pycom09g05830

UDP-arabinose 4-epimerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0011714
Physical Location & Seq
Forward (+)
4337712 .. 4339803
2092 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1173 bp
ATGGATATTGCAGACTCGAAACGAAGGAGCAAATTCTCCGGCAAGATTTTCGCAGCAGCCGGCCTAATCACCCTCTGCATTGTCTTGTTCAAGCAGTCACATGATTCTAGCAGTCCCAACAAGTCCTTCTCTTATCATGAAGCAGGGATCACGCATGTCTTGGTCACAGGAGGTGCTGGTTACATAGGCTCTCATGCTGCACTTAGGCTTTTGAAGGACTCATACCGTGTAACGATAGTGGACAATCTTTCTCGAGGAAACATCGGTGCTGTTAGGGTTCTTCAACAGTTGTTTCCAGAACCCGGGAGGCTGCAATTCATATACGCTGACCTCGGAGATGCAAAAGCTGTCAATAAGATCTTCTCAGAGAATGCATTTGATGCTGTCATGCATTTTGCAGCTGTTGCTTATGTTGGTGAAAGTACACTCGAGCCCCTTCGATACTATCACAATATCACATCAAATACCCTCTTGGTTTTGGAGGCAATGGCAGCACACAATGTAAAAACATTGATCTATTCCAGTACTTGTGCCACTTATGGTGAACCTGAGAAGATGCCGATCACCGAAGAAACCGAGCAAGTCCCAATCAATCCATATGGAAAAGCAAAGAAGATGGCAGAAGATATCATACTAGATTTCTCCAAAAACTCAAACATGGCAGTCATGATCTTACGATATTTTAATGTGATAGGATCAGACCCTGAGGGAAGACTAGGAGAGGCTCCTCGACCTGAGCTACGTGAGCAGGGACGAATCTCTGGTGCCTGTTTTGATGCCGCTCGAGGGATTATTCCTGGACTGAAGGTCAGAGGAACAGACTATGAAACAGCTGATGGCACTTGTGTGAGGGACTATATAGATGTCACTGACCTGGTTGATGCTCATGTAAAAGCTCTCGCCAACGCACAACCTGGGAAGGTTGGGATCTACAATGTCGGCACTGGAAAAGGTAGTTCAGTGAAGGAATTTGTTGAGGCATGCAAGAAGGCGACAGGGGTGGACATAAAGGTTGATTACCTCGACCGAAGGCCAGGGGACTATGCTAAAGTTTATAGTGATCCTTCCAAGGTAAGGCAGGAGCTGAATTGGACAGCCCACTACACACTTCAAGAGAGCCTGCAGATTGCATGGAGATGGCAAAAATCGCATTTGAATGGCTATGGTCCTTAG

Protein Analysis

391

Amino Acids

42.87

Weight (kDa)

7.65

Isoelectric Point (pI)

41.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RmlD_sub_bind PF04321 52 - 233 2.1e-12 RmlD substrate binding domain
Epimerase PF01370 53 - 314 8.1e-51 NAD dependent epimerase/dehydratase family
Polysacc_synt_2 PF02719 53 - 233 7.2e-13 Polysaccharide biosynthesis protein
GDP_Man_Dehyd PF16363 54 - 375 2.3e-53 GDP-mannose 4,6 dehydratase
3Beta_HSD PF01073 54 - 215 9.7e-14 3-beta hydroxysteroid dehydrogenase/isomerase family
NAD_binding_4 PF07993 55 - 237 3.4e-06 Male sterility protein
NAD_binding_10 PF13460 57 - 230 8.5e-08 NAD(P)H-binding
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0011714)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G30620 AT1G30620 AT1G30620 AT1G30620 AT1G30620
fragaria_vesca FvH4_6g39750
malus_domestica MD17G1127400.v1.1
prunus_persica Prupe.3G187800_v2.0.a1
pyrus_communis pycom09g05830
rosa_chinensis RchiOBHm_Chr2g0153861
rosa_laevigata RLG00000020734
rosa_multiflora Rmu_sc0003887.1_g000013
rosa_roxburghii Rroxscaffold_2G00094700
rosa_rugosa Rorug02G0442600 Rorug02G0442700.1
rosa_samantha Rh2AG506500 Rh2BG516400 Rh2CG492200 Rh2DG528600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 764
AccBSI CCGCTC 1 cut(s) 782
AciI CCGC 1 cut(s) 780
AclWI GGATC 4 cut(s) 155, 703, 935, 1055
AcsI RAATTY 2 cut(s) 32, 968
AcuI CTGAAG 1 cut(s) 824
AfaI GTAC 2 cut(s) 424, 526
AfiI CCNNNNNNNGG 3 cut(s) 302, 786, 1074
AgsI TTSAA 5 cut(s) 91, 214, 284, 1112, 1156
AhdI GACNNNNNGTC 1 cut(s) 806
AjnI CCWGG 4 cut(s) 796, 873, 913, 1033
AjuI GAANNNNNNNTTGG 2 cut(s) 110, 142
AleI CACNNNNGTG 1 cut(s) 845
AluBI AGCT 6 cut(s) 347, 401, 739, 833, 896, 1084
AluI AGCT 6 cut(s) 347, 401, 739, 833, 896, 1084
AlwI GGATC 4 cut(s) 155, 703, 935, 1055
AlwNI CAGNNNCTG 2 cut(s) 704, 1084
Ama87I CYCGRG 4 cut(s) 252, 302, 428, 783
AoxI GGCC 2 cut(s) 61, 1031
ApeKI GCWGC 6 cut(s) 53, 56, 197, 310, 398, 491
ApoI RAATTY 2 cut(s) 32, 968
AspS9I GGNCC 1 cut(s) 1166
AsuC2I CCSGG 2 cut(s) 303, 304
AsuHPI GGTGA 4 cut(s) 61, 428, 554, 556
AvaI CYCGRG 4 cut(s) 252, 302, 428, 783
AvaII GGWCC 1 cut(s) 1166
AxyI CCTNAGG 1 cut(s) 705
BanI GGYRCC 1 cut(s) 764
BanII GRGCYC 1 cut(s) 435
BarI GAAGNNNNNNTAC 4 cut(s) 206, 238, 615, 647
BbsI GAAGAC 1 cut(s) 718
BbvI GCAGC 6 cut(s) 65, 68, 184, 297, 410, 503
BccI CCATC 3 cut(s) 610, 830, 1131
BcgI CGANNNNNNTGC 2 cut(s) 31, 65
BciT130I CCWGG 4 cut(s) 798, 875, 915, 1035
BcnI CCSGG 2 cut(s) 303, 304
BfaI CTAG 3 cut(s) 108, 635, 716
BfmI CTRYAG 1 cut(s) 1121
BglII AGATCT 1 cut(s) 357
BisI GCNGC 7 cut(s) 54, 57, 198, 311, 399, 492, 780
BlsI GCNGC 7 cut(s) 55, 58, 199, 312, 400, 493, 781
BmcAI AGTACT 1 cut(s) 526
Bme1390I CCNGG 6 cut(s) 303, 304, 798, 875, 915, 1035
Bme18I GGWCC 1 cut(s) 1166
BmeRI GACNNNNNGTC 1 cut(s) 806
BmeT110I CYCGRG 4 cut(s) 252, 302, 428, 783
BmgT120I GGNCC 1 cut(s) 1166
BmiI GGNNCC 2 cut(s) 726, 766
BmrFI CCNGG 6 cut(s) 303, 304, 798, 875, 915, 1035
BmsI GCATC 5 cut(s) 328, 370, 546, 766, 871
BpiI GAAGAC 1 cut(s) 718
Bpu10I CCTNAGC 1 cut(s) 735
BpuMI CCSGG 2 cut(s) 303, 304
BsaAI YACGTR 1 cut(s) 743
BsaBI GATNNNNATC 1 cut(s) 560
BsaJI CCNNGG 5 cut(s) 302, 331, 914, 1034, 1068
Bsc4I CCNNNNNNNGG 3 cut(s) 302, 786, 1074
Bse118I RCCGGY 1 cut(s) 59
Bse1I ACTGG 2 cut(s) 522, 949
Bse21I CCTNAGG 1 cut(s) 705
Bse3DI GCAATG 1 cut(s) 492
Bse8I GATNNNNATC 1 cut(s) 560
BseBI CCWGG 4 cut(s) 798, 875, 915, 1035
BseDI CCNNGG 5 cut(s) 302, 331, 914, 1034, 1068
BseJI GATNNNNATC 1 cut(s) 560
BseLI CCNNNNNNNGG 3 cut(s) 302, 786, 1074
BseMI GCAATG 1 cut(s) 492
BseMII CTCAG 4 cut(s) 378, 540, 696, 726
BseNI ACTGG 2 cut(s) 522, 949
BseRI GAGGAG 1 cut(s) 717
BseXI GCAGC 6 cut(s) 65, 68, 184, 297, 410, 503
BsgI GTGCAG 1 cut(s) 183
Bsh1285I CGRYCG 1 cut(s) 1027
BshFI GGCC 2 cut(s) 63, 1033
BshNI GGYRCC 1 cut(s) 764
BsiEI CGRYCG 1 cut(s) 1027
BsiHKCI CYCGRG 4 cut(s) 252, 302, 428, 783
BsiSI CCGG 3 cut(s) 39, 60, 303
BslFI GGGAC 5 cut(s) 99, 569, 765, 866, 1052
BslI CCNNNNNNNGG 3 cut(s) 302, 786, 1074
BsmFI GGGAC 5 cut(s) 99, 569, 765, 866, 1052
BsmI GAATGC 1 cut(s) 376
BsnI GGCC 2 cut(s) 63, 1033
BsoBI CYCGRG 4 cut(s) 252, 302, 428, 783
Bsp1286I GDGCHC 1 cut(s) 435
Bsp143I GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
BspACI CCGC 1 cut(s) 780
BspANI GGCC 2 cut(s) 63, 1033
BspCNI CTCAG 4 cut(s) 377, 541, 697, 727
BspHI TCATGA 2 cut(s) 136, 666
BspLI GGNNCC 2 cut(s) 726, 766
BspMAI CTGCAG 1 cut(s) 1125
BspPI GGATC 4 cut(s) 155, 703, 935, 1055
BspT107I GGYRCC 1 cut(s) 764
BsrBI CCGCTC 1 cut(s) 782
BsrDI GCAATG 1 cut(s) 492
BsrFI RCCGGY 1 cut(s) 59
BsrI ACTGG 2 cut(s) 522, 949
BssAI RCCGGY 1 cut(s) 59
BssECI CCNNGG 5 cut(s) 302, 331, 914, 1034, 1068
BssMI GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
BssT1I CCWWGG 1 cut(s) 1068
Bst2UI CCWGG 4 cut(s) 798, 875, 915, 1035
Bst4CI ACNGT 2 cut(s) 227, 288
BstAPI GCANNNNNTGC 2 cut(s) 380, 404
BstBAI YACGTR 1 cut(s) 743
BstC8I GCNNGC 3 cut(s) 61, 982, 1121
BstDEI CTNAG 6 cut(s) 203, 364, 549, 705, 735, 1170
BstKTI GATC 8 cut(s) 150, 360, 516, 564, 672, 698, 930, 1063
BstMBI GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
BstMCI CGRYCG 1 cut(s) 1027
BstMWI GCNNNNNNNGC 5 cut(s) 380, 404, 491, 745, 1147
BstNI CCWGG 4 cut(s) 798, 875, 915, 1035
BstNSI RCATGY 2 cut(s) 158, 984
BstSCI CCNGG 6 cut(s) 301, 302, 796, 873, 913, 1033
BstSFI CTRYAG 1 cut(s) 1121
BstV1I GCAGC 6 cut(s) 65, 68, 184, 297, 410, 503
BstV2I GAAGAC 1 cut(s) 718
BstX2I RGATCY 2 cut(s) 357, 927
BstYI RGATCY 2 cut(s) 357, 927
Bsu36I CCTNAGG 1 cut(s) 705
BsuRI GGCC 2 cut(s) 63, 1033
BtsIMutI CAGTG 3 cut(s) 867, 942, 966
Cac8I GCNNGC 3 cut(s) 61, 982, 1121
CaiI CAGNNNCTG 2 cut(s) 704, 1084
CciI TCATGA 2 cut(s) 136, 666
Cfr10I RCCGGY 1 cut(s) 59
Cfr13I GGNCC 1 cut(s) 1166
Cfr9I CCCGGG 1 cut(s) 302
CsiI ACCWGGT 1 cut(s) 873
Csp6I GTAC 2 cut(s) 423, 525
CviQI GTAC 2 cut(s) 423, 525
DdeI CTNAG 6 cut(s) 203, 364, 549, 705, 735, 1170
DpnI GATC 8 cut(s) 149, 359, 515, 563, 671, 697, 929, 1062
DpnII GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
DriI GACNNNNNGTC 1 cut(s) 806
Eam1105I GACNNNNNGTC 1 cut(s) 806
Eco130I CCWWGG 1 cut(s) 1068
Eco24I GRGCYC 1 cut(s) 435
Eco32I GATATC 1 cut(s) 628
Eco47I GGWCC 1 cut(s) 1166
Eco57I CTGAAG 1 cut(s) 824
Eco81I CCTNAGG 1 cut(s) 705
Eco88I CYCGRG 4 cut(s) 252, 302, 428, 783
EcoRII CCWGG 4 cut(s) 796, 873, 913, 1033
EcoRV GATATC 1 cut(s) 628
EcoT14I CCWWGG 1 cut(s) 1068
EcoT22I ATGCAT 2 cut(s) 376, 393
EcoT38I GRGCYC 1 cut(s) 435
ErhI CCWWGG 1 cut(s) 1068
FaqI GGGAC 5 cut(s) 99, 569, 765, 866, 1052
FauNDI CATATG 1 cut(s) 598
Fnu4HI GCNGC 7 cut(s) 54, 57, 198, 311, 399, 492, 780
FriOI GRGCYC 1 cut(s) 435
Fsp4HI GCNGC 7 cut(s) 54, 57, 198, 311, 399, 492, 780
FspBI CTAG 3 cut(s) 108, 635, 716
GluI GCNGC 7 cut(s) 54, 57, 198, 311, 399, 492, 780
HaeIII GGCC 2 cut(s) 63, 1033
HapII CCGG 3 cut(s) 39, 60, 303
HinfI GANTC 4 cut(s) 14, 104, 218, 756
HpaII CCGG 3 cut(s) 39, 60, 303
HphI GGTGA 4 cut(s) 61, 428, 554, 556
Hpy166II GTNNAC 4 cut(s) 241, 425, 545, 1003
Hpy188I TCNGA 4 cut(s) 335, 367, 700, 812
Hpy188III TCNNGA 5 cut(s) 137, 252, 296, 667, 1112
Hpy8I GTNNAC 4 cut(s) 241, 425, 545, 1003
HpyCH4III ACNGT 2 cut(s) 227, 288
HpyCH4IV ACGT 1 cut(s) 742
HpyF10VI GCNNNNNNNGC 5 cut(s) 380, 404, 491, 745, 1147
HpyF3I CTNAG 6 cut(s) 203, 364, 549, 705, 735, 1170
HpySE526I ACGT 1 cut(s) 742
KroI GCCGGC 1 cut(s) 59
KroNI GCCGGC 1 cut(s) 61
Kzo9I GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
LmnI GCTCC 3 cut(s) 27, 730, 1081
Lsp1109I GCAGC 6 cut(s) 65, 68, 184, 297, 410, 503
LweI GCATC 5 cut(s) 328, 370, 546, 766, 871
MabI ACCWGGT 1 cut(s) 873
MaeI CTAG 3 cut(s) 108, 635, 716
MaeII ACGT 1 cut(s) 742
MaeIII GTNAC 5 cut(s) 96, 163, 179, 229, 865
MalI GATC 8 cut(s) 149, 359, 515, 563, 671, 697, 929, 1062
MbiI CCGCTC 1 cut(s) 782
MboI GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
MboII GAAGA 7 cut(s) 272, 352, 565, 581, 625, 635, 723
MflI RGATCY 2 cut(s) 357, 927
MhlI GDGCHC 1 cut(s) 435
MluCI AATT 4 cut(s) 32, 314, 968, 1087
MlyI GAGTC 2 cut(s) 8, 212
Mph1103I ATGCAT 2 cut(s) 376, 393
MroNI GCCGGC 1 cut(s) 59
MseI TTAA 1 cut(s) 684
MslI CAYNNNNRTG 3 cut(s) 845, 1135, 1155
MspA1I CMGCKG 2 cut(s) 401, 833
MspI CCGG 3 cut(s) 39, 60, 303
MspR9I CCNGG 6 cut(s) 303, 304, 798, 875, 915, 1035
Mva1269I GAATGC 1 cut(s) 376
MvaI CCWGG 4 cut(s) 798, 875, 915, 1035
MwoI GCNNNNNNNGC 5 cut(s) 380, 404, 491, 745, 1147
NaeI GCCGGC 1 cut(s) 61
NciI CCSGG 2 cut(s) 303, 304
NdeI CATATG 1 cut(s) 598
NdeII GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
NgoMIV GCCGGC 1 cut(s) 59
NlaIV GGNNCC 2 cut(s) 726, 766
NmuCI GTSAC 3 cut(s) 96, 163, 865
NsiI ATGCAT 2 cut(s) 376, 393
NspI RCATGY 2 cut(s) 158, 984
OliI CACNNNNGTG 1 cut(s) 845
PaeI GCATGC 1 cut(s) 984
PaeR7I CTCGAG 3 cut(s) 252, 428, 783
PagI TCATGA 2 cut(s) 136, 666
PctI GAATGC 1 cut(s) 376
PdiI GCCGGC 1 cut(s) 61
PfeI GAWTC 2 cut(s) 104, 756
PfoI TCCNGGA 1 cut(s) 796
PkrI GCNGC 7 cut(s) 55, 58, 199, 312, 400, 493, 781
PleI GAGTC 2 cut(s) 8, 212
PpsI GAGTC 2 cut(s) 8, 212
Ppu21I YACGTR 1 cut(s) 743
Psp6I CCWGG 4 cut(s) 796, 873, 913, 1033
PspGI CCWGG 4 cut(s) 796, 873, 913, 1033
PspN4I GGNNCC 2 cut(s) 726, 766
PspPI GGNCC 1 cut(s) 1166
PspXI VCTCGAGB 2 cut(s) 428, 783
PstI CTGCAG 1 cut(s) 1125
PstNI CAGNNNCTG 2 cut(s) 704, 1084
PsuI RGATCY 2 cut(s) 357, 927
PvuII CAGCTG 2 cut(s) 401, 833
RsaI GTAC 2 cut(s) 424, 526
RsaNI GTAC 2 cut(s) 423, 525
RseI CAYNNNNRTG 3 cut(s) 845, 1135, 1155
SaqAI TTAA 1 cut(s) 684
SatI GCNGC 7 cut(s) 54, 57, 198, 311, 399, 492, 780
Sau3AI GATC 8 cut(s) 147, 357, 513, 561, 669, 695, 927, 1060
Sau96I GGNCC 1 cut(s) 1166
ScaI AGTACT 1 cut(s) 526
SchI GAGTC 2 cut(s) 8, 212
ScrFI CCNGG 6 cut(s) 303, 304, 798, 875, 915, 1035
SduI GDGCHC 1 cut(s) 435
SexAI ACCWGGT 1 cut(s) 873
SfaNI GCATC 5 cut(s) 328, 370, 546, 766, 871
SfcI CTRYAG 1 cut(s) 1121
Sfr274I CTCGAG 3 cut(s) 252, 428, 783
SinI GGWCC 1 cut(s) 1166
SlaI CTCGAG 3 cut(s) 252, 428, 783
SmaI CCCGGG 1 cut(s) 304
SmiMI CAYNNNNRTG 3 cut(s) 845, 1135, 1155
SmlI CTYRAG 3 cut(s) 252, 428, 783
SmoI CTYRAG 3 cut(s) 252, 428, 783
SphI GCATGC 1 cut(s) 984
Sse9I AATT 4 cut(s) 32, 314, 968, 1087
SsiI CCGC 1 cut(s) 780
SspMI CTAG 3 cut(s) 108, 635, 716
StyD4I CCNGG 6 cut(s) 301, 302, 796, 873, 913, 1033
StyI CCWWGG 1 cut(s) 1068
TaaI ACNGT 2 cut(s) 227, 288
TaiI ACGT 1 cut(s) 745
TaqI TCGA 7 cut(s) 17, 253, 429, 439, 730, 784, 1023
TaqII GACCGA 1 cut(s) 1041
TasI AATT 4 cut(s) 32, 314, 968, 1087
TatI WGTACW 2 cut(s) 422, 524
TauI GCSGC 1 cut(s) 782
TfiI GAWTC 2 cut(s) 104, 756
Tru1I TTAA 1 cut(s) 684
Tru9I TTAA 1 cut(s) 684
TscAI CASTG 3 cut(s) 874, 949, 966
TseFI GTSAC 3 cut(s) 96, 163, 865
TseI GCWGC 6 cut(s) 53, 56, 197, 310, 398, 491
Tsp45I GTSAC 3 cut(s) 96, 163, 865
TspDTI ATGAA 3 cut(s) 153, 307, 840
TspMI CCCGGG 1 cut(s) 302
TspRI CASTG 3 cut(s) 874, 949, 966
VpaK11BI GGWCC 1 cut(s) 1166
XapI RAATTY 2 cut(s) 32, 968
XceI RCATGY 2 cut(s) 158, 984
XhoI CTCGAG 3 cut(s) 252, 428, 783
XmaI CCCGGG 1 cut(s) 302
XspI CTAG 3 cut(s) 108, 635, 716
ZrmI AGTACT 1 cut(s) 526
Zsp2I ATGCAT 2 cut(s) 376, 393
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.