AT1G30100

9-cis-epoxycarotenoid dioxygenase NCED5, chloroplastic

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
Physical Location & Seq
Forward (+)
10571310 .. 10573365
2056 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G30100.1

Sequence Viewer

Length: 1770 bp
ATGGCTTGTTCTTACATATTAACACCAAACCCAACCAAACTCAATCTCTCCTTTGCACCCTCCGATCTCGACGCTCCTTCGCCGTCATCCTCCGTTAGTTTCACCAACACTAAACCAAGACGCCGTAAACTCTCTGCAAACTCCGTCTCCGACACACCAAATCTACTGAATTTCCCAAACTACCCTTCTCCAAACCCCATAATTCCCGAAAAAGACACTTCCCGTTGGAACCCTCTCCAACGCGCCGCCTCCGCCGCACTCGACTTCGCCGAAACCGCATTGTTAAGACGCGAACGTTCTAAACCTCTCCCTAAAACAGTTGATCCTCGCCATCAGATCTCCGGTAACTACGCTCCGGTACCGGAGCAATCCGTTAAATCATCTCTCTCCGTTGATGGAAAAATCCCTGACTGCATTGACGGTGTTTACCTCCGTAACGGCGCTAATCCACTCTTCGAGCCAGTTTCTGGTCATCACCTATTCGACGGTGACGGTATGGTTCACGCCGTTAAAATCACTAACGGAGACGCGAGTTACTCGTGCCGGTTTACGGAAACCGAGAGATTGGTTCAAGAGAAACAACTCGGTTCTCCGATTTTCCCTAAAGCTATAGGTGAGCTACATGGTCACTCTGGAATCGCACGGTTGATGCTATTTTACGCACGTGGTTTATTCGGTTTATTAAATCACAAAAACGGAACCGGAGTTGCTAACGCCGGTTTGGTTTACTTCCACGACCGGTTATTAGCTATGTCTGAAGATGATCTACCTTACCAAGTTCGTGTCACTGACAATGGCGATTTAGAGACCATCGGAAGATTCGATTTCGACGGACAACTAAGCTCCGCCATGATCGCTCACCCGAAGATTGATCCGGTAACGAAGGAGCTATTTGCGTTGAGCTACGACGTCGTTAAGAAACCGTATTTGAAATACTTTAAATTCTCGCCGGAAGGTGAGAAATCACCGGACGTTGAGATTCCTCTCGCCAGTCCGACGATGATGCACGATTTCGCGATCACTGAGAATTTCGTTGTGATTCCGGATCAACAAGTTGTGTTTAAGCTCTCCGATATGTTTCTTGGGAAATCTCCGGTTAAATACGACGGAGAGAAAATTTCCCGGTTTGGAATTTTGCCTAGAAACGCTAAAGATGCGTCGGAGATGGTTTGGGTTGAGTCACCGGAGACTTTTTGTTTCCATCTTTGGAACGCTTGGGAGTCACCGGAGACAGACGAGGTTGTAGTGATCGGATCTTGCATGACTCCGGCGGATTCGATCTTCAACGAGTGCGATGAGCAGCTCAACAGTGTTTTATCAGAGATCCGGTTAAATCTCAAAACCGGGAAATCCACACGCAGAACTATAATTCCCGGTTCGGTTCAGATGAATCTTGAAGCTGGTATGGTAAACCGAAATCTTCTCGGGAGGAAAACCCGGTACGCATACCTAGCCATAGCTGAACCGTGGCCTAAAGTCTCAGGATTCGCTAAAGTTGATCTTTCTACCGGAGAAGTGAAAAATCACTTTTACGGCGGTAAAAAATACGGTGGTGAACCTTTTTTCTTACCTAGAGGGTTAGAATCTGACGGAGAAGATGACGGTTACATTATGTCGTTTGTTCACGACGAGGAGAGTTGGGAATCGGAGCTTCATATTGTTAACGCCGTTACGTTGGAACTAGAAGCAACCGTTAAATTGCCGTCAAGAGTACCGTATGGTTTCCACGGCACTTTCGTGAATTCGGCGGATATGTTAAACCAGGCTTAA

Protein Analysis

589

Amino Acids

65.34

Weight (kDa)

5.6

Isoelectric Point (pI)

44.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RPE65 PF03055 118 - 581 1.4e-130 Retinal pigment epithelial membrane protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Orthologous Genes (Group: OG0013872)

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 912
Acc65I GGTACC 1 cut(s) 358
AccB1I GGYRCC 1 cut(s) 358
AccB7I CCANNNNNTGG 1 cut(s) 467
AccII CGCG 4 cut(s) 243, 291, 530, 1016
AccIII TCCGGA 1 cut(s) 1042
AciI CCGC 8 cut(s) 246, 252, 255, 276, 846, 1271, 1536, 1748
AclI AACGTT 1 cut(s) 295
AclWI GGATC 5 cut(s) 317, 866, 1053, 1261, 1318
AcsI RAATTY 6 cut(s) 169, 941, 1027, 1116, 1131, 1741
AcuI CTGAAG 1 cut(s) 777
AcvI CACGTG 1 cut(s) 665
AcyI GRCGYC 2 cut(s) 121, 909
AfaI GTAC 3 cut(s) 360, 1442, 1713
AfiI CCNNNNNNNGG 2 cut(s) 467, 550
AgeI ACCGGT 1 cut(s) 738
AgsI TTSAA 4 cut(s) 572, 931, 1285, 1397
AjnI CCWGG 1 cut(s) 1761
AjuI GAANNNNNNNTTGG 2 cut(s) 169, 201
AleI CACNNNNGTG 1 cut(s) 1736
AloI GAACNNNNNNTCC 2 cut(s) 1354, 1386
Alw26I GTCTC 6 cut(s) 151, 519, 800, 1181, 1223, 1483
AlwI GGATC 5 cut(s) 317, 866, 1053, 1261, 1318
AlwNI CAGNNNCTG 1 cut(s) 467
Ama87I CYCGRG 1 cut(s) 1424
Aor13HI TCCGGA 1 cut(s) 1042
AoxI GGCC 1 cut(s) 1469
ApeKI GCWGC 1 cut(s) 1300
ApoI RAATTY 6 cut(s) 169, 941, 1027, 1116, 1131, 1741
AsiGI ACCGGT 1 cut(s) 738
Asp718I GGTACC 1 cut(s) 358
AspLEI GCGC 2 cut(s) 245, 443
AsuC2I CCSGG 4 cut(s) 1123, 1345, 1374, 1438
AvaI CYCGRG 1 cut(s) 1424
BanI GGYRCC 1 cut(s) 358
BarI GAAGNNNNNNTAC 2 cut(s) 750, 782
BauI CACGAG 1 cut(s) 538
BbrPI CACGTG 1 cut(s) 665
BbvI GCAGC 1 cut(s) 1312
BccI CCATC 5 cut(s) 339, 389, 818, 1159, 1209
BceAI ACGGC 8 cut(s) 67, 108, 454, 491, 1549, 1652, 1687, 1744
BcgI CGANNNNNNTGC 2 cut(s) 985, 1019
BciT130I CCWGG 1 cut(s) 1763
BcnI CCSGG 4 cut(s) 1123, 1345, 1374, 1438
BcoDI GTCTC 6 cut(s) 151, 519, 800, 1181, 1223, 1483
BfaI CTAG 4 cut(s) 1140, 1451, 1572, 1682
BfmI CTRYAG 1 cut(s) 609
BfoI RGCGCY 1 cut(s) 444
BglII AGATCT 1 cut(s) 336
BisI GCNGC 3 cut(s) 246, 255, 1301
BlsI GCNGC 3 cut(s) 247, 256, 1302
Bme1390I CCNGG 5 cut(s) 1123, 1345, 1374, 1438, 1763
BmeT110I CYCGRG 1 cut(s) 1424
BmiI GGNNCC 3 cut(s) 230, 360, 700
BmrFI CCNGG 5 cut(s) 1123, 1345, 1374, 1438, 1763
BmsI GCATC 3 cut(s) 639, 993, 1144
BpuMI CCSGG 4 cut(s) 1123, 1345, 1374, 1438
BsaAI YACGTR 1 cut(s) 665
BsaHI GRCGYC 2 cut(s) 121, 909
BsaI GGTCTC 1 cut(s) 800
BsaJI CCNNGG 2 cut(s) 1466, 1726
BsaXI ACNNNNNCTCC 2 cut(s) 131, 161
Bsc4I CCNNNNNNNGG 2 cut(s) 467, 550
Bse118I RCCGGY 3 cut(s) 543, 716, 738
Bse1I ACTGG 2 cut(s) 461, 990
BseAI TCCGGA 1 cut(s) 1042
BseBI CCWGG 1 cut(s) 1763
BseDI CCNNGG 2 cut(s) 1466, 1726
BseGI GGATG 1 cut(s) 86
BseLI CCNNNNNNNGG 2 cut(s) 467, 550
BseMII CTCAG 2 cut(s) 1014, 1494
BseNI ACTGG 2 cut(s) 461, 990
BseRI GAGGAG 1 cut(s) 1646
BseXI GCAGC 1 cut(s) 1312
Bsh1236I CGCG 4 cut(s) 243, 291, 530, 1016
Bsh1285I CGRYCG 1 cut(s) 739
BshFI GGCC 1 cut(s) 1471
BshNI GGYRCC 1 cut(s) 358
BshTI ACCGGT 1 cut(s) 738
BsiEI CGRYCG 1 cut(s) 739
BsiHKCI CYCGRG 1 cut(s) 1424
BslI CCNNNNNNNGG 2 cut(s) 467, 550
BsmAI GTCTC 6 cut(s) 151, 519, 800, 1181, 1223, 1483
BsmBI CGTCTC 2 cut(s) 151, 519
BsnI GGCC 1 cut(s) 1471
Bso31I GGTCTC 1 cut(s) 800
BsoBI CYCGRG 1 cut(s) 1424
Bsp13I TCCGGA 1 cut(s) 1042
Bsp68I TCGCGA 1 cut(s) 1016
BspACI CCGC 8 cut(s) 246, 252, 255, 276, 846, 1271, 1536, 1748
BspANI GGCC 1 cut(s) 1471
BspCNI CTCAG 2 cut(s) 1015, 1493
BspEI TCCGGA 1 cut(s) 1042
BspFNI CGCG 4 cut(s) 243, 291, 530, 1016
BspLI GGNNCC 3 cut(s) 230, 360, 700
BspPI GGATC 5 cut(s) 317, 866, 1053, 1261, 1318
BspT107I GGYRCC 1 cut(s) 358
BspTNI GGTCTC 1 cut(s) 800
BsrFI RCCGGY 3 cut(s) 543, 716, 738
BsrI ACTGG 2 cut(s) 461, 990
BssAI RCCGGY 3 cut(s) 543, 716, 738
BssECI CCNNGG 2 cut(s) 1466, 1726
BssNI GRCGYC 2 cut(s) 121, 909
BssSI CACGAG 1 cut(s) 538
Bst2BI CACGAG 1 cut(s) 538
Bst2UI CCWGG 1 cut(s) 1763
Bst6I CTCTTC 1 cut(s) 458
BstACI GRCGYC 2 cut(s) 121, 909
BstBAI YACGTR 1 cut(s) 665
BstDEI CTNAG 3 cut(s) 839, 1023, 1480
BstDSI CCRYGG 2 cut(s) 1466, 1726
BstF5I GGATG 1 cut(s) 86
BstFNI CGCG 4 cut(s) 243, 291, 530, 1016
BstH2I RGCGCY 1 cut(s) 444
BstHHI GCGC 2 cut(s) 245, 443
BstMAI GTCTC 6 cut(s) 151, 519, 800, 1181, 1223, 1483
BstMCI CGRYCG 1 cut(s) 739
BstMWI GCNNNNNNNGC 6 cut(s) 251, 254, 275, 854, 1154, 1451
BstNI CCWGG 1 cut(s) 1763
BstSCI CCNGG 5 cut(s) 1121, 1343, 1372, 1436, 1761
BstSFI CTRYAG 1 cut(s) 609
BstUI CGCG 4 cut(s) 243, 291, 530, 1016
BstV1I GCAGC 1 cut(s) 1312
BstX2I RGATCY 3 cut(s) 336, 1253, 1323
BstYI RGATCY 3 cut(s) 336, 1253, 1323
BsuRI GGCC 1 cut(s) 1471
BtgI CCRYGG 2 cut(s) 1466, 1726
BtgZI GCGATG 1 cut(s) 1308
BtsCI GGATG 1 cut(s) 86
BtsIMutI CAGTG 3 cut(s) 786, 1020, 1315
BtuMI TCGCGA 1 cut(s) 1016
CaiI CAGNNNCTG 1 cut(s) 467
CfoI GCGC 2 cut(s) 245, 443
Cfr10I RCCGGY 3 cut(s) 543, 716, 738
CseI GACGC 5 cut(s) 80, 129, 297, 536, 1146
Csp6I GTAC 3 cut(s) 359, 1441, 1712
CspAI ACCGGT 1 cut(s) 738
CviAII CATG 3 cut(s) 623, 850, 1261
CviQI GTAC 3 cut(s) 359, 1441, 1712
DdeI CTNAG 3 cut(s) 839, 1023, 1480
DraI TTTAAA 1 cut(s) 940
Eam1104I CTCTTC 1 cut(s) 458
EarI CTCTTC 1 cut(s) 458
EciI GGCGGA 4 cut(s) 241, 835, 1286, 1763
Eco31I GGTCTC 1 cut(s) 800
Eco57I CTGAAG 1 cut(s) 777
Eco72I CACGTG 1 cut(s) 665
Eco88I CYCGRG 1 cut(s) 1424
EcoRI GAATTC 1 cut(s) 1741
EcoRII CCWGG 1 cut(s) 1761
Esp3I CGTCTC 2 cut(s) 151, 519
FaeI CATG 3 cut(s) 626, 853, 1264
FalI AAGNNNNNCTT 2 cut(s) 1485, 1517
FatI CATG 3 cut(s) 622, 849, 1260
Fnu4HI GCNGC 3 cut(s) 246, 255, 1301
FokI GGATG 1 cut(s) 73
Fsp4HI GCNGC 3 cut(s) 246, 255, 1301
FspBI CTAG 4 cut(s) 1140, 1451, 1572, 1682
GlaI GCGC 2 cut(s) 244, 442
GluI GCNGC 3 cut(s) 246, 255, 1301
HaeII RGCGCY 1 cut(s) 444
HaeIII GGCC 1 cut(s) 1471
HgaI GACGC 5 cut(s) 80, 129, 297, 536, 1146
HhaI GCGC 2 cut(s) 245, 443
Hin1I GRCGYC 2 cut(s) 121, 909
Hin1II CATG 3 cut(s) 626, 853, 1264
Hin6I GCGC 2 cut(s) 243, 441
HinP1I GCGC 2 cut(s) 243, 441
HincII GTYRAC 1 cut(s) 1663
HindII GTYRAC 1 cut(s) 1663
HpaI GTTAAC 1 cut(s) 1663
Hpy166II GTNNAC 9 cut(s) 128, 427, 502, 549, 727, 1411, 1556, 1624, 1663
Hpy8I GTNNAC 9 cut(s) 128, 427, 502, 549, 727, 1411, 1556, 1624, 1663
Hpy99I CGWCG 9 cut(s) 74, 488, 833, 911, 914, 1000, 1109, 1162, 1631
HpyAV CCTTC 4 cut(s) 87, 195, 877, 947
HpyCH4IV ACGT 5 cut(s) 295, 664, 909, 972, 1673
HpyCH4V TGCA 5 cut(s) 56, 137, 414, 1006, 1260
HpyF10VI GCNNNNNNNGC 6 cut(s) 251, 254, 275, 854, 1154, 1451
HpyF3I CTNAG 3 cut(s) 839, 1023, 1480
HpySE526I ACGT 5 cut(s) 295, 664, 909, 972, 1673
Hsp92I GRCGYC 2 cut(s) 121, 909
Hsp92II CATG 3 cut(s) 626, 853, 1264
HspAI GCGC 2 cut(s) 243, 441
Kpn2I TCCGGA 1 cut(s) 1042
KpnI GGTACC 1 cut(s) 362
KspAI GTTAAC 1 cut(s) 1663
LmnI GCTCC 6 cut(s) 79, 358, 364, 848, 886, 1648
Lsp1109I GCAGC 1 cut(s) 1312
LweI GCATC 3 cut(s) 639, 993, 1144
MaeI CTAG 4 cut(s) 1140, 1451, 1572, 1682
MaeII ACGT 5 cut(s) 295, 664, 909, 972, 1673
MboII GAAGA 7 cut(s) 445, 770, 828, 877, 1273, 1412, 1607
MflI RGATCY 3 cut(s) 336, 1253, 1323
MluCI AATT 9 cut(s) 169, 201, 941, 1027, 1116, 1131, 1368, 1697, 1741
MlyI GAGTC 3 cut(s) 1187, 1229, 1258
MmeI TCCRAC 6 cut(s) 174, 206, 262, 1019, 1140, 1656
MroI TCCGGA 1 cut(s) 1042
MslI CAYNNNNRTG 1 cut(s) 1736
MspR9I CCNGG 5 cut(s) 1123, 1345, 1374, 1438, 1763
MvaI CCWGG 1 cut(s) 1763
MvnI CGCG 4 cut(s) 243, 291, 530, 1016
MwoI GCNNNNNNNGC 6 cut(s) 251, 254, 275, 854, 1154, 1451
NciI CCSGG 4 cut(s) 1123, 1345, 1374, 1438
NlaIII CATG 3 cut(s) 626, 853, 1264
NlaIV GGNNCC 3 cut(s) 230, 360, 700
NmuCI GTSAC 5 cut(s) 488, 626, 784, 1179, 1221
NruI TCGCGA 1 cut(s) 1016
OliI CACNNNNGTG 1 cut(s) 1736
PcsI WCGNNNNNNNCGW 3 cut(s) 267, 819, 1734
PfeI GAWTC 9 cut(s) 636, 819, 979, 1039, 1274, 1390, 1485, 1583, 1643
PflMI CCANNNNNTGG 1 cut(s) 467
PinAI ACCGGT 1 cut(s) 738
PkrI GCNGC 3 cut(s) 247, 256, 1302
PleI GAGTC 3 cut(s) 1186, 1228, 1258
PmaCI CACGTG 1 cut(s) 665
PmlI CACGTG 1 cut(s) 665
PpsI GAGTC 3 cut(s) 1186, 1228, 1258
Ppu21I YACGTR 1 cut(s) 665
Psp1406I AACGTT 1 cut(s) 295
Psp6I CCWGG 1 cut(s) 1761
PspCI CACGTG 1 cut(s) 665
PspGI CCWGG 1 cut(s) 1761
PspN4I GGNNCC 3 cut(s) 230, 360, 700
PstNI CAGNNNCTG 1 cut(s) 467
PsuI RGATCY 3 cut(s) 336, 1253, 1323
RruI TCGCGA 1 cut(s) 1016
RsaI GTAC 3 cut(s) 360, 1442, 1713
RsaNI GTAC 3 cut(s) 359, 1441, 1712
RseI CAYNNNNRTG 1 cut(s) 1736
SatI GCNGC 3 cut(s) 246, 255, 1301
SchI GAGTC 3 cut(s) 1187, 1229, 1258
ScrFI CCNGG 5 cut(s) 1123, 1345, 1374, 1438, 1763
SfaNI GCATC 3 cut(s) 639, 993, 1144
SfcI CTRYAG 1 cut(s) 609
SmiMI CAYNNNNRTG 1 cut(s) 1736
Sse9I AATT 9 cut(s) 169, 201, 941, 1027, 1116, 1131, 1368, 1697, 1741
SsiI CCGC 8 cut(s) 246, 252, 255, 276, 846, 1271, 1536, 1748
SspMI CTAG 4 cut(s) 1140, 1451, 1572, 1682
StyD4I CCNGG 5 cut(s) 1121, 1343, 1372, 1436, 1761
TaiI ACGT 5 cut(s) 298, 667, 912, 975, 1676
TaqI TCGA 7 cut(s) 69, 261, 456, 483, 822, 828, 1277
TasI AATT 9 cut(s) 169, 201, 941, 1027, 1116, 1131, 1368, 1697, 1741
TauI GCSGC 2 cut(s) 248, 257
TfiI GAWTC 9 cut(s) 636, 819, 979, 1039, 1274, 1390, 1485, 1583, 1643
TscAI CASTG 3 cut(s) 793, 1027, 1315
TseFI GTSAC 5 cut(s) 488, 626, 784, 1179, 1221
TseI GCWGC 1 cut(s) 1300
Tsp45I GTSAC 5 cut(s) 488, 626, 784, 1179, 1221
TspDTI ATGAA 2 cut(s) 1403, 1643
TspRI CASTG 3 cut(s) 793, 1027, 1315
Van91I CCANNNNNTGG 1 cut(s) 467
XapI RAATTY 6 cut(s) 169, 941, 1027, 1116, 1131, 1741
XspI CTAG 4 cut(s) 1140, 1451, 1572, 1682
ZraI GACGTC 1 cut(s) 910
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.