MD06G1210200.v1.1

Protein CHUP1, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr06
OG0017304
Physical Location & Seq
Forward (+)
34313448 .. 34315814
2367 bp
Loading structure...
UTR
Exon/CDS
Intron
MD06G1210200.v1.1.491

Sequence Viewer

Length: 1377 bp
ATGGAATTATGTGTTCTAAAAGAAGAGCAATCATACATGACTCAATTGCAAAGGAATCTAGACGAAAAGGCGATGGAGATTGACATGCTCAACGCCTCCATTGCTTCTTTGCAGGCTGAGAGGAAGGTTCTTATGGAAGATGTGAAGCAGTGTGGTTTGGTGAAGAAGCAGCTAGACGCGGCGAAGAAAATGATAGCTGAAATGCAAAGGAGGATGGAATATTCCGGCAAGAATGACGTGAAGGGGAGGTTGTTGGTGGTGGGAGAACAAGTTTCTAGTTTTCCCAAGGATGAAATGTGTATTAGAGATGAACTAGTTGAGATGAAGCTGAAAGGTGTGAAAAATGTTGAGTTGGAAGTATTGAAGATGAAGAGGAGGAACAAAGAGCTTGAGCTAGAAAAGAGGGAATTGGCAGTCAAATTGGTTTGTGCACAAACCAGAATCACTACTTTGTCTAGCATGAATGAGAGTGGAACCATTGCCAAGGCTGAAGAAGAAGTAAGCAAGTTGAAACACACCAATGAGGGCCTCTCGAGACAAGTCGAAAAACTGCAGAAAAACAGATTTGACATGGTGGAACAACTTGTGTACCAGAGGTGGCTCTACGCTTGCTTGCGATTCGAAACCCTAATCCACAGCAGCCCATCACCGGACACTTCAAAACATGATCTCAGCCCTTCATCTCACACTTCATCTACTAGTTTGAGCGATGAAATAACCGAGACAACCACCATTGGCAGCTCTTCAAGCAGCCAAAGTAATAAGATTAAGAAGTCTGGTTTCATGCAGAGTATTAAGACGTGGGGAGGAAGAAGAAGAAGAAGAAGAAGGAAGGAGAAGGAGGAGGACATGGATTACTCAAGTGCCCTTCCAAGCAAGAGAGACCTTATTCGGAGGTTTTCGACGTCGATGGTTCCGGTGAAGGCTTCCATGTTAAGAAACGGAGGTGAGAGCAGCACAACCAACTCTTCTTCTCCATCCTCCAAGGCGCCAAGTTTATCTAGGGTTAGGAGGGTCTCGTTCAGCGATTCAGTCAAATCAACGTCTCGTGATCATTCAACTCCAAAGTCAGCTGATCGGACGTCTGGAACAATGGCGATGGATTCAACCAAAAATTACAACAATGTTCATGAATTGGAGGGAGAAAAGCATGAACTTGAAGCATCACCAGAAGTAACAATTTCTGCAAGTCCCGAATTCATGAAAAGTGACAGCAATATTGCTGATCAGGTAAACAACAGTACTGAAATTTCAGACACATATGCTTTGCGTTGTGTGGTTGTTGCTGAGGAGAACAAGGTGGACACCAATGTTGTAGGTTTTATTGCTGCATTATTTTTCTTCCTCTTTATATTAGTTGTGACTCGCATGTTATAA
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

459

Amino Acids

51.71

Weight (kDa)

8.89

Isoelectric Point (pI)

60.98

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: OG0017304)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g12771
malus_domestica MD06G1210200.v1.1
prunus_persica Prupe.5G216400_v2.0.a1
pyrus_communis pycom06g18790
rosa_chinensis RchiOBHm_Chr7g0184451
rosa_laevigata RLG00000004974
rosa_multiflora Rmu_sc0001557.1_g000015
rosa_roxburghii Rroxscaffold_3G00269600
rosa_samantha Rh7AG079800 Rh7BG067400 Rh7CG067700 Rh7DG067400
rosa_wichuraiana Rw7G005550

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1375
AatII GACGTC 2 cut(s) 908, 1085
AccB1I GGYRCC 1 cut(s) 988
AccII CGCG 1 cut(s) 179
AciI CCGC 1 cut(s) 179
AcsI RAATTY 2 cut(s) 1196, 1248
AcuI CTGAAG 1 cut(s) 510
AcyI GRCGYC 3 cut(s) 905, 989, 1082
AfaI GTAC 2 cut(s) 590, 1243
AfiI CCNNNNNNNGG 1 cut(s) 649
AgsI TTSAA 7 cut(s) 364, 511, 660, 747, 1059, 1107, 1160
AhlI ACTAGT 2 cut(s) 313, 698
AjiI CACGTC 2 cut(s) 238, 801
AluBI AGCT 7 cut(s) 172, 197, 328, 388, 394, 741, 1073
AluI AGCT 7 cut(s) 172, 197, 328, 388, 394, 741, 1073
Alw21I GWGCWC 1 cut(s) 433
Alw26I GTCTC 5 cut(s) 529, 716, 876, 1021, 1050
Alw44I GTGCAC 1 cut(s) 429
Ama87I CYCGRG 1 cut(s) 532
AoxI GGCC 1 cut(s) 526
ApaLI GTGCAC 1 cut(s) 429
ApeKI GCWGC 6 cut(s) 169, 639, 738, 750, 954, 1328
ApoI RAATTY 2 cut(s) 1196, 1248
AspLEI GCGC 1 cut(s) 991
AspS9I GGNCC 1 cut(s) 526
AsuHPI GGTGA 5 cut(s) 172, 639, 931, 959, 1158
AsuII TTCGAA 1 cut(s) 621
AvaI CYCGRG 1 cut(s) 532
BaeGI GKGCMC 2 cut(s) 433, 868
BaeI ACNNNNGTAYC 2 cut(s) 572, 605
BanI GGYRCC 1 cut(s) 988
BauI CACGAG 1 cut(s) 1047
Bbv12I GWGCWC 1 cut(s) 433
BbvCI CCTCAGC 1 cut(s) 1287
BbvI GCAGC 6 cut(s) 181, 651, 750, 762, 966, 1315
BccI CCATC 6 cut(s) 67, 208, 652, 904, 985, 1093
BclI TGATCA 2 cut(s) 1051, 1225
BcoDI GTCTC 5 cut(s) 529, 716, 876, 1021, 1050
BcuI ACTAGT 2 cut(s) 313, 698
BfaI CTAG 8 cut(s) 59, 173, 276, 314, 395, 456, 699, 1002
BfmI CTRYAG 1 cut(s) 551
BfoI RGCGCY 1 cut(s) 992
BisI GCNGC 7 cut(s) 170, 180, 640, 739, 751, 955, 1329
BlsI GCNGC 7 cut(s) 171, 181, 641, 740, 752, 956, 1330
BmcAI AGTACT 1 cut(s) 1243
BmeT110I CYCGRG 1 cut(s) 532
BmgBI CACGTC 2 cut(s) 238, 801
BmgT120I GGNCC 1 cut(s) 526
BmiI GGNNCC 3 cut(s) 475, 915, 990
BmsI GCATC 1 cut(s) 1172
BplI GAGNNNNNCTC 2 cut(s) 515, 547
Bpu10I CCTNAGC 1 cut(s) 1287
Bpu14I TTCGAA 1 cut(s) 621
BpuEI CTTGAG 2 cut(s) 410, 844
BsaHI GRCGYC 3 cut(s) 905, 989, 1082
BsaI GGTCTC 2 cut(s) 876, 1021
BsaJI CCNNGG 3 cut(s) 285, 483, 984
BsaWI WCCGGW 2 cut(s) 649, 916
BsaXI ACNNNNNCTCC 2 cut(s) 255, 285
Bsc4I CCNNNNNNNGG 1 cut(s) 649
Bse3DI GCAATG 2 cut(s) 99, 477
BseDI CCNNGG 3 cut(s) 285, 483, 984
BseGI GGATG 3 cut(s) 219, 295, 977
BseLI CCNNNNNNNGG 1 cut(s) 649
BseMI GCAATG 2 cut(s) 99, 477
BseMII CTCAG 3 cut(s) 108, 685, 1278
BseRI GAGGAG 3 cut(s) 388, 857, 1304
BseSI GKGCMC 2 cut(s) 433, 868
BseXI GCAGC 6 cut(s) 181, 651, 750, 762, 966, 1315
Bsh1236I CGCG 1 cut(s) 179
BshFI GGCC 1 cut(s) 528
BshNI GGYRCC 1 cut(s) 988
BsiHKAI GWGCWC 1 cut(s) 433
BsiHKCI CYCGRG 1 cut(s) 532
BsiSI CCGG 3 cut(s) 225, 650, 917
BslFI GGGAC 1 cut(s) 1176
BslI CCNNNNNNNGG 1 cut(s) 649
BsmAI GTCTC 5 cut(s) 529, 716, 876, 1021, 1050
BsmBI CGTCTC 1 cut(s) 1050
BsmFI GGGAC 1 cut(s) 1176
BsnI GGCC 1 cut(s) 528
Bso31I GGTCTC 2 cut(s) 876, 1021
BsoBI CYCGRG 1 cut(s) 532
Bsp119I TTCGAA 1 cut(s) 621
Bsp1286I GDGCHC 2 cut(s) 433, 868
Bsp143I GATC 4 cut(s) 667, 1051, 1075, 1225
BspACI CCGC 1 cut(s) 179
BspANI GGCC 1 cut(s) 528
BspCNI CTCAG 3 cut(s) 109, 684, 1279
BspFNI CGCG 1 cut(s) 179
BspHI TCATGA 2 cut(s) 1129, 1200
BspLI GGNNCC 3 cut(s) 475, 915, 990
BspMAI CTGCAG 1 cut(s) 555
BspQI GCTCTTC 2 cut(s) 18, 748
BspT104I TTCGAA 1 cut(s) 621
BspT107I GGYRCC 1 cut(s) 988
BspTNI GGTCTC 2 cut(s) 876, 1021
BsrDI GCAATG 2 cut(s) 99, 477
BssECI CCNNGG 3 cut(s) 285, 483, 984
BssMI GATC 4 cut(s) 667, 1051, 1075, 1225
BssNI GRCGYC 3 cut(s) 905, 989, 1082
BssSI CACGAG 1 cut(s) 1047
BssT1I CCWWGG 3 cut(s) 285, 483, 984
Bst2BI CACGAG 1 cut(s) 1047
Bst4CI ACNGT 1 cut(s) 1241
Bst6I CTCTTC 4 cut(s) 18, 365, 748, 973
BstACI GRCGYC 3 cut(s) 905, 989, 1082
BstBI TTCGAA 1 cut(s) 621
BstC8I GCNNGC 3 cut(s) 114, 610, 614
BstDEI CTNAG 3 cut(s) 117, 671, 1287
BstF5I GGATG 3 cut(s) 219, 295, 977
BstFNI CGCG 1 cut(s) 179
BstH2I RGCGCY 1 cut(s) 992
BstHHI GCGC 1 cut(s) 991
BstKTI GATC 4 cut(s) 670, 1054, 1078, 1228
BstMAI GTCTC 5 cut(s) 529, 716, 876, 1021, 1050
BstMBI GATC 4 cut(s) 667, 1051, 1075, 1225
BstMWI GCNNNNNNNGC 2 cut(s) 101, 747
BstNSI RCATGY 2 cut(s) 88, 1372
BstSFI CTRYAG 1 cut(s) 551
BstSLI GKGCMC 2 cut(s) 433, 868
BstUI CGCG 1 cut(s) 179
BstV1I GCAGC 6 cut(s) 181, 651, 750, 762, 966, 1315
BsuRI GGCC 1 cut(s) 528
BtgZI GCGATG 3 cut(s) 86, 723, 1112
BtrI CACGTC 2 cut(s) 238, 801
BtsCI GGATG 3 cut(s) 219, 295, 977
BtsI GCAGTG 1 cut(s) 155
BtsIMutI CAGTG 1 cut(s) 155
Cac8I GCNNGC 3 cut(s) 114, 610, 614
CciI TCATGA 2 cut(s) 1129, 1200
CfoI GCGC 1 cut(s) 991
Cfr13I GGNCC 1 cut(s) 526
CseI GACGC 1 cut(s) 185
Csp6I GTAC 2 cut(s) 589, 1242
CviQI GTAC 2 cut(s) 589, 1242
DdeI CTNAG 3 cut(s) 117, 671, 1287
DinI GGCGCC 1 cut(s) 990
DpnI GATC 4 cut(s) 669, 1053, 1077, 1227
DpnII GATC 4 cut(s) 667, 1051, 1075, 1225
Eam1104I CTCTTC 4 cut(s) 18, 365, 748, 973
EarI CTCTTC 4 cut(s) 18, 365, 748, 973
Eco130I CCWWGG 3 cut(s) 285, 483, 984
Eco31I GGTCTC 2 cut(s) 876, 1021
Eco57I CTGAAG 1 cut(s) 510
Eco88I CYCGRG 1 cut(s) 532
EcoO109I RGGNCCY 1 cut(s) 526
EcoRI GAATTC 1 cut(s) 1196
EcoT14I CCWWGG 3 cut(s) 285, 483, 984
EgeI GGCGCC 1 cut(s) 990
EheI GGCGCC 1 cut(s) 990
ErhI CCWWGG 3 cut(s) 285, 483, 984
Esp3I CGTCTC 1 cut(s) 1050
FaqI GGGAC 1 cut(s) 1176
FauNDI CATATG 1 cut(s) 1261
FbaI TGATCA 2 cut(s) 1051, 1225
Fnu4HI GCNGC 7 cut(s) 170, 180, 640, 739, 751, 955, 1329
FokI GGATG 3 cut(s) 226, 302, 964
Fsp4HI GCNGC 7 cut(s) 170, 180, 640, 739, 751, 955, 1329
FspBI CTAG 8 cut(s) 59, 173, 276, 314, 395, 456, 699, 1002
GlaI GCGC 1 cut(s) 990
GluI GCNGC 7 cut(s) 170, 180, 640, 739, 751, 955, 1329
HaeII RGCGCY 1 cut(s) 992
HaeIII GGCC 1 cut(s) 528
HapII CCGG 3 cut(s) 225, 650, 917
HgaI GACGC 1 cut(s) 185
HhaI GCGC 1 cut(s) 991
Hin1I GRCGYC 3 cut(s) 905, 989, 1082
Hin6I GCGC 1 cut(s) 989
HinP1I GCGC 1 cut(s) 989
HinfI GANTC 7 cut(s) 40, 55, 441, 618, 1028, 1103, 1363
HpaII CCGG 3 cut(s) 225, 650, 917
HphI GGTGA 5 cut(s) 172, 639, 931, 959, 1158
Hpy166II GTNNAC 4 cut(s) 431, 589, 1234, 1303
Hpy188I TCNGA 3 cut(s) 894, 1080, 1255
Hpy188III TCNNGA 8 cut(s) 59, 532, 534, 1049, 1086, 1130, 1193, 1201
Hpy8I GTNNAC 4 cut(s) 431, 589, 1234, 1303
Hpy99I CGWCG 2 cut(s) 907, 910
HpyAV CCTTC 8 cut(s) 118, 235, 687, 822, 826, 832, 878, 916
HpyCH4III ACNGT 1 cut(s) 1241
HpyCH4IV ACGT 5 cut(s) 237, 800, 905, 1043, 1082
HpyCH4V TGCA 8 cut(s) 49, 112, 205, 431, 553, 787, 1187, 1331
HpyF10VI GCNNNNNNNGC 2 cut(s) 101, 747
HpyF3I CTNAG 3 cut(s) 117, 671, 1287
HpySE526I ACGT 5 cut(s) 237, 800, 905, 1043, 1082
Hsp92I GRCGYC 3 cut(s) 905, 989, 1082
HspAI GCGC 1 cut(s) 989
KasI GGCGCC 1 cut(s) 988
Ksp22I TGATCA 2 cut(s) 1051, 1225
Kzo9I GATC 4 cut(s) 667, 1051, 1075, 1225
LguI GCTCTTC 2 cut(s) 18, 748
Lsp1109I GCAGC 6 cut(s) 181, 651, 750, 762, 966, 1315
LweI GCATC 1 cut(s) 1172
MaeI CTAG 8 cut(s) 59, 173, 276, 314, 395, 456, 699, 1002
MaeII ACGT 5 cut(s) 237, 800, 905, 1043, 1082
MaeIII GTNAC 3 cut(s) 1174, 1208, 1360
MalI GATC 4 cut(s) 669, 1053, 1077, 1227
MboI GATC 4 cut(s) 667, 1051, 1075, 1225
MfeI CAATTG 1 cut(s) 44
MhlI GDGCHC 2 cut(s) 433, 868
MluCI AATT 9 cut(s) 5, 44, 407, 419, 1114, 1133, 1179, 1196, 1248
Mly113I GGCGCC 1 cut(s) 989
MlyI GAGTC 2 cut(s) 34, 1357
MmeI TCCRAC 1 cut(s) 333
MseI TTAA 3 cut(s) 768, 795, 935
MslI CAYNNNNRTG 1 cut(s) 519
MspA1I CMGCKG 1 cut(s) 1073
MspI CCGG 3 cut(s) 225, 650, 917
MunI CAATTG 1 cut(s) 44
MvnI CGCG 1 cut(s) 179
MwoI GCNNNNNNNGC 2 cut(s) 101, 747
NarI GGCGCC 1 cut(s) 989
NdeI CATATG 1 cut(s) 1261
NdeII GATC 4 cut(s) 667, 1051, 1075, 1225
NlaIV GGNNCC 3 cut(s) 475, 915, 990
NmuCI GTSAC 2 cut(s) 1208, 1360
NspI RCATGY 2 cut(s) 88, 1372
NspV TTCGAA 1 cut(s) 621
PaeR7I CTCGAG 1 cut(s) 532
PagI TCATGA 2 cut(s) 1129, 1200
PciSI GCTCTTC 2 cut(s) 18, 748
PfeI GAWTC 5 cut(s) 55, 441, 618, 1028, 1103
PkrI GCNGC 7 cut(s) 171, 181, 641, 740, 752, 956, 1330
PleI GAGTC 2 cut(s) 34, 1357
PluTI GGCGCC 1 cut(s) 992
PpsI GAGTC 2 cut(s) 34, 1357
PsiI TTATAA 1 cut(s) 1375
PspN4I GGNNCC 3 cut(s) 475, 915, 990
PspPI GGNCC 1 cut(s) 526
PstI CTGCAG 1 cut(s) 555
PvuII CAGCTG 1 cut(s) 1073
RsaI GTAC 2 cut(s) 590, 1243
RsaNI GTAC 2 cut(s) 589, 1242
RseI CAYNNNNRTG 1 cut(s) 519
SapI GCTCTTC 2 cut(s) 18, 748
SaqAI TTAA 3 cut(s) 768, 795, 935
SatI GCNGC 7 cut(s) 170, 180, 640, 739, 751, 955, 1329
Sau3AI GATC 4 cut(s) 667, 1051, 1075, 1225
Sau96I GGNCC 1 cut(s) 526
ScaI AGTACT 1 cut(s) 1243
SchI GAGTC 2 cut(s) 34, 1357
SduI GDGCHC 2 cut(s) 433, 868
SfaNI GCATC 1 cut(s) 1172
SfcI CTRYAG 1 cut(s) 551
SfoI GGCGCC 1 cut(s) 990
Sfr274I CTCGAG 1 cut(s) 532
SfuI TTCGAA 1 cut(s) 621
SlaI CTCGAG 1 cut(s) 532
SmiMI CAYNNNNRTG 1 cut(s) 519
SmlI CTYRAG 3 cut(s) 389, 532, 859
SmoI CTYRAG 3 cut(s) 389, 532, 859
SpeI ACTAGT 2 cut(s) 313, 698
Sse9I AATT 9 cut(s) 5, 44, 407, 419, 1114, 1133, 1179, 1196, 1248
SsiI CCGC 1 cut(s) 179
SspDI GGCGCC 1 cut(s) 988
SspI AATATT 2 cut(s) 221, 1219
SspMI CTAG 8 cut(s) 59, 173, 276, 314, 395, 456, 699, 1002
StyI CCWWGG 3 cut(s) 285, 483, 984
TaaI ACNGT 1 cut(s) 1241
TaiI ACGT 5 cut(s) 240, 803, 908, 1046, 1085
TaqI TCGA 5 cut(s) 533, 543, 621, 902, 908
TasI AATT 9 cut(s) 5, 44, 407, 419, 1114, 1133, 1179, 1196, 1248
TatI WGTACW 1 cut(s) 1241
TauI GCSGC 1 cut(s) 182
TfiI GAWTC 5 cut(s) 55, 441, 618, 1028, 1103
Tru1I TTAA 3 cut(s) 768, 795, 935
Tru9I TTAA 3 cut(s) 768, 795, 935
TscAI CASTG 1 cut(s) 155
TseFI GTSAC 2 cut(s) 1208, 1360
TseI GCWGC 6 cut(s) 169, 639, 738, 750, 954, 1328
Tsp45I GTSAC 2 cut(s) 1208, 1360
TspGWI ACGGA 1 cut(s) 957
TspRI CASTG 1 cut(s) 155
VneI GTGCAC 1 cut(s) 429
XapI RAATTY 2 cut(s) 1196, 1248
XbaI TCTAGA 1 cut(s) 58
XceI RCATGY 2 cut(s) 88, 1372
XhoI CTCGAG 1 cut(s) 532
XspI CTAG 8 cut(s) 59, 173, 276, 314, 395, 456, 699, 1002
ZraI GACGTC 2 cut(s) 906, 1083
ZrmI AGTACT 1 cut(s) 1243
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.