Rroxscaffold_2G00078250

Belongs to the glyceraldehyde-3-phosphate dehydrogenase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000502
Physical Location & Seq
Reverse (-)
1611187 .. 1613553
2367 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00078250.1

Sequence Viewer

Length: 1050 bp
ATGGCCAAGATCAAGATTGGCATAAATGGATTTGGAAGAATCGGCCGCTTGGTGACAAGGGTTGCTCTACAAAGAGATGATATCGAAATAGTTGGTATAAATGATCCAAACATCGATGCCAAGTATATGATCTACATGTTTAAGTACGATAGTGTTCACGGTAGGTGGAAGCACCAACATGAACTTTCGCTTAAGGACGAGAAGACCATTCTCTTTGGTGACCACCCAGTTAGAATTTTTGATGGCAGGGATCCCGCGTACATCCCATGGCAAGAGGTCGATGCTGAATTTGTGGTCGAGGCCTCTGGAAATATGACGGATCACGCCAGAGCTGCTCTCCATATGCAGTATGGTGCAAGGAAGGTTGTAATTACAGCTCCAAGTAGCGATGCTCCTATGTTCGTTGTAGGTGTAAATGAGAAGGAGTACACTCCAGATCTTAAAGTTGTTTCTAATGCAAGCTGTGCTATCAACTGTCTTGCTCCATTGGCAAAGGTTATCCATGAGAAATTCGGTATTGTGGAGGGTCTAATGACTACGGTCCACTCTATTACTGCTTTTCAAAAAGCCGTTGATGCACCATGTCAGAAAGACTGGAGAGTTGGTAGAGCTGCTGGGCGCAACATCATTCCTAGCTCCAATACTGCTAGGAATGATGGTGTTGGTAAAGTGCTGCCGGCACTGGAAGGGAAGCTGACAGGAATGGCCTTCTGCATTCCCACTGTTGATGTTTCTGTGGTTGACCTCACTGTGAGACTTGAGAAGCAGGCTACTTATGATGAGATCAAAAATGCTATCAAGACAGAGTCTGAGGGTAGCCTGGAAGGAATCCTTGGATACACTGATGATGATGTGGTTTCCACCGACTTTTTAGGTGACAATAGGTCGAGCATTTTCGATGCCAAGGCTGGAATTGCTTTGAATGACAACTTTGTGAAGCTTGTCTCTTGGTATGATAACGAATGGGCTTATAGCTCACGAGTTATCGACTTGATCTGTCACATGGCCTCTGTTAGCCAAAATGAAAGTTCAGAGGCAGCTAATTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00010 ko00710 ko01100 ko01110 ko01120 ko01130 ko01200 ko01230 ko04066 ko05010 map00010 map00710 map01100 map01110 map01120 map01130 map01200 map01230 map04066 map05010
Pfam Domains
Protein Families
Gp_dh_C Gp_dh_N

Protein Analysis

349

Amino Acids

38.4

Weight (kDa)

5.42

Isoelectric Point (pI)

28.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Gp_dh_N PF00044 4 - 107 1.7e-32 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain
Gp_dh_C PF02800 160 - 318 1.3e-61 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain
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: OG0000502)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G13440 AT1G13440 AT3G04120
fragaria_vesca FvH4_4g24420 FvH4_5g07640 FvH4_6g52741 FvH4_6g52755
malus_domestica MD06G1148800.v1.1 MD09G1016900.v1.1 MD13G1111500.v1.1 MD16G1111100.v1.1 MD17G1017300.v1.1
prunus_persica Prupe.1G234000_v2.0.a1 Prupe.1G234000_v2.0.a1 Prupe.1G234000_v2.0.a1 Prupe.3G300600_v2.0.a1 Prupe.5G155800_v2.0.a1 Prupe.5G155800_v2.0.a1
pyrus_communis pycom06g13820 pycom111g01370 pycom13g09680 pycom16g09410
rosa_chinensis RchiOBHm_Chr1g0380411 RchiOBHm_Chr2g0174371 RchiOBHm_Chr2g0174391 RchiOBHm_Chr2g0174401 RchiOBHm_Chr4g0431271 RchiOBHm_Chr7g0190831 RchiOBHm_Chr7g0209601
rosa_laevigata RLG00000003113 RLG00000004459 RLG00000004490 RLG00000022261 RLG00000022262 RLG00000026305
rosa_multiflora Rmu_sc0000033.1_g000020 Rmu_sc0000243.1_g000023 Rmu_sc0002637.1_g000006 Rmu_sc0002637.1_g000007 Rmu_sc0004033.1_g000020 Rmu_sc0004787.1_g000001 Rmu_sc0005371.1_g000004 Rmu_sc0007885.1_g000015 Rmu_sc0019128.1_g000001
rosa_roxburghii Rroxscaffold_2G00078250 Rroxscaffold_2G00078260 Rroxscaffold_3G00249220 Rroxscaffold_3G00264260 Rroxscaffold_4G00279410 Rroxscaffold_5G00372820
rosa_rugosa Rorug01G0420800 Rorug04G0249800 Rorug04G0249900 Rorug06G0507500 Rorug07G0114500.1
rosa_samantha Rh1AG445000 Rh1BG400200 Rh1CG414800 Rh1DG430100 Rh2AG657500 Rh2AG657600 Rh2BG668500 Rh2BG668600 Rh2BG668700 Rh2CG631600 Rh2DG682100 Rh4AG305700 Rh4BG313100 Rh4CG329300 Rh4DG309500 Rh5AG149300 Rh5DG147700 Rh7AG114100 Rh7AG248500 Rh7BG116700 Rh7BG242600 Rh7CG119400 Rh7CG264500 Rh7DG117900 Rh7DG254400
rosa_wichuraiana Rw1G038730 Rw2G053850 Rw2G053860 Rw4G026580 Rw5G013240 Rw7G021060 Rw7G021070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 257
AciI CCGC 2 cut(s) 46, 255
AclWI GGATC 4 cut(s) 98, 245, 258, 327
AcoI YGGCCR 2 cut(s) 3, 43
AcsI RAATTY 3 cut(s) 234, 287, 509
AfaI GTAC 3 cut(s) 146, 260, 428
AflII CTTAAG 1 cut(s) 191
AflIII ACRYGT 1 cut(s) 135
AgsI TTSAA 2 cut(s) 563, 922
AhdI GACNNNNNGTC 1 cut(s) 883
AjnI CCWGG 1 cut(s) 819
AjuI GAANNNNNNNTTGG 2 cut(s) 816, 848
AluBI AGCT 9 cut(s) 332, 377, 462, 611, 636, 694, 940, 975, 1040
AluI AGCT 9 cut(s) 332, 377, 462, 611, 636, 694, 940, 975, 1040
Alw26I GTCTC 2 cut(s) 748, 949
AlwI GGATC 4 cut(s) 98, 245, 258, 327
AlwNI CAGNNNCTG 1 cut(s) 809
AoxI GGCC 5 cut(s) 3, 43, 300, 705, 1005
ApeKI GCWGC 4 cut(s) 332, 611, 673, 1037
ApoI RAATTY 3 cut(s) 234, 287, 509
AspLEI GCGC 1 cut(s) 621
AspS9I GGNCC 1 cut(s) 541
AsuHPI GGTGA 3 cut(s) 64, 230, 887
AvaII GGWCC 1 cut(s) 541
BalI TGGCCA 1 cut(s) 5
BamHI GGATCC 1 cut(s) 250
BauI CACGAG 1 cut(s) 978
BbsI GAAGAC 1 cut(s) 209
BbvI GCAGC 3 cut(s) 319, 598, 660
BccI CCATC 2 cut(s) 236, 650
BceAI ACGGC 1 cut(s) 554
BciT130I CCWGG 1 cut(s) 821
BciVI GTATCC 1 cut(s) 830
BcoDI GTCTC 2 cut(s) 748, 949
BfaI CTAG 2 cut(s) 633, 648
BfrI CTTAAG 1 cut(s) 191
BfuI GTATCC 1 cut(s) 830
BglII AGATCT 1 cut(s) 436
BisI GCNGC 5 cut(s) 46, 333, 612, 674, 1038
BlsI GCNGC 5 cut(s) 47, 334, 613, 675, 1039
Bme1390I CCNGG 1 cut(s) 821
Bme18I GGWCC 1 cut(s) 541
BmeRI GACNNNNNGTC 1 cut(s) 883
BmgT120I GGNCC 1 cut(s) 541
BmiI GGNNCC 1 cut(s) 252
BmrFI CCNGG 1 cut(s) 821
BmrI ACTGGG 1 cut(s) 221
BmsI GCATC 5 cut(s) 106, 271, 379, 565, 889
BmuI ACTGGG 1 cut(s) 221
BoxI GACNNNNGTC 1 cut(s) 539
BpiI GAAGAC 1 cut(s) 209
BplI GAGNNNNNCTC 2 cut(s) 321, 353
BpmI CTGGAG 2 cut(s) 417, 616
BpuEI CTTGAG 1 cut(s) 779
Bsa29I ATCGAT 1 cut(s) 114
BsaJI CCNNGG 3 cut(s) 266, 832, 903
BsaXI ACNNNNNCTCC 2 cut(s) 589, 619
Bse118I RCCGGY 1 cut(s) 676
Bse1I ACTGG 3 cut(s) 227, 599, 687
BseBI CCWGG 1 cut(s) 821
BseCI ATCGAT 1 cut(s) 114
BseDI CCNNGG 3 cut(s) 266, 832, 903
BseGI GGATG 1 cut(s) 261
BseMII CTCAG 1 cut(s) 801
BseNI ACTGG 3 cut(s) 227, 599, 687
BseX3I CGGCCG 1 cut(s) 43
BseXI GCAGC 3 cut(s) 319, 598, 660
BseYI CCCAGC 1 cut(s) 614
Bsh1236I CGCG 1 cut(s) 257
Bsh1285I CGRYCG 1 cut(s) 46
BshFI GGCC 5 cut(s) 5, 45, 302, 707, 1007
BshVI ATCGAT 1 cut(s) 114
BsiEI CGRYCG 1 cut(s) 46
BsiSI CCGG 1 cut(s) 677
BsmAI GTCTC 2 cut(s) 748, 949
BsmI GAATGC 1 cut(s) 714
BsnI GGCC 5 cut(s) 5, 45, 302, 707, 1007
Bsp143I GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
Bsp19I CCATGG 1 cut(s) 266
BspACI CCGC 2 cut(s) 46, 255
BspANI GGCC 5 cut(s) 5, 45, 302, 707, 1007
BspCNI CTCAG 1 cut(s) 802
BspDI ATCGAT 1 cut(s) 114
BspFNI CGCG 1 cut(s) 257
BspLI GGNNCC 1 cut(s) 252
BspPI GGATC 4 cut(s) 98, 245, 258, 327
BspTI CTTAAG 1 cut(s) 191
BsrFI RCCGGY 1 cut(s) 676
BsrI ACTGG 3 cut(s) 227, 599, 687
BssAI RCCGGY 1 cut(s) 676
BssECI CCNNGG 3 cut(s) 266, 832, 903
BssMI GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
BssSI CACGAG 1 cut(s) 978
BssT1I CCWWGG 3 cut(s) 266, 832, 903
Bst2BI CACGAG 1 cut(s) 978
Bst2UI CCWGG 1 cut(s) 821
Bst4CI ACNGT 5 cut(s) 161, 476, 541, 724, 751
BstAFI CTTAAG 1 cut(s) 191
BstAPI GCANNNNNTGC 1 cut(s) 464
BstC8I GCNNGC 3 cut(s) 460, 678, 768
BstDEI CTNAG 1 cut(s) 810
BstDSI CCRYGG 1 cut(s) 266
BstEII GGTNACC 1 cut(s) 218
BstF5I GGATG 1 cut(s) 261
BstFNI CGCG 1 cut(s) 257
BstHHI GCGC 1 cut(s) 621
BstKTI GATC 8 cut(s) 12, 106, 132, 253, 322, 439, 786, 996
BstMAI GTCTC 2 cut(s) 748, 949
BstMBI GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
BstMCI CGRYCG 1 cut(s) 46
BstMWI GCNNNNNNNGC 5 cut(s) 332, 464, 488, 575, 914
BstNI CCWGG 1 cut(s) 821
BstNSI RCATGY 1 cut(s) 139
BstPAI GACNNNNGTC 1 cut(s) 539
BstPI GGTNACC 1 cut(s) 218
BstSCI CCNGG 1 cut(s) 819
BstUI CGCG 1 cut(s) 257
BstV1I GCAGC 3 cut(s) 319, 598, 660
BstV2I GAAGAC 1 cut(s) 209
BstX2I RGATCY 2 cut(s) 250, 436
BstYI RGATCY 2 cut(s) 250, 436
BstZI CGGCCG 1 cut(s) 43
Bsu15I ATCGAT 1 cut(s) 114
BsuI GTATCC 1 cut(s) 830
BsuRI GGCC 5 cut(s) 5, 45, 302, 707, 1007
BsuTUI ATCGAT 1 cut(s) 114
BtgI CCRYGG 1 cut(s) 266
BtgZI GCGATG 1 cut(s) 402
BtsCI GGATG 1 cut(s) 261
BtsIMutI CAGTG 4 cut(s) 680, 720, 747, 840
Cac8I GCNNGC 3 cut(s) 460, 678, 768
CaiI CAGNNNCTG 1 cut(s) 809
CfoI GCGC 1 cut(s) 621
Cfr10I RCCGGY 1 cut(s) 676
Cfr13I GGNCC 1 cut(s) 541
ClaI ATCGAT 1 cut(s) 114
Csp6I GTAC 3 cut(s) 145, 259, 427
CviAII CATG 6 cut(s) 136, 179, 267, 503, 582, 1003
CviQI GTAC 3 cut(s) 145, 259, 427
DdeI CTNAG 1 cut(s) 810
DpnI GATC 8 cut(s) 11, 105, 131, 252, 321, 438, 785, 995
DpnII GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
DriI GACNNNNNGTC 1 cut(s) 883
EaeI YGGCCR 2 cut(s) 3, 43
EagI CGGCCG 1 cut(s) 43
Eam1105I GACNNNNNGTC 1 cut(s) 883
EclXI CGGCCG 1 cut(s) 43
Eco130I CCWWGG 3 cut(s) 266, 832, 903
Eco147I AGGCCT 1 cut(s) 302
Eco32I GATATC 1 cut(s) 82
Eco47I GGWCC 1 cut(s) 541
Eco52I CGGCCG 1 cut(s) 43
Eco91I GGTNACC 1 cut(s) 218
EcoO65I GGTNACC 1 cut(s) 218
EcoRII CCWGG 1 cut(s) 819
EcoRV GATATC 1 cut(s) 82
EcoT14I CCWWGG 3 cut(s) 266, 832, 903
ErhI CCWWGG 3 cut(s) 266, 832, 903
FaeI CATG 6 cut(s) 139, 182, 270, 506, 585, 1006
FalI AAGNNNNNCTT 2 cut(s) 816, 848
FatI CATG 6 cut(s) 135, 178, 266, 502, 581, 1002
FauI CCCGC 1 cut(s) 262
FauNDI CATATG 1 cut(s) 342
Fnu4HI GCNGC 5 cut(s) 46, 333, 612, 674, 1038
FokI GGATG 1 cut(s) 248
Fsp4HI GCNGC 5 cut(s) 46, 333, 612, 674, 1038
FspBI CTAG 2 cut(s) 633, 648
GlaI GCGC 1 cut(s) 620
GluI GCNGC 5 cut(s) 46, 333, 612, 674, 1038
GsaI CCCAGC 1 cut(s) 618
GsuI CTGGAG 2 cut(s) 417, 616
HaeIII GGCC 5 cut(s) 5, 45, 302, 707, 1007
HapII CCGG 1 cut(s) 677
HhaI GCGC 1 cut(s) 621
Hin1II CATG 6 cut(s) 139, 182, 270, 506, 585, 1006
Hin6I GCGC 1 cut(s) 619
HinP1I GCGC 1 cut(s) 619
HincII GTYRAC 1 cut(s) 742
HindII GTYRAC 1 cut(s) 742
HindIII AAGCTT 1 cut(s) 938
HinfI GANTC 3 cut(s) 39, 806, 828
HpaII CCGG 1 cut(s) 677
HphI GGTGA 3 cut(s) 64, 230, 887
Hpy166II GTNNAC 4 cut(s) 157, 429, 544, 742
Hpy188I TCNGA 3 cut(s) 588, 811, 1033
Hpy188III TCNNGA 6 cut(s) 13, 306, 434, 799, 978, 1047
Hpy8I GTNNAC 4 cut(s) 157, 429, 544, 742
HpyAV CCTTC 5 cut(s) 355, 415, 680, 718, 818
HpyCH4III ACNGT 5 cut(s) 161, 476, 541, 724, 751
HpyCH4V TGCA 5 cut(s) 346, 356, 458, 578, 714
HpyF10VI GCNNNNNNNGC 5 cut(s) 332, 464, 488, 575, 914
HpyF3I CTNAG 1 cut(s) 810
Hsp92II CATG 6 cut(s) 139, 182, 270, 506, 585, 1006
HspAI GCGC 1 cut(s) 619
KroI GCCGGC 1 cut(s) 676
KroNI GCCGGC 1 cut(s) 678
Kzo9I GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
LmnI GCTCC 4 cut(s) 382, 397, 487, 641
Lsp1109I GCAGC 3 cut(s) 319, 598, 660
LweI GCATC 5 cut(s) 106, 271, 379, 565, 889
MaeI CTAG 2 cut(s) 633, 648
MaeIII GTNAC 4 cut(s) 52, 218, 875, 998
MalI GATC 8 cut(s) 11, 105, 131, 252, 321, 438, 785, 995
MboI GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
MboII GAAGA 2 cut(s) 48, 214
MflI RGATCY 2 cut(s) 250, 436
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 6 cut(s) 234, 287, 369, 509, 912, 1042
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 1 cut(s) 815
MnlI CCTC 8 cut(s) 268, 292, 313, 517, 755, 805, 1018, 1027
Mox20I TGGCCA 1 cut(s) 5
MroNI GCCGGC 1 cut(s) 676
MscI TGGCCA 1 cut(s) 5
MseI TTAA 3 cut(s) 141, 192, 441
MslI CAYNNNNRTG 1 cut(s) 177
Msp20I TGGCCA 1 cut(s) 5
MspCI CTTAAG 1 cut(s) 191
MspI CCGG 1 cut(s) 677
MspR9I CCNGG 1 cut(s) 821
Mva1269I GAATGC 1 cut(s) 714
MvaI CCWGG 1 cut(s) 821
MvnI CGCG 1 cut(s) 257
MwoI GCNNNNNNNGC 5 cut(s) 332, 464, 488, 575, 914
NaeI GCCGGC 1 cut(s) 678
NcoI CCATGG 1 cut(s) 266
NdeI CATATG 1 cut(s) 342
NdeII GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
NgoMIV GCCGGC 1 cut(s) 676
NlaIII CATG 6 cut(s) 139, 182, 270, 506, 585, 1006
NlaIV GGNNCC 1 cut(s) 252
NmuCI GTSAC 4 cut(s) 52, 218, 875, 998
NspI RCATGY 1 cut(s) 139
PceI AGGCCT 1 cut(s) 302
PciI ACATGT 1 cut(s) 135
PctI GAATGC 1 cut(s) 714
PdiI GCCGGC 1 cut(s) 678
PfeI GAWTC 2 cut(s) 39, 828
PflFI GACNNNGTC 1 cut(s) 805
PkrI GCNGC 5 cut(s) 47, 334, 613, 675, 1039
PleI GAGTC 1 cut(s) 814
PpsI GAGTC 1 cut(s) 814
PscI ACATGT 1 cut(s) 135
PshAI GACNNNNGTC 1 cut(s) 539
Psp6I CCWGG 1 cut(s) 819
PspEI GGTNACC 1 cut(s) 218
PspFI CCCAGC 1 cut(s) 614
PspGI CCWGG 1 cut(s) 819
PspN4I GGNNCC 1 cut(s) 252
PspPI GGNCC 1 cut(s) 541
PstNI CAGNNNCTG 1 cut(s) 809
PsuI RGATCY 2 cut(s) 250, 436
PsyI GACNNNGTC 1 cut(s) 805
RsaI GTAC 3 cut(s) 146, 260, 428
RsaNI GTAC 3 cut(s) 145, 259, 427
RseI CAYNNNNRTG 1 cut(s) 177
SaqAI TTAA 3 cut(s) 141, 192, 441
SatI GCNGC 5 cut(s) 46, 333, 612, 674, 1038
Sau3AI GATC 8 cut(s) 9, 103, 129, 250, 319, 436, 783, 993
Sau96I GGNCC 1 cut(s) 541
SchI GAGTC 1 cut(s) 815
ScrFI CCNGG 1 cut(s) 821
SfaNI GCATC 5 cut(s) 106, 271, 379, 565, 889
SinI GGWCC 1 cut(s) 541
SmiMI CAYNNNNRTG 1 cut(s) 177
SmlI CTYRAG 2 cut(s) 191, 758
SmoI CTYRAG 2 cut(s) 191, 758
Sse9I AATT 6 cut(s) 234, 287, 369, 509, 912, 1042
SseBI AGGCCT 1 cut(s) 302
SsiI CCGC 2 cut(s) 46, 255
SspMI CTAG 2 cut(s) 633, 648
StuI AGGCCT 1 cut(s) 302
StyD4I CCNGG 1 cut(s) 819
StyI CCWWGG 3 cut(s) 266, 832, 903
TaaI ACNGT 5 cut(s) 161, 476, 541, 724, 751
TaqI TCGA 7 cut(s) 84, 114, 279, 297, 887, 897, 987
TasI AATT 6 cut(s) 234, 287, 369, 509, 912, 1042
TatI WGTACW 1 cut(s) 426
TauI GCSGC 1 cut(s) 48
TfiI GAWTC 2 cut(s) 39, 828
Tru1I TTAA 3 cut(s) 141, 192, 441
Tru9I TTAA 3 cut(s) 141, 192, 441
TscAI CASTG 4 cut(s) 687, 727, 754, 847
TseFI GTSAC 4 cut(s) 52, 218, 875, 998
TseI GCWGC 4 cut(s) 332, 611, 673, 1037
Tsp45I GTSAC 4 cut(s) 52, 218, 875, 998
TspDTI ATGAA 2 cut(s) 195, 1038
TspGWI ACGGA 1 cut(s) 332
TspRI CASTG 4 cut(s) 687, 727, 754, 847
Tth111I GACNNNGTC 1 cut(s) 805
Vha464I CTTAAG 1 cut(s) 191
VpaK11BI GGWCC 1 cut(s) 541
XapI RAATTY 3 cut(s) 234, 287, 509
XceI RCATGY 1 cut(s) 139
XcmI CCANNNNNNNNNTGG 1 cut(s) 347
XspI CTAG 2 cut(s) 633, 648
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.