MD05G1057000.v1.1

carotenoid cleavage dioxygenase 4

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0022313
Physical Location & Seq
Forward (+)
10010532 .. 10011866
1335 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1057000.v1.1.491

Sequence Viewer

Length: 1335 bp
ATGCTTCACTCCATCAGGATCTCCCAAGGCCGAGCAATGCTTTGTAGCCGCTACGTCAAGACCTATAAATACACTGTGGAGCGCGAAGCCGGATATCCTCTCTTTCCCAGCATTTTCTCTAGCTTTAACGGCCTCCTTGCCTCCACGATGCACGTGGCTCTTCTTGCTGCTCGAATCCTTGCTGGTCATCTCAATCTTGCTAACGGCTTTGGTGTGGCCAACACCAGTTTAATTCTCTTTGGCAACCGTCTCTACGCGCTTTGCGAGTCTGACCTCCCTTATGCTGTGCGGTTGACATCCAACGGAGATATTCAGACTATGGGGCGACACCATTTTGATCAGAAGCTCTCCGAGGGCATGACAGCTCATCCGAAGATAGACCCCGAAACAGGCGAGACCTTTGCTTTCCGTTACAGAGCAGTGCCTCCATTCCTCACCTATTTTCGCTTCAATGCAGACGGGACAAAGCACCCGGACGTGCCCATATTCTCTATGCGTCGTCCATCTATCATCCACGACTTTGCAATCACCAAGAAGTATGCCATATTTGTTGACATACAATTAACACTGGACCCCATCAAAATGATCACTACCGGTGGATCTCCAGTCGTTTTCGATCCGTCCAAAGTGACTAGGATCGGAGTACTTCCACGGTACGCAGTTGACGAGTCCGAGATGAGGTGGTTTAATGTTCCGGGATTGAACATTTTACACACCATTAACGCATGGGACGACGATCAAGAAGACGATCTCGATAAGGATACGATCGTGTTGGTTGCACCAAATGTATTGTCTCCACAATACATTTTCGAGAGATGGGATCTCTTCCGCTCGTCTGTCGAGAAAATGAGGATCAATCTTAAGACGGGGATCGTAACGAGGCAACCAATCTCCGTAAGGAATATAGAATTCGGGATGATCAATCATGCTTACGTGGGGAAGAAGAACAAGTTTGTGTATGGATCTGTCCCTGGAGAAACAATGCTCGCTGATGATCATTCAATGCCAAAGTGTGCAGGGGTGGTGAAGTTGGATCTAGATGTGTCCTCCGATGGGGGTGAGAGCACGGTGGCATGCAGGATGTACGGACCAAATTGCTACGGCGGTGAGCCTTTCTTTGTTGCTAGAGAGCCGGAGAATCCAAACGCGAAGGAGGATGATGGATACGTGGTGTCATTTGTGCACGATGAGAAGACAGGAGAATCAAGGTTCTTAGTGATGGATGCTAAGTCGCAACAGCTTGATATTGTGGCGGTTCTCAAGCTGCCCCGCAGGGTCCCGTACGGCTTCCATGGTCTCTTCGTGAAGGAAAGCGACCTACAAAAGTTGTACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00906 ko01100 ko01110 map00906 map01100 map01110
Pfam Domains
Protein Families
RPE65

Protein Analysis

445

Amino Acids

49.93

Weight (kDa)

6.68

Isoelectric Point (pI)

39.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RPE65 PF03055 1 - 435 3.3e-103 Retinal pigment epithelial membrane 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: OG0022313)

Species Orthologous Gene IDs
malus_domestica MD05G1057000.v1.1 MD06G1084800.v1.1 MD14G1105700.v1.1
pyrus_communis pycom14g10120

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 831
AccII CGCG 3 cut(s) 84, 257, 1148
AciI CCGC 6 cut(s) 49, 289, 829, 1104, 1253, 1270
AclWI GGATC 9 cut(s) 26, 607, 611, 644, 828, 860, 878, 970, 1041
AcoI YGGCCR 1 cut(s) 216
AcsI RAATTY 1 cut(s) 908
AcvI CACGTG 1 cut(s) 154
AfaI GTAC 5 cut(s) 645, 656, 1085, 1283, 1331
AfiI CCNNNNNNNGG 3 cut(s) 389, 678, 1053
AflII CTTAAG 1 cut(s) 860
AgeI ACCGGT 1 cut(s) 593
AgsI TTSAA 3 cut(s) 451, 703, 1002
AjiI CACGTC 1 cut(s) 478
AjnI CCWGG 1 cut(s) 970
AluBI AGCT 5 cut(s) 123, 346, 365, 1240, 1264
AluI AGCT 5 cut(s) 123, 346, 365, 1240, 1264
Alw21I GWGCWC 2 cut(s) 1067, 1185
Alw26I GTCTC 4 cut(s) 254, 389, 798, 1301
Alw44I GTGCAC 1 cut(s) 1181
AlwI GGATC 9 cut(s) 26, 607, 611, 644, 828, 860, 878, 970, 1041
AoxI GGCC 3 cut(s) 28, 130, 216
ApaLI GTGCAC 1 cut(s) 1181
ApeKI GCWGC 2 cut(s) 167, 1264
ApoI RAATTY 1 cut(s) 908
ArsI GACNNNNNNTTYG 2 cut(s) 776, 808
AsiGI ACCGGT 1 cut(s) 593
AspLEI GCGC 2 cut(s) 84, 259
AspS9I GGNCC 3 cut(s) 571, 1088, 1276
AsuC2I CCSGG 2 cut(s) 473, 696
AsuHPI GGTGA 5 cut(s) 427, 520, 1036, 1070, 1118
AvaII GGWCC 3 cut(s) 571, 1088, 1276
BaeGI GKGCMC 2 cut(s) 483, 1185
BaeI ACNNNNGTAYC 2 cut(s) 753, 786
BalI TGGCCA 1 cut(s) 218
BbrPI CACGTG 1 cut(s) 154
BbsI GAAGAC 2 cut(s) 750, 1199
Bbv12I GWGCWC 2 cut(s) 1067, 1185
BbvI GCAGC 2 cut(s) 154, 1251
BccI CCATC 7 cut(s) 20, 511, 584, 810, 1046, 1154, 1213
BceAI ACGGC 4 cut(s) 145, 220, 1117, 1300
BcgI CGANNNNNNTGC 2 cut(s) 383, 417
BciT130I CCWGG 1 cut(s) 972
BciVI GTATCC 2 cut(s) 754, 1157
BclI TGATCA 4 cut(s) 337, 585, 918, 994
BcnI CCSGG 2 cut(s) 473, 696
BcoDI GTCTC 4 cut(s) 254, 389, 798, 1301
BfaI CTAG 4 cut(s) 120, 633, 1037, 1125
BfrI CTTAAG 1 cut(s) 860
BfuI GTATCC 2 cut(s) 754, 1157
BisI GCNGC 3 cut(s) 49, 168, 1265
BlsI GCNGC 3 cut(s) 50, 169, 1266
BmcAI AGTACT 1 cut(s) 645
Bme1390I CCNGG 3 cut(s) 473, 696, 972
Bme18I GGWCC 3 cut(s) 571, 1088, 1276
BmgBI CACGTC 1 cut(s) 478
BmgT120I GGNCC 3 cut(s) 571, 1088, 1276
BmiI GGNNCC 3 cut(s) 573, 1277, 1278
BmrFI CCNGG 3 cut(s) 473, 696, 972
BmsI GCATC 2 cut(s) 138, 1213
BpiI GAAGAC 2 cut(s) 750, 1199
BpmI CTGGAG 2 cut(s) 588, 993
BpuEI CTTGAG 1 cut(s) 1244
BpuMI CCSGG 2 cut(s) 473, 696
BsaAI YACGTR 3 cut(s) 154, 934, 1168
BsaI GGTCTC 2 cut(s) 389, 1301
BsaJI CCNNGG 5 cut(s) 25, 351, 650, 970, 1291
BsaWI WCCGGW 1 cut(s) 593
Bsc4I CCNNNNNNNGG 3 cut(s) 389, 678, 1053
Bse118I RCCGGY 1 cut(s) 593
Bse1I ACTGG 3 cut(s) 225, 573, 605
Bse3DI GCAATG 1 cut(s) 42
BseBI CCWGG 1 cut(s) 972
BseDI CCNNGG 5 cut(s) 25, 351, 650, 970, 1291
BseGI GGATG 7 cut(s) 296, 367, 510, 921, 1086, 1162, 1228
BseLI CCNNNNNNNGG 3 cut(s) 389, 678, 1053
BseMI GCAATG 1 cut(s) 42
BseNI ACTGG 3 cut(s) 225, 573, 605
BseSI GKGCMC 2 cut(s) 483, 1185
BseXI GCAGC 2 cut(s) 154, 1251
BseYI CCCAGC 1 cut(s) 107
BsgI GTGCAG 1 cut(s) 1035
Bsh1236I CGCG 3 cut(s) 84, 257, 1148
Bsh1285I CGRYCG 1 cut(s) 768
BshFI GGCC 3 cut(s) 30, 132, 218
BshTI ACCGGT 1 cut(s) 593
BsiEI CGRYCG 1 cut(s) 768
BsiHKAI GWGCWC 2 cut(s) 1067, 1185
BsiSI CCGG 5 cut(s) 90, 473, 594, 695, 1133
BsiWI CGTACG 1 cut(s) 1281
BslFI GGGAC 4 cut(s) 475, 743, 953, 1262
BslI CCNNNNNNNGG 3 cut(s) 389, 678, 1053
BsmAI GTCTC 4 cut(s) 254, 389, 798, 1301
BsmBI CGTCTC 1 cut(s) 254
BsmFI GGGAC 4 cut(s) 475, 743, 953, 1262
BsnI GGCC 3 cut(s) 30, 132, 218
Bso31I GGTCTC 2 cut(s) 389, 1301
Bsp1286I GDGCHC 3 cut(s) 483, 1067, 1185
Bsp19I CCATGG 1 cut(s) 1291
BspACI CCGC 6 cut(s) 49, 289, 829, 1104, 1253, 1270
BspANI GGCC 3 cut(s) 30, 132, 218
BspFNI CGCG 3 cut(s) 84, 257, 1148
BspLI GGNNCC 3 cut(s) 573, 1277, 1278
BspPI GGATC 9 cut(s) 26, 607, 611, 644, 828, 860, 878, 970, 1041
BspQI GCTCTTC 1 cut(s) 165
BspTI CTTAAG 1 cut(s) 860
BspTNI GGTCTC 2 cut(s) 389, 1301
BsrBI CCGCTC 1 cut(s) 831
BsrDI GCAATG 1 cut(s) 42
BsrFI RCCGGY 1 cut(s) 593
BsrI ACTGG 3 cut(s) 225, 573, 605
BssAI RCCGGY 1 cut(s) 593
BssECI CCNNGG 5 cut(s) 25, 351, 650, 970, 1291
BssT1I CCWWGG 2 cut(s) 25, 1291
Bst2UI CCWGG 1 cut(s) 972
Bst4CI ACNGT 4 cut(s) 76, 248, 654, 1069
Bst6I CTCTTC 3 cut(s) 165, 830, 1304
BstAFI CTTAAG 1 cut(s) 860
BstBAI YACGTR 3 cut(s) 154, 934, 1168
BstC8I GCNNGC 2 cut(s) 987, 1075
BstDEI CTNAG 2 cut(s) 1213, 1227
BstDSI CCRYGG 2 cut(s) 650, 1291
BstF5I GGATG 7 cut(s) 296, 367, 510, 921, 1086, 1162, 1228
BstFNI CGCG 3 cut(s) 84, 257, 1148
BstHHI GCGC 2 cut(s) 84, 259
BstMAI GTCTC 4 cut(s) 254, 389, 798, 1301
BstMCI CGRYCG 1 cut(s) 768
BstMWI GCNNNNNNNGC 2 cut(s) 129, 164
BstNI CCWGG 1 cut(s) 972
BstNSI RCATGY 1 cut(s) 1077
BstSCI CCNGG 3 cut(s) 471, 694, 970
BstSLI GKGCMC 2 cut(s) 483, 1185
BstUI CGCG 3 cut(s) 84, 257, 1148
BstV1I GCAGC 2 cut(s) 154, 1251
BstV2I GAAGAC 2 cut(s) 750, 1199
BstX2I RGATCY 5 cut(s) 18, 599, 820, 962, 1033
BstYI RGATCY 5 cut(s) 18, 599, 820, 962, 1033
BsuI GTATCC 2 cut(s) 754, 1157
BsuRI GGCC 3 cut(s) 30, 132, 218
BtgI CCRYGG 2 cut(s) 650, 1291
BtrI CACGTC 1 cut(s) 478
BtsCI GGATG 7 cut(s) 296, 367, 510, 921, 1086, 1162, 1228
BtsI GCAGTG 1 cut(s) 426
BtsIMutI CAGTG 3 cut(s) 72, 426, 566
Cac8I GCNNGC 2 cut(s) 987, 1075
CfoI GCGC 2 cut(s) 84, 259
Cfr10I RCCGGY 1 cut(s) 593
Cfr13I GGNCC 3 cut(s) 571, 1088, 1276
CseI GACGC 1 cut(s) 485
Csp6I GTAC 5 cut(s) 644, 655, 1084, 1282, 1330
CspAI ACCGGT 1 cut(s) 593
CviAII CATG 5 cut(s) 358, 726, 926, 1074, 1292
CviQI GTAC 5 cut(s) 644, 655, 1084, 1282, 1330
DdeI CTNAG 2 cut(s) 1213, 1227
EaeI YGGCCR 1 cut(s) 216
Eam1104I CTCTTC 3 cut(s) 165, 830, 1304
EarI CTCTTC 3 cut(s) 165, 830, 1304
Eco130I CCWWGG 2 cut(s) 25, 1291
Eco31I GGTCTC 2 cut(s) 389, 1301
Eco32I GATATC 1 cut(s) 95
Eco47I GGWCC 3 cut(s) 571, 1088, 1276
Eco72I CACGTG 1 cut(s) 154
EcoO109I RGGNCCY 1 cut(s) 1276
EcoRI GAATTC 1 cut(s) 908
EcoRII CCWGG 1 cut(s) 970
EcoRV GATATC 1 cut(s) 95
EcoT14I CCWWGG 2 cut(s) 25, 1291
ErhI CCWWGG 2 cut(s) 25, 1291
Esp3I CGTCTC 1 cut(s) 254
FaeI CATG 5 cut(s) 361, 729, 929, 1077, 1295
FaqI GGGAC 4 cut(s) 475, 743, 953, 1262
FatI CATG 5 cut(s) 357, 725, 925, 1073, 1291
FauI CCCGC 1 cut(s) 1277
FbaI TGATCA 4 cut(s) 337, 585, 918, 994
Fnu4HI GCNGC 3 cut(s) 49, 168, 1265
FokI GGATG 7 cut(s) 283, 354, 497, 928, 1093, 1169, 1235
Fsp4HI GCNGC 3 cut(s) 49, 168, 1265
FspBI CTAG 4 cut(s) 120, 633, 1037, 1125
GlaI GCGC 2 cut(s) 83, 258
GluI GCNGC 3 cut(s) 49, 168, 1265
GsaI CCCAGC 1 cut(s) 111
GsuI CTGGAG 2 cut(s) 588, 993
HaeIII GGCC 3 cut(s) 30, 132, 218
HapII CCGG 5 cut(s) 90, 473, 594, 695, 1133
HgaI GACGC 1 cut(s) 485
HhaI GCGC 2 cut(s) 84, 259
Hin1II CATG 5 cut(s) 361, 729, 929, 1077, 1295
Hin6I GCGC 2 cut(s) 82, 257
HinP1I GCGC 2 cut(s) 82, 257
HincII GTYRAC 3 cut(s) 294, 553, 664
HindII GTYRAC 3 cut(s) 294, 553, 664
HinfI GANTC 5 cut(s) 174, 266, 668, 1138, 1202
HpaII CCGG 5 cut(s) 90, 473, 594, 695, 1133
HphI GGTGA 5 cut(s) 427, 520, 1036, 1070, 1118
Hpy166II GTNNAC 4 cut(s) 294, 553, 664, 1183
Hpy188I TCNGA 8 cut(s) 271, 315, 342, 352, 372, 641, 673, 1051
Hpy188III TCNNGA 9 cut(s) 16, 58, 740, 752, 811, 841, 913, 1037, 1303
Hpy8I GTNNAC 4 cut(s) 294, 553, 664, 1183
Hpy99I CGWCG 2 cut(s) 501, 737
HpyAV CCTTC 2 cut(s) 1144, 1300
HpyCH4III ACNGT 4 cut(s) 76, 248, 654, 1069
HpyCH4IV ACGT 5 cut(s) 54, 153, 477, 933, 1167
HpyCH4V TGCA 7 cut(s) 151, 455, 524, 779, 1016, 1077, 1183
HpyF10VI GCNNNNNNNGC 2 cut(s) 129, 164
HpyF3I CTNAG 2 cut(s) 1213, 1227
HpySE526I ACGT 5 cut(s) 54, 153, 477, 933, 1167
Hsp92II CATG 5 cut(s) 361, 729, 929, 1077, 1295
HspAI GCGC 2 cut(s) 82, 257
KflI GGGWCCC 1 cut(s) 1276
Ksp22I TGATCA 4 cut(s) 337, 585, 918, 994
LguI GCTCTTC 1 cut(s) 165
LmnI GCTCC 1 cut(s) 79
Lsp1109I GCAGC 2 cut(s) 154, 1251
LweI GCATC 2 cut(s) 138, 1213
MaeI CTAG 4 cut(s) 120, 633, 1037, 1125
MaeII ACGT 5 cut(s) 54, 153, 477, 933, 1167
MaeIII GTNAC 3 cut(s) 410, 628, 874
MbiI CCGCTC 1 cut(s) 831
MboII GAAGA 8 cut(s) 152, 385, 755, 817, 952, 955, 1204, 1291
MflI RGATCY 5 cut(s) 18, 599, 820, 962, 1033
MhlI GDGCHC 3 cut(s) 483, 1067, 1185
MlsI TGGCCA 1 cut(s) 218
MluCI AATT 4 cut(s) 231, 560, 908, 1093
MluNI TGGCCA 1 cut(s) 218
MlyI GAGTC 2 cut(s) 275, 677
MmeI TCCRAC 2 cut(s) 324, 1011
Mox20I TGGCCA 1 cut(s) 218
MscI TGGCCA 1 cut(s) 218
MseI TTAA 6 cut(s) 126, 230, 563, 687, 720, 861
MslI CAYNNNNRTG 1 cut(s) 581
Msp20I TGGCCA 1 cut(s) 218
MspCI CTTAAG 1 cut(s) 860
MspI CCGG 5 cut(s) 90, 473, 594, 695, 1133
MspR9I CCNGG 3 cut(s) 473, 696, 972
MvaI CCWGG 1 cut(s) 972
MvnI CGCG 3 cut(s) 84, 257, 1148
MwoI GCNNNNNNNGC 2 cut(s) 129, 164
NciI CCSGG 2 cut(s) 473, 696
NcoI CCATGG 1 cut(s) 1291
NlaIII CATG 5 cut(s) 361, 729, 929, 1077, 1295
NlaIV GGNNCC 3 cut(s) 573, 1277, 1278
NmeAIII GCCGAG 1 cut(s) 56
NmuCI GTSAC 1 cut(s) 628
NspI RCATGY 1 cut(s) 1077
PaeI GCATGC 1 cut(s) 1077
PciSI GCTCTTC 1 cut(s) 165
PcsI WCGNNNNNNNCGW 3 cut(s) 261, 663, 729
PfeI GAWTC 3 cut(s) 174, 1138, 1202
Pfl23II CGTACG 1 cut(s) 1281
PfoI TCCNGGA 1 cut(s) 694
PinAI ACCGGT 1 cut(s) 593
PkrI GCNGC 3 cut(s) 50, 169, 1266
Ple19I CGATCG 1 cut(s) 768
PleI GAGTC 2 cut(s) 274, 676
PmaCI CACGTG 1 cut(s) 154
PmlI CACGTG 1 cut(s) 154
PpsI GAGTC 2 cut(s) 274, 676
Ppu21I YACGTR 3 cut(s) 154, 934, 1168
PpuMI RGGWCCY 1 cut(s) 1276
Psp5II RGGWCCY 1 cut(s) 1276
Psp6I CCWGG 1 cut(s) 970
PspCI CACGTG 1 cut(s) 154
PspFI CCCAGC 1 cut(s) 107
PspGI CCWGG 1 cut(s) 970
PspLI CGTACG 1 cut(s) 1281
PspN4I GGNNCC 3 cut(s) 573, 1277, 1278
PspPI GGNCC 3 cut(s) 571, 1088, 1276
PspPPI RGGWCCY 1 cut(s) 1276
PsuI RGATCY 5 cut(s) 18, 599, 820, 962, 1033
PvuI CGATCG 1 cut(s) 768
RsaI GTAC 5 cut(s) 645, 656, 1085, 1283, 1331
RsaNI GTAC 5 cut(s) 644, 655, 1084, 1282, 1330
RseI CAYNNNNRTG 1 cut(s) 581
SapI GCTCTTC 1 cut(s) 165
SaqAI TTAA 6 cut(s) 126, 230, 563, 687, 720, 861
SatI GCNGC 3 cut(s) 49, 168, 1265
Sau96I GGNCC 3 cut(s) 571, 1088, 1276
ScaI AGTACT 1 cut(s) 645
SchI GAGTC 2 cut(s) 275, 677
ScrFI CCNGG 3 cut(s) 473, 696, 972
SduI GDGCHC 3 cut(s) 483, 1067, 1185
SfaNI GCATC 2 cut(s) 138, 1213
SinI GGWCC 3 cut(s) 571, 1088, 1276
SmiMI CAYNNNNRTG 1 cut(s) 581
SmlI CTYRAG 2 cut(s) 860, 1259
SmoI CTYRAG 2 cut(s) 860, 1259
SphI GCATGC 1 cut(s) 1077
Sse9I AATT 4 cut(s) 231, 560, 908, 1093
SsiI CCGC 6 cut(s) 49, 289, 829, 1104, 1253, 1270
SspMI CTAG 4 cut(s) 120, 633, 1037, 1125
StyD4I CCNGG 3 cut(s) 471, 694, 970
StyI CCWWGG 2 cut(s) 25, 1291
TaaI ACNGT 4 cut(s) 76, 248, 654, 1069
TaiI ACGT 5 cut(s) 57, 156, 480, 936, 1170
TaqI TCGA 5 cut(s) 172, 615, 753, 810, 840
TasI AATT 4 cut(s) 231, 560, 908, 1093
TatI WGTACW 2 cut(s) 643, 1329
TauI GCSGC 1 cut(s) 51
TfiI GAWTC 3 cut(s) 174, 1138, 1202
Tru1I TTAA 6 cut(s) 126, 230, 563, 687, 720, 861
Tru9I TTAA 6 cut(s) 126, 230, 563, 687, 720, 861
TscAI CASTG 3 cut(s) 79, 426, 573
TseFI GTSAC 1 cut(s) 628
TseI GCWGC 2 cut(s) 167, 1264
Tsp45I GTSAC 1 cut(s) 628
TspGWI ACGGA 5 cut(s) 318, 398, 609, 883, 1101
TspRI CASTG 3 cut(s) 79, 426, 573
Vha464I CTTAAG 1 cut(s) 860
VneI GTGCAC 1 cut(s) 1181
VpaK11BI GGWCC 3 cut(s) 571, 1088, 1276
XapI RAATTY 1 cut(s) 908
XbaI TCTAGA 1 cut(s) 1036
XceI RCATGY 1 cut(s) 1077
XcmI CCANNNNNNNNNTGG 1 cut(s) 151
XspI CTAG 4 cut(s) 120, 633, 1037, 1125
ZrmI AGTACT 1 cut(s) 645
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.