Rroxscaffold_1G00047050

3-hydroxyacyl-CoA dehydrogenase, C-terminal domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0015035
Physical Location & Seq
Reverse (-)
66545614 .. 66549978
4365 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00047050.1

Sequence Viewer

Length: 1422 bp
ATGGGATCGGACCCCATTAGGCATGGAGCCACCGTCCACCAAGATAAAGTGGCCGGTCATGTTGCCGCCAACGCCGTCACCACCACCAAGGGTGGCCGGCCTCACCCTATCCCCCTCCATCAAAACAATAATGATATCTTGATGGGTTTTCTTGATGCGAGGTACCTCTATGACCCTCACAAAGGTCGCTCTCAAACGGGTTATGTCTTTACCATGGGAAGCACTGCGATATCTTTGAGGTCTACAAAACAGACCCTTGTTGCTACTTCATCAAATCATGCAAAGATTATTGCTCTACATGAAGCCGTGCGTGAATGCATATGGCTAAGGTCTATAATTAGACATATTCAAGGAAGTTGTGGTTTGAAGTCTACCACCGATGAACCTACATGCATTTATGAGGATAATGCGGCTTGTATTGAACAAATGAAGTTAGGTTTCATCAAGGGCGACAATACCAAGCATATATTGCCTAAGTTCTTCTATAATCGGCAACAACAATCACTTCTAAAGATTGAAGGACGCGGGCAAATGTTGGAGATGAAGTCAATTGCGGTGGTGGGCGCCGGCCAAATGGGTTCAGGTATAGCCCAACTCGCCGCCATGCATGGATGCGATGCTTGGCTCCTAGACACCGACCCTAGTGCTCTAACCAGAGCCAACAAGTCCATCTCCCACTCCATCCAGCGCCTCGTTTCCAAAGGACAACTCACTCAGGCTGTTGGTAAAGATGCTTTGGGCCGTCTGCGGTATACCTCAAACTTGCAAGAACTTTCTTCAGCAGATGTTGTTATTGAAGCTATTGTGGAGTCTGAAGATGTGAAGAAAAAGCTATTTATTGAACTAGATAAGATCACAAAAAGTTCTGCCATACTGGCATCTAATACAAGTTCCATCTCCATTACTCGTCTGGCATCAGCAACTAGCAGGCCGAAGCAGGTGATTGGCATGCATTTTATGAACCCTCCTCCTATAATGAAACTTGTTGAGATCGTGCGAGGGGCAGACACATCAGATGAGACTTTTAATGCTACAAAAGCATTGGCAGAAAGGTTTGGCAAGACAGTGATATGCTCTCGGGATTATGCTGGCTTTGTTGTAAACAGGATCCTAATGCCGATGATAAATGAAGCATTTTTTACACTCTATACTGGTGTGGCAACAAAGGAAGACATTGATGTGGGAATGAAGTTGGGAACAAATCATCCAATGGGTCCTTTAGAGCTTGCAGATTTCATTGGATTGGATGTCTGCTTATCAATCATGAAAGTTCTCCATGCTGGCCTTGGCGACAGTAAATATGCTCCCTGCCCACTTCTTGTACAGTATGTTGATGCAGGTCGACTCGGAAGAAAACGAGGTATTGGGGTATACGATTATCGTCAAATGCCTGATGCAGTAAAACCTTCTTCCAAGCTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00360 ko00362 ko00650 ko01100 ko01120 map00360 map00362 map00650 map01100 map01120
Pfam Domains
Protein Families
3HCDH 3HCDH_N

Protein Analysis

473

Amino Acids

51.58

Weight (kDa)

9.15

Isoelectric Point (pI)

37.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
3HCDH_N PF02737 184 - 361 3.2e-64 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
3HCDH PF00725 364 - 460 4.6e-35 3-hydroxyacyl-CoA 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: OG0015035)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G15290 AT3G15290
fragaria_vesca FvH4_3g19690
malus_domestica MD11G1251600.v1.1
prunus_persica Prupe.4G177500_v2.0.a1 Prupe.4G177500_v2.0.a1
pyrus_communis pycom11g22290
rosa_chinensis RchiOBHm_Chr5g0032991
rosa_laevigata RLG00000033441
rosa_multiflora Rmu_sc0000986.1_g000019
rosa_roxburghii Rroxscaffold_1G00047050
rosa_rugosa Rorug05G0134700
rosa_samantha Rh5AG227600 Rh5BG229100 Rh5DG233800
rosa_wichuraiana Rw5G020840

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 928
Acc36I ACCTGC 2 cut(s) 928, 1328
Acc65I GGTACC 1 cut(s) 162
AccB1I GGYRCC 2 cut(s) 162, 563
AccI GTMKAC 5 cut(s) 242, 371, 752, 1342, 1371
AccII CGCG 1 cut(s) 525
AciI CCGC 6 cut(s) 66, 410, 525, 554, 600, 748
AclWI GGATC 3 cut(s) 13, 1102, 1115
AcoI YGGCCR 3 cut(s) 51, 94, 568
AcuI CTGAAG 2 cut(s) 762, 834
AcyI GRCGYC 1 cut(s) 564
AfaI GTAC 2 cut(s) 164, 1323
AfiI CCNNNNNNNGG 1 cut(s) 182
AgsI TTSAA 6 cut(s) 350, 367, 422, 518, 797, 842
AloI GAACNNNNNNTCC 2 cut(s) 1189, 1221
AluBI AGCT 4 cut(s) 800, 832, 1225, 1417
AluI AGCT 4 cut(s) 800, 832, 1225, 1417
Alw21I GWGCWC 1 cut(s) 649
Alw26I GTCTC 1 cut(s) 1013
AlwI GGATC 3 cut(s) 13, 1102, 1115
Ama87I CYCGRG 1 cut(s) 1077
AoxI GGCC 7 cut(s) 51, 94, 98, 568, 739, 929, 1282
Asp718I GGTACC 1 cut(s) 162
AspLEI GCGC 2 cut(s) 566, 690
AspS9I GGNCC 3 cut(s) 10, 739, 1214
AsuHPI GGTGA 3 cut(s) 70, 95, 952
AvaI CYCGRG 1 cut(s) 1077
AvaII GGWCC 2 cut(s) 10, 1214
BamHI GGATCC 1 cut(s) 1107
BanI GGYRCC 2 cut(s) 162, 563
BbsI GAAGAC 1 cut(s) 1176
Bbv12I GWGCWC 1 cut(s) 649
BccI CCATC 5 cut(s) 126, 136, 677, 689, 902
BceAI ACGGC 3 cut(s) 59, 290, 726
BcgI CGANNNNNNTGC 2 cut(s) 626, 660
BcoDI GTCTC 1 cut(s) 1013
BfaI CTAG 4 cut(s) 629, 642, 845, 924
BfoI RGCGCY 2 cut(s) 567, 691
BfuAI ACCTGC 2 cut(s) 928, 1328
BglI GCCNNNNNGGC 1 cut(s) 875
BisI GCNGC 3 cut(s) 66, 411, 600
BlsI GCNGC 3 cut(s) 67, 412, 601
Bme18I GGWCC 2 cut(s) 10, 1214
BmeT110I CYCGRG 1 cut(s) 1077
BmgT120I GGNCC 3 cut(s) 10, 739, 1214
BmiI GGNNCC 7 cut(s) 12, 28, 164, 565, 626, 1109, 1215
BmsI GCATC 8 cut(s) 145, 602, 607, 721, 887, 923, 1324, 1384
BpiI GAAGAC 1 cut(s) 1176
Bpu10I CCTNAGC 1 cut(s) 326
BsaHI GRCGYC 1 cut(s) 564
BsaJI CCNNGG 3 cut(s) 87, 213, 1285
BsaXI ACNNNNNCTCC 4 cut(s) 18, 48, 530, 560
Bsc4I CCNNNNNNNGG 1 cut(s) 182
Bse118I RCCGGY 3 cut(s) 53, 96, 566
Bse1I ACTGG 2 cut(s) 879, 1156
BseDI CCNNGG 3 cut(s) 87, 213, 1285
BseGI GGATG 4 cut(s) 617, 681, 1204, 1252
BseLI CCNNNNNNNGG 1 cut(s) 182
BseMII CTCAG 1 cut(s) 728
BseNI ACTGG 2 cut(s) 879, 1156
BseRI GAGGAG 1 cut(s) 957
Bsh1236I CGCG 1 cut(s) 525
BshFI GGCC 7 cut(s) 53, 96, 100, 570, 741, 931, 1284
BshNI GGYRCC 2 cut(s) 162, 563
BsiHKAI GWGCWC 1 cut(s) 649
BsiHKCI CYCGRG 1 cut(s) 1077
BsiSI CCGG 3 cut(s) 54, 97, 567
BslI CCNNNNNNNGG 1 cut(s) 182
BsmAI GTCTC 1 cut(s) 1013
BsmI GAATGC 1 cut(s) 320
BsnI GGCC 7 cut(s) 53, 96, 100, 570, 741, 931, 1284
BsoBI CYCGRG 1 cut(s) 1077
Bsp1286I GDGCHC 1 cut(s) 649
Bsp1407I TGTACA 1 cut(s) 1321
Bsp143I GATC 4 cut(s) 5, 852, 990, 1107
Bsp19I CCATGG 1 cut(s) 213
BspACI CCGC 6 cut(s) 66, 410, 525, 554, 600, 748
BspANI GGCC 7 cut(s) 53, 96, 100, 570, 741, 931, 1284
BspCNI CTCAG 1 cut(s) 727
BspFNI CGCG 1 cut(s) 525
BspHI TCATGA 1 cut(s) 1263
BspLI GGNNCC 7 cut(s) 12, 28, 164, 565, 626, 1109, 1215
BspMI ACCTGC 2 cut(s) 928, 1328
BspPI GGATC 3 cut(s) 13, 1102, 1115
BspT107I GGYRCC 2 cut(s) 162, 563
BsrFI RCCGGY 3 cut(s) 53, 96, 566
BsrGI TGTACA 1 cut(s) 1321
BsrI ACTGG 2 cut(s) 879, 1156
BssAI RCCGGY 3 cut(s) 53, 96, 566
BssECI CCNNGG 3 cut(s) 87, 213, 1285
BssMI GATC 4 cut(s) 5, 852, 990, 1107
BssNAI GTATAC 2 cut(s) 753, 1372
BssNI GRCGYC 1 cut(s) 564
BssT1I CCWWGG 3 cut(s) 87, 213, 1285
Bst1107I GTATAC 2 cut(s) 753, 1372
Bst4CI ACNGT 4 cut(s) 34, 1066, 1295, 1326
BstACI GRCGYC 1 cut(s) 564
BstAPI GCANNNNNTGC 1 cut(s) 469
BstAUI TGTACA 1 cut(s) 1321
BstC8I GCNNGC 8 cut(s) 98, 527, 568, 929, 950, 1090, 1227, 1282
BstDEI CTNAG 3 cut(s) 326, 474, 714
BstDSI CCRYGG 1 cut(s) 213
BstENI CCTNNNNNAGG 1 cut(s) 180
BstF5I GGATG 4 cut(s) 617, 681, 1204, 1252
BstFNI CGCG 1 cut(s) 525
BstH2I RGCGCY 2 cut(s) 567, 691
BstHHI GCGC 2 cut(s) 566, 690
BstKTI GATC 4 cut(s) 8, 855, 993, 1110
BstMAI GTCTC 1 cut(s) 1013
BstMBI GATC 4 cut(s) 5, 852, 990, 1107
BstMWI GCNNNNNNNGC 5 cut(s) 71, 469, 596, 875, 1037
BstNSI RCATGY 2 cut(s) 393, 952
BstUI CGCG 1 cut(s) 525
BstV2I GAAGAC 1 cut(s) 1176
BstX2I RGATCY 1 cut(s) 1107
BstYI RGATCY 1 cut(s) 1107
BstZ17I GTATAC 2 cut(s) 753, 1372
BsuRI GGCC 7 cut(s) 53, 96, 100, 570, 741, 931, 1284
BtgI CCRYGG 1 cut(s) 213
BtgZI GCGATG 1 cut(s) 630
BtsCI GGATG 4 cut(s) 617, 681, 1204, 1252
BtsI GCAGTG 1 cut(s) 222
BtsIMutI CAGTG 2 cut(s) 222, 1071
BveI ACCTGC 2 cut(s) 928, 1328
Cac8I GCNNGC 8 cut(s) 98, 527, 568, 929, 950, 1090, 1227, 1282
CciI TCATGA 1 cut(s) 1263
CfoI GCGC 2 cut(s) 566, 690
Cfr10I RCCGGY 3 cut(s) 53, 96, 566
Cfr13I GGNCC 3 cut(s) 10, 739, 1214
CseI GACGC 1 cut(s) 531
Csp6I GTAC 2 cut(s) 163, 1322
CspCI CAANNNNNGTGG 2 cut(s) 537, 572
CviQI GTAC 2 cut(s) 163, 1322
DdeI CTNAG 3 cut(s) 326, 474, 714
DinI GGCGCC 1 cut(s) 565
DpnI GATC 4 cut(s) 7, 854, 992, 1109
DpnII GATC 4 cut(s) 5, 852, 990, 1107
EaeI YGGCCR 3 cut(s) 51, 94, 568
Eco130I CCWWGG 3 cut(s) 87, 213, 1285
Eco32I GATATC 2 cut(s) 136, 231
Eco47I GGWCC 2 cut(s) 10, 1214
Eco57I CTGAAG 2 cut(s) 762, 834
Eco88I CYCGRG 1 cut(s) 1077
EcoNI CCTNNNNNAGG 1 cut(s) 180
EcoO109I RGGNCCY 1 cut(s) 1214
EcoRV GATATC 2 cut(s) 136, 231
EcoT14I CCWWGG 3 cut(s) 87, 213, 1285
EcoT22I ATGCAT 4 cut(s) 320, 395, 609, 954
EgeI GGCGCC 1 cut(s) 565
EheI GGCGCC 1 cut(s) 565
ErhI CCWWGG 3 cut(s) 87, 213, 1285
FauI CCCGC 1 cut(s) 518
FauNDI CATATG 1 cut(s) 320
FblI GTMKAC 5 cut(s) 242, 371, 752, 1342, 1371
Fnu4HI GCNGC 3 cut(s) 66, 411, 600
FokI GGATG 4 cut(s) 624, 668, 1191, 1259
FseI GGCCGGCC 1 cut(s) 100
Fsp4HI GCNGC 3 cut(s) 66, 411, 600
FspBI CTAG 4 cut(s) 629, 642, 845, 924
GlaI GCGC 2 cut(s) 565, 689
GluI GCNGC 3 cut(s) 66, 411, 600
HaeII RGCGCY 2 cut(s) 567, 691
HaeIII GGCC 7 cut(s) 53, 96, 100, 570, 741, 931, 1284
HapII CCGG 3 cut(s) 54, 97, 567
HgaI GACGC 1 cut(s) 531
HhaI GCGC 2 cut(s) 566, 690
Hin1I GRCGYC 1 cut(s) 564
Hin6I GCGC 2 cut(s) 564, 688
HinP1I GCGC 2 cut(s) 564, 688
HincII GTYRAC 1 cut(s) 1343
HindII GTYRAC 1 cut(s) 1343
HindIII AAGCTT 1 cut(s) 1415
HinfI GANTC 2 cut(s) 809, 1344
HpaII CCGG 3 cut(s) 54, 97, 567
HphI GGTGA 3 cut(s) 70, 95, 952
Hpy166II GTNNAC 7 cut(s) 37, 243, 372, 753, 1102, 1343, 1372
Hpy188I TCNGA 4 cut(s) 10, 814, 1015, 1349
Hpy188III TCNNGA 4 cut(s) 139, 152, 1079, 1264
Hpy8I GTNNAC 7 cut(s) 37, 243, 372, 753, 1102, 1343, 1372
HpyAV CCTTC 2 cut(s) 512, 1416
HpyCH4III ACNGT 4 cut(s) 34, 1066, 1295, 1326
HpyCH4V TGCA 9 cut(s) 281, 318, 393, 607, 766, 952, 1229, 1337, 1397
HpyF10VI GCNNNNNNNGC 5 cut(s) 71, 469, 596, 875, 1037
HpyF3I CTNAG 3 cut(s) 326, 474, 714
Hsp92I GRCGYC 1 cut(s) 564
HspAI GCGC 2 cut(s) 564, 688
KasI GGCGCC 1 cut(s) 563
KpnI GGTACC 1 cut(s) 166
KroI GCCGGC 2 cut(s) 96, 566
KroNI GCCGGC 2 cut(s) 98, 568
Kzo9I GATC 4 cut(s) 5, 852, 990, 1107
LmnI GCTCC 3 cut(s) 26, 630, 1309
LweI GCATC 8 cut(s) 145, 602, 607, 721, 887, 923, 1324, 1384
MaeI CTAG 4 cut(s) 629, 642, 845, 924
MaeIII GTNAC 1 cut(s) 76
MalI GATC 4 cut(s) 7, 854, 992, 1109
MboI GATC 4 cut(s) 5, 852, 990, 1107
MboII GAAGA 7 cut(s) 472, 768, 827, 835, 1181, 1362, 1401
MfeI CAATTG 1 cut(s) 549
MflI RGATCY 1 cut(s) 1107
MhlI GDGCHC 1 cut(s) 649
MluCI AATT 2 cut(s) 336, 549
Mly113I GGCGCC 1 cut(s) 564
MlyI GAGTC 2 cut(s) 818, 1338
MmeI TCCRAC 1 cut(s) 516
Mph1103I ATGCAT 4 cut(s) 320, 395, 609, 954
MroNI GCCGGC 2 cut(s) 96, 566
MseI TTAA 1 cut(s) 1026
MslI CAYNNNNRTG 1 cut(s) 1178
MspI CCGG 3 cut(s) 54, 97, 567
MunI CAATTG 1 cut(s) 549
Mva1269I GAATGC 1 cut(s) 320
MvnI CGCG 1 cut(s) 525
MwoI GCNNNNNNNGC 5 cut(s) 71, 469, 596, 875, 1037
NaeI GCCGGC 2 cut(s) 98, 568
NarI GGCGCC 1 cut(s) 564
NcoI CCATGG 1 cut(s) 213
NdeI CATATG 1 cut(s) 320
NdeII GATC 4 cut(s) 5, 852, 990, 1107
NgoMIV GCCGGC 2 cut(s) 96, 566
NlaIV GGNNCC 7 cut(s) 12, 28, 164, 565, 626, 1109, 1215
NmuCI GTSAC 1 cut(s) 76
NsiI ATGCAT 4 cut(s) 320, 395, 609, 954
NspI RCATGY 2 cut(s) 393, 952
PaeI GCATGC 1 cut(s) 952
PagI TCATGA 1 cut(s) 1263
PaqCI CACCTGC 1 cut(s) 928
PctI GAATGC 1 cut(s) 320
PdiI GCCGGC 2 cut(s) 98, 568
PkrI GCNGC 3 cut(s) 67, 412, 601
PleI GAGTC 2 cut(s) 817, 1338
PluTI GGCGCC 1 cut(s) 567
PpsI GAGTC 2 cut(s) 817, 1338
PpuMI RGGWCCY 1 cut(s) 1214
Psp5II RGGWCCY 1 cut(s) 1214
PspN4I GGNNCC 7 cut(s) 12, 28, 164, 565, 626, 1109, 1215
PspPI GGNCC 3 cut(s) 10, 739, 1214
PspPPI RGGWCCY 1 cut(s) 1214
PsuI RGATCY 1 cut(s) 1107
RigI GGCCGGCC 1 cut(s) 100
RsaI GTAC 2 cut(s) 164, 1323
RsaNI GTAC 2 cut(s) 163, 1322
RseI CAYNNNNRTG 1 cut(s) 1178
SalI GTCGAC 1 cut(s) 1341
SaqAI TTAA 1 cut(s) 1026
SatI GCNGC 3 cut(s) 66, 411, 600
Sau3AI GATC 4 cut(s) 5, 852, 990, 1107
Sau96I GGNCC 3 cut(s) 10, 739, 1214
SchI GAGTC 2 cut(s) 818, 1338
SduI GDGCHC 1 cut(s) 649
SfaNI GCATC 8 cut(s) 145, 602, 607, 721, 887, 923, 1324, 1384
SfoI GGCGCC 1 cut(s) 565
SinI GGWCC 2 cut(s) 10, 1214
SmiMI CAYNNNNRTG 1 cut(s) 1178
SphI GCATGC 1 cut(s) 952
Sse9I AATT 2 cut(s) 336, 549
SsiI CCGC 6 cut(s) 66, 410, 525, 554, 600, 748
SspDI GGCGCC 1 cut(s) 563
SspMI CTAG 4 cut(s) 629, 642, 845, 924
StyI CCWWGG 3 cut(s) 87, 213, 1285
TaaI ACNGT 4 cut(s) 34, 1066, 1295, 1326
TaqI TCGA 1 cut(s) 1342
TasI AATT 2 cut(s) 336, 549
TatI WGTACW 1 cut(s) 1321
TauI GCSGC 3 cut(s) 68, 413, 602
Tru1I TTAA 1 cut(s) 1026
Tru9I TTAA 1 cut(s) 1026
TscAI CASTG 2 cut(s) 229, 1071
TseFI GTSAC 1 cut(s) 76
Tsp45I GTSAC 1 cut(s) 76
TspRI CASTG 2 cut(s) 229, 1071
VpaK11BI GGWCC 2 cut(s) 10, 1214
XagI CCTNNNNNAGG 1 cut(s) 180
XceI RCATGY 2 cut(s) 393, 952
XcmI CCANNNNNNNNNTGG 2 cut(s) 907, 1283
XmiI GTMKAC 5 cut(s) 242, 371, 752, 1342, 1371
XspI CTAG 4 cut(s) 629, 642, 845, 924
Zsp2I ATGCAT 4 cut(s) 320, 395, 609, 954
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.