Rroxscaffold_6G00409910

Protein CHUP1, chloroplastic

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0014566
Physical Location & Seq
Forward (+)
32414737 .. 32416378
1642 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00409910.1

Sequence Viewer

Length: 1320 bp
ATGGAGAGCTCAACATCAAAGGTAGAGATGTTGAAGCCAGCCCTGCTTAAAGCTGGGATTCCTTTAGCTTTGTCTGTGGCTGGTTTCATCTATGCCAGGATTCTGGCTCAAAGAAGTACTCATTCGAAAGAGTCTTTATTCGAAAGTGATCAGGTAAGCTCCTTGGAGACTAATTCTCAAGAGTCTAGAGATGAGGATAACTTTCATAGCTTTAGCTGTACATGCACACTTTCTATGGAAGAAAGTCTGGAGAATAATGATTATAAACCCAAATTGGAAGAAGAGATTTCACGCCTAAGAAGCCGTCTCGAAGATCTTCAAAAGAGAGAATCTGAGTTGGAGATGGAGTTTATCAGCTACTGTGACATGAAAGAGAGAGAATCAGCACTTATGGAGCTAAGGAACACGTTGTTATTGGAGATGGCTCGTGTTGAGTTCATGGATAGAGAGGTTTCGTTCATGGAGGCTGAGAGCCACAGGCTTGAGGAGTTGGTAGAAGAATATTTGAAGGTTTGGGAGCAATTTGAAGAGTGGAAATCAGAAAATGAATTGCTTCAGAGGCAGATTAAGATGCTTATGACACAAGCAAGTGTGCAAGCAAGCATAATTCGAGAACAGGATTTGAAGCTTGAAGCCAGAGAAGCAGTACTTGGGAGGGTTTATGATGAACTAGAAACTAGGAAAACAGTCACCAAGACATTGGAGGAAGAAATTGGGGAGCTAAGAATGATTTTGGACCAATTGCAGGATGAGAAAAAGGGGCTTTTGGAAAAGCTTGAGTTGAAAGAAAATTCGGCTTCCTCAATCTCCGAGATTGAAGGAGAAAGGATCAAAATTGAGGACCACACTCGGCTTTCAGAGGAATTAGAGCAGCTACAGAAGGATCGTGCAGCCGAGCATACGGAACTGATTAACCTGAGGTGGAGCAATGCGTGCTTAAGGCACGAGTTGATGAAGAACAATGCACAACAAGAACATGGTAATGAGCAGAAGAATAGTCATTTGGAAACAGATTCTGAAGTAAGCATAGAGATTGGGAATTATGGGCTAGAGCAAGAATTAGTTGCTGGCATGGCTTTGGAGCACAATGGCAATGAGCCTTGCTTGGGAAATGTAAGCACTGATCAGGCTTGTTCAAAAAGGCGCAAGTTATTTCGAAGGCTTAAAAGATGGGTGGACGGCAGTGATCAGAAGGGAAGAGGAAGAGTGATGGATGAGAAAGAAAGGCATGAAGAAGCAGTCAAGTGTTTTGGGAGGCATTCTGTTTCAGATGATGCAGAGGAACATCATCATACAAGGAGGTCTTGCTCTAGTGCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

439

Amino Acids

51.02

Weight (kDa)

4.99

Isoelectric Point (pI)

58.6

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0014566)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G36650
fragaria_vesca FvH4_6g17340
malus_domestica MD12G1101400.v1.1
prunus_persica Prupe.7G122100_v2.0.a1
pyrus_communis pycom12g10010 pycom14g09380
rosa_chinensis RchiOBHm_Chr3g0471481
rosa_laevigata RLG00000024174
rosa_multiflora Rmu_sc0006582.1_g000006 Rmu_sc0030679.1_g000001
rosa_roxburghii Rroxscaffold_6G00409910
rosa_rugosa Rorug03G0118000
rosa_samantha Rh3AG168000 Rh3BG193500 Rh3CG184000 Rh3DG182000
rosa_wichuraiana Rw3G015830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 264
AclWI GGATC 2 cut(s) 836, 891
AcsI RAATTY 1 cut(s) 790
AcuI CTGAAG 2 cut(s) 539, 1038
AfaI GTAC 3 cut(s) 118, 220, 648
AfiI CCNNNNNNNGG 2 cut(s) 745, 1106
AflII CTTAAG 1 cut(s) 937
AflIII ACRYGT 1 cut(s) 405
AgsI TTSAA 9 cut(s) 34, 320, 508, 527, 625, 632, 784, 818, 1137
AjnI CCWGG 1 cut(s) 95
AjuI GAANNNNNNNTTGG 4 cut(s) 633, 665, 986, 1018
Alw21I GWGCWC 2 cut(s) 11, 1086
Alw26I GTCTC 2 cut(s) 161, 311
AlwI GGATC 2 cut(s) 836, 891
AlwNI CAGNNNCTG 2 cut(s) 360, 1016
ApeKI GCWGC 2 cut(s) 871, 890
ApoI RAATTY 1 cut(s) 790
Asp700I GAANNNNTTC 2 cut(s) 315, 552
AspLEI GCGC 1 cut(s) 1146
AspS9I GGNCC 2 cut(s) 736, 841
AsuHPI GGTGA 1 cut(s) 682
AsuII TTCGAA 3 cut(s) 125, 141, 1156
AvaII GGWCC 2 cut(s) 736, 841
AxyI CCTNAGG 1 cut(s) 917
BanII GRGCYC 1 cut(s) 11
BauI CACGAG 2 cut(s) 426, 944
Bbv12I GWGCWC 2 cut(s) 11, 1086
BbvI GCAGC 2 cut(s) 883, 902
BccI CCATC 4 cut(s) 337, 415, 1164, 1204
BceAI ACGGC 2 cut(s) 288, 1195
BciT130I CCWGG 1 cut(s) 97
BclI TGATCA 3 cut(s) 148, 1123, 1186
BcoDI GTCTC 2 cut(s) 161, 311
BfaI CTAG 5 cut(s) 186, 671, 678, 1049, 1311
BfmI CTRYAG 1 cut(s) 875
BfrI CTTAAG 1 cut(s) 937
BglII AGATCT 1 cut(s) 313
BisI GCNGC 2 cut(s) 872, 891
BlsI GCNGC 2 cut(s) 873, 892
BmcAI AGTACT 2 cut(s) 118, 648
Bme1390I CCNGG 1 cut(s) 97
Bme18I GGWCC 2 cut(s) 736, 841
BmgT120I GGNCC 2 cut(s) 736, 841
BmrFI CCNGG 1 cut(s) 97
BmsI GCATC 2 cut(s) 561, 1264
BpmI CTGGAG 1 cut(s) 269
Bpu10I CCTNAGC 1 cut(s) 398
Bpu14I TTCGAA 3 cut(s) 125, 141, 1156
BpuEI CTTGAG 3 cut(s) 162, 503, 797
BsaJI CCNNGG 1 cut(s) 162
BsaXI ACNNNNNCTCC 2 cut(s) 332, 362
Bsc4I CCNNNNNNNGG 2 cut(s) 745, 1106
Bse21I CCTNAGG 1 cut(s) 917
Bse3DI GCAATG 2 cut(s) 934, 1099
BseBI CCWGG 1 cut(s) 97
BseDI CCNNGG 1 cut(s) 162
BseGI GGATG 2 cut(s) 754, 1219
BseLI CCNNNNNNNGG 2 cut(s) 745, 1106
BseMI GCAATG 2 cut(s) 934, 1099
BseMII CTCAG 3 cut(s) 324, 459, 908
BseRI GAGGAG 1 cut(s) 500
BseXI GCAGC 2 cut(s) 883, 902
BseYI CCCAGC 1 cut(s) 53
BsgI GTGCAG 1 cut(s) 909
BsiHKAI GWGCWC 2 cut(s) 11, 1086
BslI CCNNNNNNNGG 2 cut(s) 745, 1106
BsmAI GTCTC 2 cut(s) 161, 311
BsmBI CGTCTC 1 cut(s) 311
BsmI GAATGC 1 cut(s) 1258
Bsp119I TTCGAA 3 cut(s) 125, 141, 1156
Bsp1286I GDGCHC 2 cut(s) 11, 1086
Bsp1407I TGTACA 1 cut(s) 218
Bsp143I GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
BspCNI CTCAG 3 cut(s) 325, 460, 909
BspPI GGATC 2 cut(s) 836, 891
BspT104I TTCGAA 3 cut(s) 125, 141, 1156
BspTI CTTAAG 1 cut(s) 937
BsrDI GCAATG 2 cut(s) 934, 1099
BsrGI TGTACA 1 cut(s) 218
BssECI CCNNGG 1 cut(s) 162
BssMI GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
BssSI CACGAG 2 cut(s) 426, 944
BssT1I CCWWGG 1 cut(s) 162
Bst2BI CACGAG 2 cut(s) 426, 944
Bst2UI CCWGG 1 cut(s) 97
Bst4CI ACNGT 2 cut(s) 362, 688
Bst6I CTCTTC 4 cut(s) 276, 522, 1192, 1198
BstAFI CTTAAG 1 cut(s) 937
BstAPI GCANNNNNTGC 1 cut(s) 933
BstAUI TGTACA 1 cut(s) 218
BstBI TTCGAA 3 cut(s) 125, 141, 1156
BstC8I GCNNGC 5 cut(s) 39, 597, 601, 934, 1069
BstDEI CTNAG 6 cut(s) 296, 333, 398, 468, 722, 917
BstF5I GGATG 2 cut(s) 754, 1219
BstHHI GCGC 1 cut(s) 1146
BstKTI GATC 6 cut(s) 151, 316, 831, 886, 1126, 1189
BstMAI GTCTC 2 cut(s) 161, 311
BstMBI GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
BstMWI GCNNNNNNNGC 7 cut(s) 43, 222, 300, 559, 641, 933, 1073
BstNI CCWGG 1 cut(s) 97
BstNSI RCATGY 1 cut(s) 225
BstSCI CCNGG 1 cut(s) 95
BstSFI CTRYAG 1 cut(s) 875
BstV1I GCAGC 2 cut(s) 883, 902
BstX2I RGATCY 1 cut(s) 313
BstXI CCANNNNNNTGG 2 cut(s) 103, 700
BstYI RGATCY 1 cut(s) 313
Bsu36I CCTNAGG 1 cut(s) 917
BtsCI GGATG 2 cut(s) 754, 1219
BtsI GCAGTG 1 cut(s) 1189
BtsIMutI CAGTG 2 cut(s) 1119, 1189
Cac8I GCNNGC 5 cut(s) 39, 597, 601, 934, 1069
CaiI CAGNNNCTG 2 cut(s) 360, 1016
CfoI GCGC 1 cut(s) 1146
Cfr13I GGNCC 2 cut(s) 736, 841
Csp6I GTAC 3 cut(s) 117, 219, 647
CviAII CATG 8 cut(s) 222, 367, 439, 460, 977, 1072, 1229, 1317
CviQI GTAC 3 cut(s) 117, 219, 647
DdeI CTNAG 6 cut(s) 296, 333, 398, 468, 722, 917
DpnI GATC 6 cut(s) 150, 315, 830, 885, 1125, 1188
DpnII GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
Eam1104I CTCTTC 4 cut(s) 276, 522, 1192, 1198
EarI CTCTTC 4 cut(s) 276, 522, 1192, 1198
Ecl136II GAGCTC 1 cut(s) 9
Eco130I CCWWGG 1 cut(s) 162
Eco24I GRGCYC 1 cut(s) 11
Eco47I GGWCC 2 cut(s) 736, 841
Eco53kI GAGCTC 1 cut(s) 9
Eco57I CTGAAG 2 cut(s) 539, 1038
Eco81I CCTNAGG 1 cut(s) 917
EcoICRI GAGCTC 1 cut(s) 9
EcoRII CCWGG 1 cut(s) 95
EcoT14I CCWWGG 1 cut(s) 162
EcoT38I GRGCYC 1 cut(s) 11
ErhI CCWWGG 1 cut(s) 162
Esp3I CGTCTC 1 cut(s) 311
FaeI CATG 8 cut(s) 225, 370, 442, 463, 980, 1075, 1232, 1320
FalI AAGNNNNNCTT 4 cut(s) 633, 665, 1288, 1320
FatI CATG 8 cut(s) 221, 366, 438, 459, 976, 1071, 1228, 1316
FbaI TGATCA 3 cut(s) 148, 1123, 1186
Fnu4HI GCNGC 2 cut(s) 872, 891
FokI GGATG 2 cut(s) 761, 1226
FriOI GRGCYC 1 cut(s) 11
Fsp4HI GCNGC 2 cut(s) 872, 891
FspBI CTAG 5 cut(s) 186, 671, 678, 1049, 1311
GlaI GCGC 1 cut(s) 1145
GluI GCNGC 2 cut(s) 872, 891
GsaI CCCAGC 1 cut(s) 57
GsuI CTGGAG 1 cut(s) 269
HhaI GCGC 1 cut(s) 1146
Hin1II CATG 8 cut(s) 225, 370, 442, 463, 980, 1075, 1232, 1320
Hin6I GCGC 1 cut(s) 1144
HinP1I GCGC 1 cut(s) 1144
HindIII AAGCTT 2 cut(s) 626, 773
HinfI GANTC 7 cut(s) 58, 100, 131, 182, 329, 380, 1013
HphI GGTGA 1 cut(s) 682
Hpy166II GTNNAC 1 cut(s) 1177
Hpy188I TCNGA 8 cut(s) 334, 541, 558, 811, 859, 1018, 1191, 1270
Hpy188III TCNNGA 5 cut(s) 179, 186, 248, 308, 611
Hpy8I GTNNAC 1 cut(s) 1177
HpyAV CCTTC 5 cut(s) 502, 812, 874, 1152, 1186
HpyCH4III ACNGT 2 cut(s) 362, 688
HpyCH4IV ACGT 1 cut(s) 407
HpyCH4V TGCA 7 cut(s) 225, 595, 745, 890, 965, 1277, 1316
HpyF10VI GCNNNNNNNGC 7 cut(s) 43, 222, 300, 559, 641, 933, 1073
HpyF3I CTNAG 6 cut(s) 296, 333, 398, 468, 722, 917
HpySE526I ACGT 1 cut(s) 407
Hsp92II CATG 8 cut(s) 225, 370, 442, 463, 980, 1075, 1232, 1320
HspAI GCGC 1 cut(s) 1144
Ksp22I TGATCA 3 cut(s) 148, 1123, 1186
Kzo9I GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
LmnI GCTCC 6 cut(s) 164, 394, 517, 718, 924, 1081
Lsp1109I GCAGC 2 cut(s) 883, 902
LweI GCATC 2 cut(s) 561, 1264
MaeI CTAG 5 cut(s) 186, 671, 678, 1049, 1311
MaeII ACGT 1 cut(s) 407
MaeIII GTNAC 2 cut(s) 362, 688
MalI GATC 6 cut(s) 150, 315, 830, 885, 1125, 1188
MboI GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
MfeI CAATTG 1 cut(s) 740
MflI RGATCY 1 cut(s) 313
MhlI GDGCHC 2 cut(s) 11, 1086
MlyI GAGTC 2 cut(s) 140, 191
MmeI TCCRAC 1 cut(s) 318
MroXI GAANNNNTTC 2 cut(s) 315, 552
MseI TTAA 5 cut(s) 48, 567, 912, 938, 1164
MslI CAYNNNNRTG 1 cut(s) 981
MspCI CTTAAG 1 cut(s) 937
MspR9I CCNGG 1 cut(s) 97
MunI CAATTG 1 cut(s) 740
Mva1269I GAATGC 1 cut(s) 1258
MvaI CCWGG 1 cut(s) 97
MwoI GCNNNNNNNGC 7 cut(s) 43, 222, 300, 559, 641, 933, 1073
NdeII GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
NlaIII CATG 8 cut(s) 225, 370, 442, 463, 980, 1075, 1232, 1320
NmeAIII GCCGAG 2 cut(s) 829, 919
NmuCI GTSAC 2 cut(s) 362, 688
NspI RCATGY 1 cut(s) 225
NspV TTCGAA 3 cut(s) 125, 141, 1156
PctI GAATGC 1 cut(s) 1258
PdmI GAANNNNTTC 2 cut(s) 315, 552
PfeI GAWTC 5 cut(s) 58, 100, 329, 380, 1013
PkrI GCNGC 2 cut(s) 873, 892
PleI GAGTC 2 cut(s) 139, 190
PpsI GAGTC 2 cut(s) 139, 190
PsiI TTATAA 1 cut(s) 264
Psp124BI GAGCTC 1 cut(s) 11
Psp6I CCWGG 1 cut(s) 95
PspFI CCCAGC 1 cut(s) 53
PspGI CCWGG 1 cut(s) 95
PspPI GGNCC 2 cut(s) 736, 841
PstNI CAGNNNCTG 2 cut(s) 360, 1016
PsuI RGATCY 1 cut(s) 313
RsaI GTAC 3 cut(s) 118, 220, 648
RsaNI GTAC 3 cut(s) 117, 219, 647
RseI CAYNNNNRTG 1 cut(s) 981
SacI GAGCTC 1 cut(s) 11
SaqAI TTAA 5 cut(s) 48, 567, 912, 938, 1164
SatI GCNGC 2 cut(s) 872, 891
Sau3AI GATC 6 cut(s) 148, 313, 828, 883, 1123, 1186
Sau96I GGNCC 2 cut(s) 736, 841
ScaI AGTACT 2 cut(s) 118, 648
SchI GAGTC 2 cut(s) 140, 191
ScrFI CCNGG 1 cut(s) 97
SduI GDGCHC 2 cut(s) 11, 1086
SfaNI GCATC 2 cut(s) 561, 1264
SfcI CTRYAG 1 cut(s) 875
SfuI TTCGAA 3 cut(s) 125, 141, 1156
SinI GGWCC 2 cut(s) 736, 841
SmiMI CAYNNNNRTG 1 cut(s) 981
SmlI CTYRAG 4 cut(s) 177, 482, 776, 937
SmoI CTYRAG 4 cut(s) 177, 482, 776, 937
SspI AATATT 1 cut(s) 503
SspMI CTAG 5 cut(s) 186, 671, 678, 1049, 1311
SstI GAGCTC 1 cut(s) 11
StyD4I CCNGG 1 cut(s) 95
StyI CCWWGG 1 cut(s) 162
TaaI ACNGT 2 cut(s) 362, 688
TaiI ACGT 1 cut(s) 410
TaqI TCGA 5 cut(s) 125, 141, 309, 610, 1156
TatI WGTACW 3 cut(s) 116, 218, 646
TfiI GAWTC 5 cut(s) 58, 100, 329, 380, 1013
Tru1I TTAA 5 cut(s) 48, 567, 912, 938, 1164
Tru9I TTAA 5 cut(s) 48, 567, 912, 938, 1164
TscAI CASTG 2 cut(s) 1126, 1189
TseFI GTSAC 2 cut(s) 362, 688
TseI GCWGC 2 cut(s) 871, 890
Tsp45I GTSAC 2 cut(s) 362, 688
TspDTI ATGAA 9 cut(s) 76, 194, 383, 427, 448, 561, 681, 968, 1245
TspGWI ACGGA 1 cut(s) 917
TspRI CASTG 2 cut(s) 1126, 1189
Vha464I CTTAAG 1 cut(s) 937
VpaK11BI GGWCC 2 cut(s) 736, 841
XapI RAATTY 1 cut(s) 790
XbaI TCTAGA 1 cut(s) 185
XceI RCATGY 1 cut(s) 225
XmnI GAANNNNTTC 2 cut(s) 315, 552
XspI CTAG 5 cut(s) 186, 671, 678, 1049, 1311
ZrmI AGTACT 2 cut(s) 118, 648
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.