acc36I ACCTGC 2 cut(s) 508, 865
AccI GTMKAC 1 cut(s) 294
AccII CGCG 1 cut(s) 748
AccIII TCCGGA 1 cut(s) 90
AciI CCGC 5 cut(s) 52, 228, 243, 367, 845
AclWI GGATC 2 cut(s) 592, 605
AcsI RAATTY 1 cut(s) 795
AcuI CTGAAG 2 cut(s) 309, 388
AfiI CCNNNNNNNGG 1 cut(s) 717
AflII CTTAAG 1 cut(s) 491
AgsI TTSAA 4 cut(s) 78, 151, 482, 914
AhdI GACNNNNNGTC 1 cut(s) 165
AjuI GAANNNNNNNTTGG 2 cut(s) 175, 207
AluBI AGCT 3 cut(s) 154, 787, 917
AluI AGCT 3 cut(s) 154, 787, 917
Alw26I GTCTC 2 cut(s) 76, 173
AlwI GGATC 2 cut(s) 592, 605
Aor13HI TCCGGA 1 cut(s) 90
AoxI GGCC 2 cut(s) 542, 624
ApeKI GCWGC 2 cut(s) 263, 364
ApoI RAATTY 1 cut(s) 795
AspLEI GCGC 3 cut(s) 223, 346, 748
AspS9I GGNCC 3 cut(s) 542, 624, 720
AsuC2I CCSGG 1 cut(s) 712
AsuHPI GGTGA 1 cut(s) 242
AsuII TTCGAA 1 cut(s) 389
AvaII GGWCC 1 cut(s) 720
BamHI GGATCC 1 cut(s) 597
BbsI GAAGAC 1 cut(s) 943
BbvI GCAGC 2 cut(s) 250, 376
BccI CCATC 4 cut(s) 253, 323, 556, 774
BclI TGATCA 2 cut(s) 654, 700
BcnI CCSGG 1 cut(s) 712
BcoDI GTCTC 2 cut(s) 76, 173
BfaI CTAG 1 cut(s) 717
BfrI CTTAAG 1 cut(s) 491
BfuAI ACCTGC 2 cut(s) 508, 865
BisI GCNGC 2 cut(s) 264, 365
BlsI GCNGC 2 cut(s) 265, 366
Bme1390I CCNGG 1 cut(s) 712
Bme18I GGWCC 1 cut(s) 720
BmeRI GACNNNNNGTC 1 cut(s) 165
BmgT120I GGNCC 3 cut(s) 542, 624, 720
BmiI GGNNCC 1 cut(s) 599
BmrFI CCNGG 1 cut(s) 712
BmsI GCATC 6 cut(s) 448, 451, 733, 832, 871, 897
BpiI GAAGAC 1 cut(s) 943
Bpu14I TTCGAA 1 cut(s) 389
BpuEI CTTGAG 4 cut(s) 140, 220, 273, 968
BpuMI CCSGG 1 cut(s) 712
BsaBI GATNNNNATC 1 cut(s) 101
BsaJI CCNNGG 3 cut(s) 711, 852, 902
BsaWI WCCGGW 1 cut(s) 90
Bsc4I CCNNNNNNNGG 1 cut(s) 717
Bse1I ACTGG 1 cut(s) 601
Bse8I GATNNNNATC 1 cut(s) 101
BseAI TCCGGA 1 cut(s) 90
BseDI CCNNGG 3 cut(s) 711, 852, 902
BseGI GGATG 4 cut(s) 580, 655, 766, 912
BseJI GATNNNNATC 1 cut(s) 101
BseLI CCNNNNNNNGG 1 cut(s) 717
BseMII CTCAG 3 cut(s) 188, 681, 722
BseNI ACTGG 1 cut(s) 601
BseRI GAGGAG 1 cut(s) 198
BseXI GCAGC 2 cut(s) 250, 376
Bsh1236I CGCG 1 cut(s) 748
BshFI GGCC 2 cut(s) 544, 626
BsiSI CCGG 2 cut(s) 91, 711
BslFI GGGAC 1 cut(s) 113
BslI CCNNNNNNNGG 1 cut(s) 717
BsmAI GTCTC 2 cut(s) 76, 173
BsmBI CGTCTC 1 cut(s) 173
BsmFI GGGAC 1 cut(s) 113
BsnI GGCC 2 cut(s) 544, 626
Bsp119I TTCGAA 1 cut(s) 389
Bsp13I TCCGGA 1 cut(s) 90
Bsp143I GATC 5 cut(s) 6, 63, 597, 654, 700
Bsp19I CCATGG 1 cut(s) 852
BspACI CCGC 5 cut(s) 52, 228, 243, 367, 845
BspANI GGCC 2 cut(s) 544, 626
BspCNI CTCAG 3 cut(s) 187, 680, 723
BspEI TCCGGA 1 cut(s) 90
BspFNI CGCG 1 cut(s) 748
BspHI TCATGA 1 cut(s) 349
BspLI GGNNCC 1 cut(s) 599
BspMI ACCTGC 2 cut(s) 508, 865
BspPI GGATC 2 cut(s) 592, 605
BspT104I TTCGAA 1 cut(s) 389
BspTI CTTAAG 1 cut(s) 491
BsrI ACTGG 1 cut(s) 601
BssECI CCNNGG 3 cut(s) 711, 852, 902
BssMI GATC 5 cut(s) 6, 63, 597, 654, 700
BssT1I CCWWGG 1 cut(s) 852
Bst4CI ACNGT 2 cut(s) 835, 942
Bst6I CTCTTC 2 cut(s) 92, 477
BstAFI CTTAAG 1 cut(s) 491
BstBI TTCGAA 1 cut(s) 389
BstC8I GCNNGC 1 cut(s) 342
BstDEI CTNAG 3 cut(s) 174, 667, 731
BstDSI CCRYGG 1 cut(s) 852
BstF5I GGATG 4 cut(s) 580, 655, 766, 912
BstFNI CGCG 1 cut(s) 748
BstHHI GCGC 3 cut(s) 223, 346, 748
BstKTI GATC 5 cut(s) 9, 66, 600, 657, 703
BstMAI GTCTC 2 cut(s) 76, 173
BstMBI GATC 5 cut(s) 6, 63, 597, 654, 700
BstMWI GCNNNNNNNGC 1 cut(s) 119
BstSCI CCNGG 1 cut(s) 710
BstUI CGCG 1 cut(s) 748
BstV1I GCAGC 2 cut(s) 250, 376
BstV2I GAAGAC 1 cut(s) 943
BstX2I RGATCY 1 cut(s) 597
BstYI RGATCY 1 cut(s) 597
BsuRI GGCC 2 cut(s) 544, 626
BtgI CCRYGG 1 cut(s) 852
BtgZI GCGATG 1 cut(s) 103
BtsCI GGATG 4 cut(s) 580, 655, 766, 912
BtsIMutI CAGTG 2 cut(s) 608, 947
BveI ACCTGC 2 cut(s) 508, 865
Cac8I GCNNGC 1 cut(s) 342
CciI TCATGA 1 cut(s) 349
CfoI GCGC 3 cut(s) 223, 346, 748
Cfr13I GGNCC 3 cut(s) 542, 624, 720
CspCI CAANNNNNGTGG 1 cut(s) 35
CviAII CATG 7 cut(s) 224, 350, 409, 676, 803, 853, 953
DdeI CTNAG 3 cut(s) 174, 667, 731
DpnI GATC 5 cut(s) 8, 65, 599, 656, 702
DpnII GATC 5 cut(s) 6, 63, 597, 654, 700
DriI GACNNNNNGTC 1 cut(s) 165
Eam1104I CTCTTC 2 cut(s) 92, 477
Eam1105I GACNNNNNGTC 1 cut(s) 165
EarI CTCTTC 2 cut(s) 92, 477
EciI GGCGGA 1 cut(s) 232
Eco130I CCWWGG 1 cut(s) 852
Eco32I GATATC 1 cut(s) 372
Eco47I GGWCC 1 cut(s) 720
Eco57I CTGAAG 2 cut(s) 309, 388
EcoRI GAATTC 1 cut(s) 795
EcoRV GATATC 1 cut(s) 372
EcoT14I CCWWGG 1 cut(s) 852
ErhI CCWWGG 1 cut(s) 852
Esp3I CGTCTC 1 cut(s) 173
FaeI CATG 7 cut(s) 227, 353, 412, 679, 806, 856, 956
FalI AAGNNNNNCTT 4 cut(s) 71, 103, 474, 506
FaqI GGGAC 1 cut(s) 113
FatI CATG 7 cut(s) 223, 349, 408, 675, 802, 852, 952
FbaI TGATCA 2 cut(s) 654, 700
FblI GTMKAC 1 cut(s) 294
Fnu4HI GCNGC 2 cut(s) 264, 365
FokI GGATG 4 cut(s) 587, 662, 753, 919
Fsp4HI GCNGC 2 cut(s) 264, 365
FspAI RTGCGCAY 1 cut(s) 222
FspBI CTAG 1 cut(s) 717
FspI TGCGCA 1 cut(s) 222
GlaI GCGC 3 cut(s) 222, 345, 747
GluI GCNGC 2 cut(s) 264, 365
HaeIII GGCC 2 cut(s) 544, 626
HapII CCGG 2 cut(s) 91, 711
HhaI GCGC 3 cut(s) 223, 346, 748
Hin1II CATG 7 cut(s) 227, 353, 412, 679, 806, 856, 956
Hin6I GCGC 3 cut(s) 221, 344, 746
HinP1I GCGC 3 cut(s) 221, 344, 746
HincII GTYRAC 2 cut(s) 708, 838
HindII GTYRAC 2 cut(s) 708, 838
HindIII AAGCTT 1 cut(s) 785
HinfI GANTC 4 cut(s) 84, 97, 233, 848
HpaII CCGG 2 cut(s) 91, 711
HphI GGTGA 1 cut(s) 242
Hpy166II GTNNAC 5 cut(s) 295, 708, 763, 831, 838
Hpy188I TCNGA 5 cut(s) 63, 328, 659, 670, 970
Hpy188III TCNNGA 5 cut(s) 91, 157, 350, 375, 947
Hpy8I GTNNAC 5 cut(s) 295, 708, 763, 831, 838
HpyAV CCTTC 4 cut(s) 18, 124, 385, 811
HpyCH4III ACNGT 2 cut(s) 835, 942
HpyCH4V TGCA 9 cut(s) 266, 300, 364, 439, 449, 464, 569, 802, 925
HpyF10VI GCNNNNNNNGC 1 cut(s) 119
HpyF3I CTNAG 3 cut(s) 174, 667, 731
Hsp92II CATG 7 cut(s) 227, 353, 412, 679, 806, 856, 956
HspAI GCGC 3 cut(s) 221, 344, 746
Kpn2I TCCGGA 1 cut(s) 90
Ksp22I TGATCA 2 cut(s) 654, 700
Kzo9I GATC 5 cut(s) 6, 63, 597, 654, 700
LpnPI CCDG 9 cut(s) 52, 104, 340, 360, 503, 614, 724, 860, 946
Lsp1109I GCAGC 2 cut(s) 250, 376
LweI GCATC 6 cut(s) 448, 451, 733, 832, 871, 897
MaeI CTAG 1 cut(s) 717
MaeIII GTNAC 2 cut(s) 230, 889
MalI GATC 5 cut(s) 8, 65, 599, 656, 702
MboI GATC 5 cut(s) 6, 63, 597, 654, 700
MboII GAAGA 7 cut(s) 66, 79, 133, 139, 315, 494, 948
MfeI CAATTG 1 cut(s) 477
MflI RGATCY 1 cut(s) 597
MluCI AATT 5 cut(s) 283, 477, 610, 637, 795
MlyI GAGTC 3 cut(s) 78, 227, 857
MmeI TCCRAC 1 cut(s) 376
MroI TCCGGA 1 cut(s) 90
MseI TTAA 2 cut(s) 282, 492
MslI CAYNNNNRTG 1 cut(s) 228
MspA1I CMGCKG 2 cut(s) 52, 367
MspCI CTTAAG 1 cut(s) 491
MspI CCGG 2 cut(s) 91, 711
MspR9I CCNGG 1 cut(s) 712
MunI CAATTG 1 cut(s) 477
MvnI CGCG 1 cut(s) 748
MwoI GCNNNNNNNGC 1 cut(s) 119
NciI CCSGG 1 cut(s) 712
NcoI CCATGG 1 cut(s) 852
NdeII GATC 5 cut(s) 6, 63, 597, 654, 700
NlaIII CATG 7 cut(s) 227, 353, 412, 679, 806, 856, 956
NlaIV GGNNCC 1 cut(s) 599
NmuCI GTSAC 2 cut(s) 230, 889
NsbI TGCGCA 1 cut(s) 222
NspV TTCGAA 1 cut(s) 389
PagI TCATGA 1 cut(s) 349
PaqCI CACCTGC 1 cut(s) 508
PfeI GAWTC 1 cut(s) 97
PflFI GACNNNGTC 1 cut(s) 942
PkrI GCNGC 2 cut(s) 265, 366
PleI GAGTC 3 cut(s) 78, 227, 856
PpsI GAGTC 3 cut(s) 78, 227, 856
PspN4I GGNNCC 1 cut(s) 599
PspPI GGNCC 3 cut(s) 542, 624, 720
PsuI RGATCY 1 cut(s) 597
PsyI GACNNNGTC 1 cut(s) 942
RseI CAYNNNNRTG 1 cut(s) 228
SaqAI TTAA 2 cut(s) 282, 492
SatI GCNGC 2 cut(s) 264, 365
Sau3AI GATC 5 cut(s) 6, 63, 597, 654, 700
Sau96I GGNCC 3 cut(s) 542, 624, 720
SchI GAGTC 3 cut(s) 78, 227, 857
ScrFI CCNGG 1 cut(s) 712
SfaNI GCATC 6 cut(s) 448, 451, 733, 832, 871, 897
SfuI TTCGAA 1 cut(s) 389
SinI GGWCC 1 cut(s) 720
SmiMI CAYNNNNRTG 1 cut(s) 228
SmlI CTYRAG 5 cut(s) 155, 235, 288, 491, 947
SmoI CTYRAG 5 cut(s) 155, 235, 288, 491, 947
Sse9I AATT 5 cut(s) 283, 477, 610, 637, 795
SsiI CCGC 5 cut(s) 52, 228, 243, 367, 845
SspI AATATT 1 cut(s) 469
SspMI CTAG 1 cut(s) 717
StyD4I CCNGG 1 cut(s) 710
StyI CCWWGG 1 cut(s) 852
TaaI ACNGT 2 cut(s) 835, 942
TaqI TCGA 2 cut(s) 389, 879
TasI AATT 5 cut(s) 283, 477, 610, 637, 795
TfiI GAWTC 1 cut(s) 97
Tru1I TTAA 2 cut(s) 282, 492
Tru9I TTAA 2 cut(s) 282, 492
TscAI CASTG 2 cut(s) 608, 947
TseFI GTSAC 2 cut(s) 230, 889
TseI GCWGC 2 cut(s) 263, 364
Tsp45I GTSAC 2 cut(s) 230, 889
TspDTI ATGAA 6 cut(s) 106, 133, 338, 425, 570, 795
TspRI CASTG 2 cut(s) 608, 947
Tth111I GACNNNGTC 1 cut(s) 942
Vha464I CTTAAG 1 cut(s) 491
VpaK11BI GGWCC 1 cut(s) 720
XapI RAATTY 1 cut(s) 795
XmiI GTMKAC 1 cut(s) 294
XspI CTAG 1 cut(s) 717
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.