Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0011467

Physical Location & Seq

Genomic Coordinates Reverse (-)

9530007 .. 9534120

Gene Structure 4114 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G009960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1293 bp

ATGACAATACCTCCAAATCAAGATGATGCTAACAAAGCGAGGACTACTTATTTCAATTTACCTGCATTGGATGTCTCCCTTGCTTTCCCCCAAGCAACTCCGGCGGCTATATTTCCTCCCTGCACTTCTGACTATTATCAATCTAATGACCTATTGACGCCTGAGGAGCAGGCTCTTAGGATGAGAGTAAGACAGTCTGTAGAGAAAGAAGTAGCTCCAATCATGGCGGAGCGTTTCCATTCATATTATTCCAAGCTTGGTGCCTTGCGAATTGCTGGGGGCACAATCAAGGGTTATGGGTGTCCCGGTCTTTCTATTACAGCAAGTGCTATTGCTACAGCAGAAGTTGCTAGAGTTGATGCTAGCTGTTCTACTTTCATCCTAGTTCATTCATCACTAGCAATGCTCACTATTGCATTATGTGGATCAGAGGCTCAAAAGCAGAAATATTTACCGTCTTTGGCTGAGTTAAAAACCGTAGCCTGTTGGGGTTTGACTGAGCCTGACTATGGAAGTGATGCAAGTGCCTTGAAAACAACAGCGACAAAGGTGGAAGGAGGTTGGATGCTTGACGGCCAAAAGCGCTGGATAGGAAACGCTACCTTTGCTGATGTGTTGATTATTTTCGCTAGGAATACAACAACAAATCAGATCAATGGATATATAGTAAACAAGAATGTCCCTGGACTGAAAGCTACAAAAATAGAAAATAAAATTGGTTTGCGCATGGTTCAAAATGGAGATATTCTCTTAAAGCAAGTTTTTGTCCCTGATGAGGACAGGTTACCTGGTGTTACTTCTTTTCAGGATACCAACAAGGTACTTGCTGTTTCCCGTGTTATGGTTTCCTGGCAACCTATTGGTATATCTATGGGTGTCTATGATATGTGCCACAGGTATCTGAAGGAGAGGAAACAATTTGGAGCACCCCTAGCAGCTTTCCAAATCAACCAAGAGAAACTTGTTCATATGCTAGGTAATGTTCAAGCTATGATACTTATTGGTTGGCGCCTCTGCAAGTTGTATGAGACAGGTAAAATGACTCCGGGTCAGGCTAGCATGGGGAAGTCATGGATCACTGTGAAAGCAAGGGAAACTGTTGCTCTAGGGAGGGAATTGCTTGGCGGCAATGGAATCTTATCTGATTTTCTAGTTGCAAAGGCTTTCTGTGATTTGGAACCCATCTACACCTACGAAGGCACCTATGACATCAACAGCCTAGTCACGGGTAGGGAAATCACTGGGTTTGCCAGCTTCAAACCAGCTGCATTGAGCAAACGAAGCCGCCTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0003997 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0006082 GO:0006629 GO:0006631 GO:0006635 GO:0007275 GO:0008150 GO:0008152 GO:0009056 GO:0009062 GO:0009514 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016042 GO:0016054 GO:0016491 GO:0016627 GO:0016634 GO:0019395 GO:0019752 GO:0022414 GO:0030258 GO:0032501 GO:0032502 GO:0032787 GO:0034440 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044255 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0046395 GO:0046459 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0055114 GO:0061458 GO:0071704 GO:0072329 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00071 ko00592 ko01040 ko01100 ko01110 ko01212 ko03320 ko04024 ko04146 map00071 map00592 map01040 map01100 map01110 map01212 map03320 map04024 map04146

Pfam Domains

Protein Families

Acyl-CoA_dh_1 Acyl-CoA_dh_M Acyl-CoA_dh_N

Protein Analysis

430

Amino Acids

47.08

Weight (kDa)

8.94

Isoelectric Point (pI)

35.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Acyl-CoA_dh_N	PF02771	53 - 156	2.9e-22	Acyl-CoA dehydrogenase, N-terminal domain
Acyl-CoA_dh_M	PF02770	162 - 254	3.7e-21	Acyl-CoA dehydrogenase, middle domain
Acyl-CoA_dh_1	PF00441	272 - 411	5.2e-24	Acyl-CoA dehydrogenase, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011467)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51840
fragaria_vesca	FvH4_6g11280 FvH4_6g11280
malus_domestica	MD04G1155700.v1.1 MD12G1169900.v1.1
prunus_persica	Prupe.6G279200_v2.0.a1
pyrus_communis	pycom04g14050 pycom12g16190 pycom12g16220
rosa_chinensis	RchiOBHm_Chr3g0462821
rosa_laevigata	RLG00000024830
rosa_multiflora	Rmu_sc0000766.1_g000008 Rmu_sc0009174.1_g000003
rosa_roxburghii	Rroxscaffold_6G00417180
rosa_rugosa	Rorug03G0059400
rosa_samantha	Rh3AG117500 Rh3BG121300 Rh3CG124200 Rh3DG122900
rosa_wichuraiana	Rw3G009960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	725
Acc36I	ACCTGC	1 cut(s)	70
AccB1I	GGYRCC	3 cut(s)	260, 1008, 1199
AciI	CCGC	4 cut(s)	104, 227, 1125, 1285
AclWI	GGATC	2 cut(s)	433, 1082
AcoI	YGGCCR	1 cut(s)	574
AcuI	CTGAAG	1 cut(s)	923
AcyI	GRCGYC	2 cut(s)	158, 1009
AfaI	GTAC	1 cut(s)	822
AfeI	AGCGCT	1 cut(s)	584
AfiI	CCNNNNNNNGG	4 cut(s)	509, 775, 841, 1225
AgsI	TTSAA	5 cut(s)	55, 532, 734, 986, 1258
AhdI	GACNNNNNGTC	1 cut(s)	1047
AjnI	CCWGG	3 cut(s)	682, 787, 848
AjuI	GAANNNNNNNTTGG	2 cut(s)	699, 731
AluBI	AGCT	8 cut(s)	215, 256, 366, 695, 938, 989, 1254, 1265
AluI	AGCT	8 cut(s)	215, 256, 366, 695, 938, 989, 1254, 1265
Alw21I	GWGCWC	1 cut(s)	928
Alw26I	GTCTC	2 cut(s)	79, 1022
AlwI	GGATC	2 cut(s)	433, 1082
Aor51HI	AGCGCT	1 cut(s)	584
AoxI	GGCC	1 cut(s)	574
ApeKI	GCWGC	2 cut(s)	935, 1265
AspLEI	GCGC	3 cut(s)	585, 726, 1011
AsuC2I	CCSGG	2 cut(s)	306, 1047
AsuNHI	GCTAGC	2 cut(s)	362, 1055
AxyI	CCTNAGG	1 cut(s)	162
BaeGI	GKGCMC	1 cut(s)	284
BanI	GGYRCC	3 cut(s)	260, 1008, 1199
Bbv12I	GWGCWC	1 cut(s)	928
BbvI	GCAGC	2 cut(s)	947, 1252
BccI	CCATC	1 cut(s)	1190
BceAI	ACGGC	1 cut(s)	589
BciT130I	CCWGG	3 cut(s)	684, 789, 850
BciVI	GTATCC	1 cut(s)	802
BcnI	CCSGG	2 cut(s)	306, 1047
BcoDI	GTCTC	2 cut(s)	79, 1022
BfmI	CTRYAG	3 cut(s)	198, 336, 1289
BfoI	RGCGCY	2 cut(s)	586, 1012
BfuAI	ACCTGC	1 cut(s)	70
BfuI	GTATCC	1 cut(s)	802
BisI	GCNGC	5 cut(s)	105, 936, 1126, 1266, 1285
BlsI	GCNGC	5 cut(s)	106, 937, 1127, 1267, 1286
Bme1390I	CCNGG	5 cut(s)	306, 684, 789, 850, 1047
BmeRI	GACNNNNNGTC	1 cut(s)	1047
BmiI	GGNNCC	4 cut(s)	262, 1010, 1179, 1201
BmrFI	CCNGG	5 cut(s)	306, 684, 789, 850, 1047
BmrI	ACTGGG	1 cut(s)	1251
BmsI	GCATC	4 cut(s)	16, 349, 508, 555
BmtI	GCTAGC	2 cut(s)	366, 1059
BmuI	ACTGGG	1 cut(s)	1251
BplI	GAGNNNNNCTC	2 cut(s)	732, 764
BpuMI	CCSGG	2 cut(s)	306, 1047
BsaHI	GRCGYC	2 cut(s)	158, 1009
BsaJI	CCNNGG	1 cut(s)	682
BsaXI	ACNNNNNCTCC	1 cut(s)	25
Bsc4I	CCNNNNNNNGG	4 cut(s)	509, 775, 841, 1225
Bse1I	ACTGG	1 cut(s)	1246
Bse21I	CCTNAGG	1 cut(s)	162
Bse3DI	GCAATG	2 cut(s)	408, 1135
BseBI	CCWGG	3 cut(s)	684, 789, 850
BseDI	CCNNGG	1 cut(s)	682
BseGI	GGATG	4 cut(s)	76, 186, 378, 570
BseLI	CCNNNNNNNGG	4 cut(s)	509, 775, 841, 1225
BseMI	GCAATG	2 cut(s)	408, 1135
BseMII	CTCAG	3 cut(s)	153, 456, 489
BseNI	ACTGG	1 cut(s)	1246
BseRI	GAGGAG	1 cut(s)	179
BseSI	GKGCMC	1 cut(s)	284
BseXI	GCAGC	2 cut(s)	947, 1252
BseYI	CCCAGC	1 cut(s)	275
BsgI	GTGCAG	1 cut(s)	106
BshFI	GGCC	1 cut(s)	576
BshNI	GGYRCC	3 cut(s)	260, 1008, 1199
BsiHKAI	GWGCWC	1 cut(s)	928
BsiSI	CCGG	3 cut(s)	101, 306, 1046
BslFI	GGGAC	3 cut(s)	288, 665, 752
BslI	CCNNNNNNNGG	4 cut(s)	509, 775, 841, 1225
BsmAI	GTCTC	2 cut(s)	79, 1022
BsmFI	GGGAC	3 cut(s)	288, 665, 752
BsnI	GGCC	1 cut(s)	576
Bsp1286I	GDGCHC	2 cut(s)	284, 928
Bsp143I	GATC	3 cut(s)	425, 651, 1074
BspACI	CCGC	4 cut(s)	104, 227, 1125, 1285
BspANI	GGCC	1 cut(s)	576
BspCNI	CTCAG	3 cut(s)	154, 457, 490
BspLI	GGNNCC	4 cut(s)	262, 1010, 1179, 1201
BspMI	ACCTGC	1 cut(s)	70
BspOI	GCTAGC	2 cut(s)	366, 1059
BspPI	GGATC	2 cut(s)	433, 1082
BspT107I	GGYRCC	3 cut(s)	260, 1008, 1199
BsrDI	GCAATG	2 cut(s)	408, 1135
BsrI	ACTGG	1 cut(s)	1246
BssECI	CCNNGG	1 cut(s)	682
BssMI	GATC	3 cut(s)	425, 651, 1074
BssNI	GRCGYC	2 cut(s)	158, 1009
Bst2UI	CCWGG	3 cut(s)	684, 789, 850
Bst4CI	ACNGT	5 cut(s)	195, 456, 478, 1081, 1099
BstACI	GRCGYC	2 cut(s)	158, 1009
BstAPI	GCANNNNNTGC	1 cut(s)	347
BstC8I	GCNNGC	4 cut(s)	171, 364, 1057, 1252
BstDEI	CTNAG	4 cut(s)	162, 176, 465, 498
BstEII	GGTNACC	1 cut(s)	783
BstF5I	GGATG	4 cut(s)	76, 186, 378, 570
BstH2I	RGCGCY	2 cut(s)	586, 1012
BstHHI	GCGC	3 cut(s)	585, 726, 1011
BstKTI	GATC	3 cut(s)	428, 654, 1077
BstMAI	GTCTC	2 cut(s)	79, 1022
BstMBI	GATC	3 cut(s)	425, 651, 1074
BstMWI	GCNNNNNNNGC	8 cut(s)	35, 101, 166, 347, 582, 605, 932, 1281
BstNI	CCWGG	3 cut(s)	684, 789, 850
BstPI	GGTNACC	1 cut(s)	783
BstSCI	CCNGG	5 cut(s)	304, 682, 787, 848, 1045
BstSFI	CTRYAG	3 cut(s)	198, 336, 1289
BstSLI	GKGCMC	1 cut(s)	284
BstV1I	GCAGC	2 cut(s)	947, 1252
Bsu36I	CCTNAGG	1 cut(s)	162
BsuI	GTATCC	1 cut(s)	802
BsuRI	GGCC	1 cut(s)	576
BtsCI	GGATG	4 cut(s)	76, 186, 378, 570
BtsIMutI	CAGTG	2 cut(s)	1077, 1239
BveI	ACCTGC	1 cut(s)	70
Cac8I	GCNNGC	4 cut(s)	171, 364, 1057, 1252
CfoI	GCGC	3 cut(s)	585, 726, 1011
CseI	GACGC	1 cut(s)	166
CsiI	ACCWGGT	1 cut(s)	787
Csp6I	GTAC	1 cut(s)	821
CviAII	CATG	4 cut(s)	223, 727, 1060, 1071
CviQI	GTAC	1 cut(s)	821
DdeI	CTNAG	4 cut(s)	162, 176, 465, 498
DinI	GGCGCC	1 cut(s)	1010
DpnI	GATC	3 cut(s)	427, 653, 1076
DpnII	GATC	3 cut(s)	425, 651, 1074
DriI	GACNNNNNGTC	1 cut(s)	1047
EaeI	YGGCCR	1 cut(s)	574
Eam1105I	GACNNNNNGTC	1 cut(s)	1047
EciI	GGCGGA	1 cut(s)	242
Eco47III	AGCGCT	1 cut(s)	584
Eco57I	CTGAAG	1 cut(s)	923
Eco81I	CCTNAGG	1 cut(s)	162
Eco91I	GGTNACC	1 cut(s)	783
EcoO65I	GGTNACC	1 cut(s)	783
EcoRII	CCWGG	3 cut(s)	682, 787, 848
EgeI	GGCGCC	1 cut(s)	1010
EheI	GGCGCC	1 cut(s)	1010
FaeI	CATG	4 cut(s)	226, 730, 1063, 1074
FalI	AAGNNNNNCTT	2 cut(s)	945, 977
FaqI	GGGAC	3 cut(s)	288, 665, 752
FatI	CATG	4 cut(s)	222, 726, 1059, 1070
FauNDI	CATATG	1 cut(s)	969
Fnu4HI	GCNGC	5 cut(s)	105, 936, 1126, 1266, 1285
FokI	GGATG	4 cut(s)	83, 193, 365, 577
Fsp4HI	GCNGC	5 cut(s)	105, 936, 1126, 1266, 1285
FspI	TGCGCA	1 cut(s)	725
GlaI	GCGC	3 cut(s)	584, 725, 1010
GluI	GCNGC	5 cut(s)	105, 936, 1126, 1266, 1285
GsaI	CCCAGC	1 cut(s)	279
HaeII	RGCGCY	2 cut(s)	586, 1012
HaeIII	GGCC	1 cut(s)	576
HapII	CCGG	3 cut(s)	101, 306, 1046
HgaI	GACGC	1 cut(s)	166
HhaI	GCGC	3 cut(s)	585, 726, 1011
Hin1I	GRCGYC	2 cut(s)	158, 1009
Hin1II	CATG	4 cut(s)	226, 730, 1063, 1074
Hin6I	GCGC	3 cut(s)	583, 724, 1009
HinP1I	GCGC	3 cut(s)	583, 724, 1009
HindIII	AAGCTT	1 cut(s)	254
HinfI	GANTC	2 cut(s)	1042, 1134
HpaII	CCGG	3 cut(s)	101, 306, 1046
Hpy166II	GTNNAC	1 cut(s)	670
Hpy188I	TCNGA	5 cut(s)	130, 430, 651, 903, 1144
Hpy188III	TCNNGA	2 cut(s)	20, 806
Hpy8I	GTNNAC	1 cut(s)	670
HpyAV	CCTTC	3 cut(s)	548, 898, 1190
HpyCH4III	ACNGT	5 cut(s)	195, 456, 478, 1081, 1099
HpyCH4V	TGCA	7 cut(s)	65, 123, 416, 521, 1017, 1157, 1268
HpyF10VI	GCNNNNNNNGC	8 cut(s)	35, 101, 166, 347, 582, 605, 932, 1281
HpyF3I	CTNAG	4 cut(s)	162, 176, 465, 498
Hsp92I	GRCGYC	2 cut(s)	158, 1009
Hsp92II	CATG	4 cut(s)	226, 730, 1063, 1074
HspAI	GCGC	3 cut(s)	583, 724, 1009
KasI	GGCGCC	1 cut(s)	1008
Kzo9I	GATC	3 cut(s)	425, 651, 1074
LmnI	GCTCC	4 cut(s)	166, 220, 229, 923
Lsp1109I	GCAGC	2 cut(s)	947, 1252
LweI	GCATC	4 cut(s)	16, 349, 508, 555
MabI	ACCWGGT	1 cut(s)	787
MaeIII	GTNAC	3 cut(s)	783, 793, 1222
MalI	GATC	3 cut(s)	427, 653, 1076
MboI	GATC	3 cut(s)	425, 651, 1074
MhlI	GDGCHC	2 cut(s)	284, 928
MluCI	AATT	5 cut(s)	55, 270, 714, 917, 1115
Mly113I	GGCGCC	1 cut(s)	1009
MlyI	GAGTC	1 cut(s)	1036
MmeI	TCCRAC	1 cut(s)	542
MseI	TTAA	2 cut(s)	470, 752
MspA1I	CMGCKG	1 cut(s)	1265
MspI	CCGG	3 cut(s)	101, 306, 1046
MspR9I	CCNGG	5 cut(s)	306, 684, 789, 850, 1047
MvaI	CCWGG	3 cut(s)	684, 789, 850
MwoI	GCNNNNNNNGC	8 cut(s)	35, 101, 166, 347, 582, 605, 932, 1281
NarI	GGCGCC	1 cut(s)	1009
NciI	CCSGG	2 cut(s)	306, 1047
NdeI	CATATG	1 cut(s)	969
NdeII	GATC	3 cut(s)	425, 651, 1074
NheI	GCTAGC	2 cut(s)	362, 1055
NlaIII	CATG	4 cut(s)	226, 730, 1063, 1074
NlaIV	GGNNCC	4 cut(s)	262, 1010, 1179, 1201
NmuCI	GTSAC	1 cut(s)	1222
NsbI	TGCGCA	1 cut(s)	725
PfeI	GAWTC	1 cut(s)	1134
PkrI	GCNGC	5 cut(s)	106, 937, 1127, 1267, 1286
PleI	GAGTC	1 cut(s)	1036
PluTI	GGCGCC	1 cut(s)	1012
PpsI	GAGTC	1 cut(s)	1036
Psp6I	CCWGG	3 cut(s)	682, 787, 848
PspEI	GGTNACC	1 cut(s)	783
PspFI	CCCAGC	1 cut(s)	275
PspGI	CCWGG	3 cut(s)	682, 787, 848
PspN4I	GGNNCC	4 cut(s)	262, 1010, 1179, 1201
PvuII	CAGCTG	1 cut(s)	1265
RsaI	GTAC	1 cut(s)	822
RsaNI	GTAC	1 cut(s)	821
SaqAI	TTAA	2 cut(s)	470, 752
SatI	GCNGC	5 cut(s)	105, 936, 1126, 1266, 1285
Sau3AI	GATC	3 cut(s)	425, 651, 1074
SchI	GAGTC	1 cut(s)	1036
ScrFI	CCNGG	5 cut(s)	306, 684, 789, 850, 1047
SduI	GDGCHC	2 cut(s)	284, 928
SexAI	ACCWGGT	1 cut(s)	787
SfaNI	GCATC	4 cut(s)	16, 349, 508, 555
SfcI	CTRYAG	3 cut(s)	198, 336, 1289
SfoI	GGCGCC	1 cut(s)	1010
Sse9I	AATT	5 cut(s)	55, 270, 714, 917, 1115
SsiI	CCGC	4 cut(s)	104, 227, 1125, 1285
SspDI	GGCGCC	1 cut(s)	1008
SspI	AATATT	1 cut(s)	449
StyD4I	CCNGG	5 cut(s)	304, 682, 787, 848, 1045
TaaI	ACNGT	5 cut(s)	195, 456, 478, 1081, 1099
TasI	AATT	5 cut(s)	55, 270, 714, 917, 1115
TauI	GCSGC	3 cut(s)	107, 1128, 1287
TfiI	GAWTC	1 cut(s)	1134
Tru1I	TTAA	2 cut(s)	470, 752
Tru9I	TTAA	2 cut(s)	470, 752
TscAI	CASTG	2 cut(s)	1084, 1246
TseFI	GTSAC	1 cut(s)	1222
TseI	GCWGC	2 cut(s)	935, 1265
Tsp45I	GTSAC	1 cut(s)	1222
TspDTI	ATGAA	5 cut(s)	231, 367, 377, 381, 956
TspRI	CASTG	2 cut(s)	1084, 1246

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