Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0016121

Physical Location & Seq

Genomic Coordinates Forward (+)

8603212 .. 8605810

Gene Structure 2599 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G23820.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1383 bp

ATGCCCCTGTCGGCGACGGCGGATACAAGCAAGACGGTGAAGCTGGAGAGGTACAATAGCTACCTCCGGAAGATTCACAGCACCAAAGTTCTCAACGCTTCTTCTAAAGTTCTTTTCCGAGCAACGCTTCTCGTAGCTCTTGTCCTCGTCCTCATCTTCGCCATCAACTACCCTCCACTCTCCGATAGCCGCGCCGCCGCAGCACACCACCTCCACCGTCGTAGCTTCTTATCCACCGGACTCTTCTCCTCCTCCTCTTCTTCCTCCTCTATCGGTGGAGCCGCGTGGGAAAAGCGCGTTAGACAATCCTCAACAGCCAAACGACCACACGGTCTCTCCGTCCTAGTCACCGGAGCTGCCGGATTCGTCGGATCCCACTGCTCACTTGCGCTGCGAAAACGTGGCGATGGAGTCTTAGGATTCGACAACTTCAACGATTACTATGACCCATCACTCAAAAGAGCAAGACAAGAGCTCTTGGAGAAACAACAAGTGTTCATCGTCGAAGGTGATCTCAACGATGGACCACTCTTACGTAAACTCTTCGACGTTGTCCCTTTCACTCACATCCTTCACTTAGCCGCTCAAGCCGGAGTACGTTACGCTATGAAAAACCCTCAATCTTACATCGCCTCCAACATCGCCGGATTCGTTAACCTTCTTGAAGTGGCTAAAGCAGCTAATCCACAACCTGCGATTGTTTGGGCTTCCTCTAGCTCTGTTTACGGTCTCAACACTGAGAATCCATTCTCTGAAGAACACCGAACAGACCAACCAGCGAGTCTTTACGCAGCAACCAAGAAAGCTGGTGAAGAGATCGCACATACTTACAACCACATCTACGGTCTCTCCTTAACCGGACTCCGGTTCTTTACGGTTTACGGTCCATGGGGAAGACCAGACATGGCTTACTTCTTCTTCACTAAAGACATCCTCCACGGTAAATCAATCGACATTTACAGAACTCAGGACAATCAAGAAGTGGCGCGTGACTTCACCTACATCGATGACATCGTTAAAGGTTGTGTCGGTGCGTTAGACACGGCTGAGAAAAGCACCGGAAGCGGCGGAAAGAAGCGAGGACAAGCTCAGCTACGTGTTTACAATCTAGGAAACACGTCCCCGGTTCCGGTTGGGAGATTGGTCTCGATCTTGGAAGGATTGTTAGGGACAAAAGCTAAGAAGCATCTTATCAAAATGCCAAGAAACGGTGACGTGCCTTACACGCATGCTAATGTGAGTTTAGCGTATAAAGATTTCGGGTACAAACCGACGACGGATCTCGCGGCGGGGCTGAGGAAGTTCGTCAAGTGGTACGTTGGTTATTATGGGATTCAGCCGAGGGTAAAAAAGGAAACTTCTCACGCCGAAGATTCCGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005794 GO:0005802 GO:0005975 GO:0005996 GO:0006063 GO:0006082 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009987 GO:0012505 GO:0016051 GO:0016053 GO:0019586 GO:0019752 GO:0031410 GO:0031982 GO:0031984 GO:0032787 GO:0033481 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0046364 GO:0046394 GO:0050829 GO:0050832 GO:0050896 GO:0051704 GO:0051707 GO:0071704 GO:0072330 GO:0097708 GO:0098542 GO:0098791 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

Epimerase GDP_Man_Dehyd

Protein Analysis

460

Amino Acids

50.57

Weight (kDa)

9.65

Isoelectric Point (pI)

38.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	114 - 351	1.8e-48	NAD dependent epimerase/dehydratase family
RmlD_sub_bind	PF04321	114 - 295	7e-10	RmlD substrate binding domain
Polysacc_synt_2	PF02719	114 - 236	8.6e-07	Polysaccharide biosynthesis protein
GDP_Man_Dehyd	PF16363	115 - 434	4e-46	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	115 - 393	1.3e-12	3-beta hydroxysteroid dehydrogenase/isomerase family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016121)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G23820
fragaria_vesca	FvH4_4g13320
malus_domestica	MD05G1230600.v1.1
prunus_persica	Prupe.1G164800_v2.0.a1
pyrus_communis	pycom04g01330
rosa_chinensis	RchiOBHm_Chr4g0413621
rosa_laevigata	RLG00000008205
rosa_multiflora	Rmu_sc0008583.1_g000001 Rmu_sc0026643.1_g000001
rosa_rugosa	Rorug04G0121700
rosa_samantha	Rh4AG181200 Rh4BG180400 Rh4CG192400 Rh4DG176600
rosa_wichuraiana	Rw4G015150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	330
Acc36I	ACCTGC	1 cut(s)	700
AccBSI	CCGCTC	1 cut(s)	584
AccII	CGCG	5 cut(s)	192, 284, 297, 988, 1286
AccIII	TCCGGA	1 cut(s)	66
AclWI	GGATC	3 cut(s)	366, 379, 1287
AcuI	CTGAAG	1 cut(s)	774
AfaI	GTAC	4 cut(s)	53, 597, 1265, 1316
AfiI	CCNNNNNNNGG	3 cut(s)	864, 1129, 1208
AflIII	ACRYGT	2 cut(s)	1096, 1116
AgsI	TTSAA	2 cut(s)	433, 665
AjiI	CACGTC	2 cut(s)	1119, 1216
Alw21I	GWGCWC	1 cut(s)	477
Alw26I	GTCTC	4 cut(s)	338, 734, 851, 1150
AlwI	GGATC	3 cut(s)	366, 379, 1287
Aor13HI	TCCGGA	1 cut(s)	66
ApeKI	GCWGC	5 cut(s)	200, 356, 391, 677, 791
Asp700I	GAANNNNTTC	1 cut(s)	746
AspLEI	GCGC	4 cut(s)	194, 297, 391, 988
AspS9I	GGNCC	2 cut(s)	524, 884
AsuC2I	CCSGG	1 cut(s)	1124
AsuHPI	GGTGA	6 cut(s)	49, 340, 521, 821, 988, 1223
AvaII	GGWCC	2 cut(s)	524, 884
BaeI	ACNNNNGTAYC	2 cut(s)	1306, 1339
BamHI	GGATCC	1 cut(s)	371
BanII	GRGCYC	1 cut(s)	477
BbsI	GAAGAC	1 cut(s)	901
Bbv12I	GWGCWC	1 cut(s)	477
BbvCI	CCTCAGC	1 cut(s)	1295
BbvI	GCAGC	5 cut(s)	212, 343, 378, 689, 803
BccI	CCATC	4 cut(s)	170, 401, 457, 515
BceAI	ACGGC	2 cut(s)	33, 1059
BciVI	GTATCC	1 cut(s)	16
BcnI	CCSGG	1 cut(s)	1124
BcoDI	GTCTC	4 cut(s)	338, 734, 851, 1150
BfaI	CTAG	3 cut(s)	344, 714, 1109
BfuAI	ACCTGC	1 cut(s)	700
BfuI	GTATCC	1 cut(s)	16
BlpI	GCTNAGC	1 cut(s)	1089
Bme1390I	CCNGG	1 cut(s)	1124
Bme18I	GGWCC	2 cut(s)	524, 884
BmgBI	CACGTC	2 cut(s)	1119, 1216
BmgT120I	GGNCC	2 cut(s)	524, 884
BmiI	GGNNCC	3 cut(s)	280, 373, 1128
BmrFI	CCNGG	1 cut(s)	1124
BmsI	GCATC	1 cut(s)	1195
BpiI	GAAGAC	1 cut(s)	901
BpmI	CTGGAG	1 cut(s)	65
Bpu10I	CCTNAGC	1 cut(s)	1295
Bpu1102I	GCTNAGC	1 cut(s)	1089
BpuEI	CTTGAG	1 cut(s)	570
BpuMI	CCSGG	1 cut(s)	1124
Bsa29I	ATCGAT	1 cut(s)	1005
BsaAI	YACGTR	2 cut(s)	536, 1097
BsaI	GGTCTC	4 cut(s)	338, 734, 851, 1150
BsaJI	CCNNGG	4 cut(s)	887, 937, 1122, 1340
BsaWI	WCCGGW	7 cut(s)	66, 236, 350, 857, 864, 1058, 1129
BsaXI	ACNNNNNCTCC	8 cut(s)	195, 225, 320, 350, 617, 647, 833, 863
Bsc4I	CCNNNNNNNGG	3 cut(s)	864, 1129, 1208
BseAI	TCCGGA	1 cut(s)	66
BseCI	ATCGAT	1 cut(s)	1005
BseDI	CCNNGG	4 cut(s)	887, 937, 1122, 1340
BseGI	GGATG	2 cut(s)	567, 930
BseLI	CCNNNNNNNGG	3 cut(s)	864, 1129, 1208
BseMII	CTCAG	5 cut(s)	729, 980, 1038, 1103, 1286
BseRI	GAGGAG	4 cut(s)	238, 241, 244, 256
BseXI	GCAGC	5 cut(s)	212, 343, 378, 689, 803
Bsh1236I	CGCG	5 cut(s)	192, 284, 297, 988, 1286
BshVI	ATCGAT	1 cut(s)	1005
BsiHKAI	GWGCWC	1 cut(s)	477
BslFI	GGGAC	3 cut(s)	539, 1105, 1183
BslI	CCNNNNNNNGG	3 cut(s)	864, 1129, 1208
BsmAI	GTCTC	4 cut(s)	338, 734, 851, 1150
BsmFI	GGGAC	3 cut(s)	539, 1105, 1183
Bso31I	GGTCTC	4 cut(s)	338, 734, 851, 1150
Bsp1286I	GDGCHC	1 cut(s)	477
Bsp13I	TCCGGA	1 cut(s)	66
Bsp143I	GATC	5 cut(s)	371, 511, 816, 1149, 1279
Bsp1720I	GCTNAGC	1 cut(s)	1089
Bsp19I	CCATGG	1 cut(s)	887
BspCNI	CTCAG	5 cut(s)	730, 979, 1039, 1102, 1287
BspDI	ATCGAT	1 cut(s)	1005
BspEI	TCCGGA	1 cut(s)	66
BspFNI	CGCG	5 cut(s)	192, 284, 297, 988, 1286
BspLI	GGNNCC	3 cut(s)	280, 373, 1128
BspMI	ACCTGC	1 cut(s)	700
BspPI	GGATC	3 cut(s)	366, 379, 1287
BspTNI	GGTCTC	4 cut(s)	338, 734, 851, 1150
BsrBI	CCGCTC	1 cut(s)	584
BssECI	CCNNGG	4 cut(s)	887, 937, 1122, 1340
BssMI	GATC	5 cut(s)	371, 511, 816, 1149, 1279
BssT1I	CCWWGG	1 cut(s)	887
Bst4CI	ACNGT	9 cut(s)	37, 218, 332, 728, 845, 877, 884, 941, 1211
Bst6I	CTCTTC	4 cut(s)	248, 262, 548, 807
BstBAI	YACGTR	2 cut(s)	536, 1097
BstC8I	GCNNGC	1 cut(s)	1230
BstDEI	CTNAG	8 cut(s)	415, 577, 738, 966, 1047, 1089, 1179, 1295
BstDSI	CCRYGG	2 cut(s)	887, 937
BstF5I	GGATG	2 cut(s)	567, 930
BstFNI	CGCG	5 cut(s)	192, 284, 297, 988, 1286
BstHHI	GCGC	4 cut(s)	194, 297, 391, 988
BstKTI	GATC	5 cut(s)	374, 514, 819, 1152, 1282
BstMAI	GTCTC	4 cut(s)	338, 734, 851, 1150
BstMBI	GATC	5 cut(s)	371, 511, 816, 1149, 1279
BstMWI	GCNNNNNNNGC	5 cut(s)	200, 587, 677, 1062, 1225
BstNSI	RCATGY	1 cut(s)	1232
BstSCI	CCNGG	1 cut(s)	1122
BstSNI	TACGTA	1 cut(s)	536
BstUI	CGCG	5 cut(s)	192, 284, 297, 988, 1286
BstV1I	GCAGC	5 cut(s)	212, 343, 378, 689, 803
BstV2I	GAAGAC	1 cut(s)	901
BstX2I	RGATCY	2 cut(s)	371, 1279
BstYI	RGATCY	2 cut(s)	371, 1279
Bsu15I	ATCGAT	1 cut(s)	1005
BsuI	GTATCC	1 cut(s)	16
BsuTUI	ATCGAT	1 cut(s)	1005
BtgI	CCRYGG	2 cut(s)	887, 937
BtgZI	GCGATG	3 cut(s)	420, 613, 625
BtrI	CACGTC	2 cut(s)	1119, 1216
BtsCI	GGATG	2 cut(s)	567, 930
BtsI	GCAGTG	1 cut(s)	376
BtsIMutI	CAGTG	2 cut(s)	376, 735
BveI	ACCTGC	1 cut(s)	700
Cac8I	GCNNGC	1 cut(s)	1230
CfoI	GCGC	4 cut(s)	194, 297, 391, 988
Cfr13I	GGNCC	2 cut(s)	524, 884
ClaI	ATCGAT	1 cut(s)	1005
Csp6I	GTAC	4 cut(s)	52, 596, 1264, 1315
CviAII	CATG	3 cut(s)	888, 904, 1229
CviQI	GTAC	4 cut(s)	52, 596, 1264, 1315
DdeI	CTNAG	8 cut(s)	415, 577, 738, 966, 1047, 1089, 1179, 1295
DpnI	GATC	5 cut(s)	373, 513, 818, 1151, 1281
DpnII	GATC	5 cut(s)	371, 511, 816, 1149, 1279
DrdI	GACNNNNNNGTC	1 cut(s)	330
DseDI	GACNNNNNNGTC	1 cut(s)	330
Eam1104I	CTCTTC	4 cut(s)	248, 262, 548, 807
EarI	CTCTTC	4 cut(s)	248, 262, 548, 807
EciI	GGCGGA	2 cut(s)	35, 1083
Ecl136II	GAGCTC	1 cut(s)	475
Eco105I	TACGTA	1 cut(s)	536
Eco130I	CCWWGG	1 cut(s)	887
Eco24I	GRGCYC	1 cut(s)	477
Eco31I	GGTCTC	4 cut(s)	338, 734, 851, 1150
Eco47I	GGWCC	2 cut(s)	524, 884
Eco53kI	GAGCTC	1 cut(s)	475
Eco57I	CTGAAG	1 cut(s)	774
EcoICRI	GAGCTC	1 cut(s)	475
EcoT14I	CCWWGG	1 cut(s)	887
EcoT38I	GRGCYC	1 cut(s)	477
ErhI	CCWWGG	1 cut(s)	887
FaeI	CATG	3 cut(s)	891, 907, 1232
FaiI	YATR	8 cut(s)	444, 608, 825, 889, 905, 1230, 1251, 1329
FaqI	GGGAC	3 cut(s)	539, 1105, 1183
FatI	CATG	3 cut(s)	887, 903, 1228
FauI	CCCGC	1 cut(s)	1282
FokI	GGATG	2 cut(s)	554, 917
FriOI	GRGCYC	1 cut(s)	477
FspBI	CTAG	3 cut(s)	344, 714, 1109
GlaI	GCGC	4 cut(s)	193, 296, 390, 987
GsuI	CTGGAG	1 cut(s)	65
HhaI	GCGC	4 cut(s)	194, 297, 391, 988
Hin1II	CATG	3 cut(s)	891, 907, 1232
Hin6I	GCGC	4 cut(s)	192, 295, 389, 986
HinP1I	GCGC	4 cut(s)	192, 295, 389, 986
HincII	GTYRAC	1 cut(s)	655
HindII	GTYRAC	1 cut(s)	655
HpaI	GTTAAC	1 cut(s)	655
HphI	GGTGA	6 cut(s)	49, 340, 521, 821, 988, 1223
Hpy166II	GTNNAC	5 cut(s)	539, 655, 724, 880, 1102
Hpy188I	TCNGA	4 cut(s)	119, 184, 371, 754
Hpy188III	TCNNGA	5 cut(s)	67, 662, 968, 977, 1147
Hpy8I	GTNNAC	5 cut(s)	539, 655, 724, 880, 1102
Hpy99I	CGWCG	7 cut(s)	19, 222, 371, 506, 551, 1276, 1279
HpyAV	CCTTC	4 cut(s)	500, 581, 668, 1151
HpyCH4III	ACNGT	9 cut(s)	37, 218, 332, 728, 845, 877, 884, 941, 1211
HpyCH4IV	ACGT	8 cut(s)	400, 535, 549, 598, 1096, 1118, 1215, 1317
HpyF10VI	GCNNNNNNNGC	5 cut(s)	200, 587, 677, 1062, 1225
HpyF3I	CTNAG	8 cut(s)	415, 577, 738, 966, 1047, 1089, 1179, 1295
HpySE526I	ACGT	8 cut(s)	400, 535, 549, 598, 1096, 1118, 1215, 1317
Hsp92II	CATG	3 cut(s)	891, 907, 1232
HspAI	GCGC	4 cut(s)	192, 295, 389, 986
Kpn2I	TCCGGA	1 cut(s)	66
KspAI	GTTAAC	1 cut(s)	655
Kzo9I	GATC	5 cut(s)	371, 511, 816, 1149, 1279
LmnI	GCTCC	2 cut(s)	278, 353
Lsp1109I	GCAGC	5 cut(s)	212, 343, 378, 689, 803
LweI	GCATC	1 cut(s)	1195
MaeI	CTAG	3 cut(s)	344, 714, 1109
MaeII	ACGT	8 cut(s)	400, 535, 549, 598, 1096, 1118, 1215, 1317
MaeIII	GTNAC	4 cut(s)	346, 599, 989, 1211
MalI	GATC	5 cut(s)	373, 513, 818, 1151, 1281
MbiI	CCGCTC	1 cut(s)	584
MboI	GATC	5 cut(s)	371, 511, 816, 1149, 1279
MflI	RGATCY	2 cut(s)	371, 1279
MhlI	GDGCHC	1 cut(s)	477
MlyI	GAGTC	4 cut(s)	234, 420, 790, 855
MmeI	TCCRAC	2 cut(s)	349, 660
MroI	TCCGGA	1 cut(s)	66
MroXI	GAANNNNTTC	1 cut(s)	746
MseI	TTAA	4 cut(s)	654, 854, 1017, 1381
MslI	CAYNNNNRTG	1 cut(s)	1233
MspR9I	CCNGG	1 cut(s)	1124
MvnI	CGCG	5 cut(s)	192, 284, 297, 988, 1286
MwoI	GCNNNNNNNGC	5 cut(s)	200, 587, 677, 1062, 1225
NciI	CCSGG	1 cut(s)	1124
NcoI	CCATGG	1 cut(s)	887
NdeII	GATC	5 cut(s)	371, 511, 816, 1149, 1279
NlaIII	CATG	3 cut(s)	891, 907, 1232
NlaIV	GGNNCC	3 cut(s)	280, 373, 1128
NmeAIII	GCCGAG	1 cut(s)	1365
NmuCI	GTSAC	3 cut(s)	346, 989, 1211
NspI	RCATGY	1 cut(s)	1232
PaeI	GCATGC	1 cut(s)	1232
PcsI	WCGNNNNNNNCGW	3 cut(s)	336, 648, 1011
PdmI	GAANNNNTTC	1 cut(s)	746
PfeI	GAWTC	7 cut(s)	73, 363, 420, 648, 742, 1333, 1373
PflFI	GACNNNGTC	1 cut(s)	551
PleI	GAGTC	4 cut(s)	234, 419, 789, 855
PpsI	GAGTC	4 cut(s)	234, 419, 789, 855
Ppu21I	YACGTR	2 cut(s)	536, 1097
Psp124BI	GAGCTC	1 cut(s)	477
PspN4I	GGNNCC	3 cut(s)	280, 373, 1128
PspPI	GGNCC	2 cut(s)	524, 884
PsuI	RGATCY	2 cut(s)	371, 1279
PsyI	GACNNNGTC	1 cut(s)	551
RsaI	GTAC	4 cut(s)	53, 597, 1265, 1316
RsaNI	GTAC	4 cut(s)	52, 596, 1264, 1315
RseI	CAYNNNNRTG	1 cut(s)	1233
SacI	GAGCTC	1 cut(s)	477
SaqAI	TTAA	4 cut(s)	654, 854, 1017, 1381
Sau3AI	GATC	5 cut(s)	371, 511, 816, 1149, 1279
Sau96I	GGNCC	2 cut(s)	524, 884
SchI	GAGTC	4 cut(s)	234, 420, 790, 855
ScrFI	CCNGG	1 cut(s)	1124
SduI	GDGCHC	1 cut(s)	477
SfaNI	GCATC	1 cut(s)	1195
SinI	GGWCC	2 cut(s)	524, 884
SmiMI	CAYNNNNRTG	1 cut(s)	1233
SmlI	CTYRAG	1 cut(s)	585
SmoI	CTYRAG	1 cut(s)	585
SnaBI	TACGTA	1 cut(s)	536
SphI	GCATGC	1 cut(s)	1232
SspMI	CTAG	3 cut(s)	344, 714, 1109
SstI	GAGCTC	1 cut(s)	477
StyD4I	CCNGG	1 cut(s)	1122
StyI	CCWWGG	1 cut(s)	887
TaaI	ACNGT	9 cut(s)	37, 218, 332, 728, 845, 877, 884, 941, 1211
TaiI	ACGT	8 cut(s)	403, 538, 552, 601, 1099, 1121, 1218, 1320
TaqI	TCGA	6 cut(s)	423, 504, 546, 951, 1005, 1148
TauI	GCSGC	7 cut(s)	192, 197, 200, 284, 584, 1068, 1289
TfiI	GAWTC	7 cut(s)	73, 363, 420, 648, 742, 1333, 1373
Tru1I	TTAA	4 cut(s)	654, 854, 1017, 1381
Tru9I	TTAA	4 cut(s)	654, 854, 1017, 1381
TscAI	CASTG	2 cut(s)	383, 742
TseFI	GTSAC	3 cut(s)	346, 989, 1211
TseI	GCWGC	5 cut(s)	200, 356, 391, 677, 791
Tsp45I	GTSAC	3 cut(s)	346, 989, 1211
TspDTI	ATGAA	2 cut(s)	487, 623
TspGWI	ACGGA	2 cut(s)	328, 1292
TspRI	CASTG	2 cut(s)	383, 742
Tth111I	GACNNNGTC	1 cut(s)	551
VpaK11BI	GGWCC	2 cut(s)	524, 884
XceI	RCATGY	1 cut(s)	1232
XmnI	GAANNNNTTC	1 cut(s)	746
XspI	CTAG	3 cut(s)	344, 714, 1109

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.