Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr11

Orthogroup ID

OG0015577

Physical Location & Seq

Genomic Coordinates Forward (+)

17970776 .. 17971715

Gene Structure 940 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD11G1168000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 879 bp

ATGGCCACCCTTCTCTGGCCATTTCCACCGCCGCCGGCAGCGGCCAAAACTTCCCAATTCCTCCACTCATCCACCCCTCCACTCCCTTTTCCAAAAACCCATCACCCATCTTCAAGAAAATCTCTCTCCGAATTCCACAGCAGCAGGTTCGGCAATTTTCTCGACTTAAAACCAGAGGCAAAACCCGAGTCTTTGCACTTCGATCTCCACCAATTCGACCCGTCAACGCGGTCTCGCTTAGATGTGATCATTATCGGGACCGGCCCGGCCGGGCTTCGCCTTGCGGAGCAAGTTTCTCGCTACGACATTAAGGTATGCAGCGTTGATCCTTCTCCTCTTTCTATGTGGCCAAATAACTACGGAGTTTGGGTTGATGAATTTGAAAGCTTGAATCTTGAAAGTTGCTTCGACAAAACGTGGCCTATGGCTTCTGTTCATGTGAACGATAGCCAGACTAAGTATTTGGACCGCCCTTATGGTAGAGTTAGTAGGAAGAAACTCAAGACTCTGTTGTTGGAGAGGTGTCTCTCCAATGGGGTTCAATTTCATAAGGCTAAGGTTTGGAAAATCGAACACGAAGAGTTCGAGTCCTCTATTCTGTGCGATGATGAGAATGAGTTCAAGGCAAGCTTGATTATTGCTCATGGTATTTTGGCTGAAGTGGAAGAACACCCGTTTGATTTGGACAAGATGCTTCTAATGGATTGGAGAGATTCTCATCTCGATAATGAGCCTTATTTGCGCACTAGTAATTCTAGATTCCCAACGTTTTTATATGCAATGCCATTTGATTCGAACTTGGTGTTTCTGGAAGAAACTTCGCTTGTTAGTAGGCCGGTGTTGTCTTATATGGAGATTAAGAAACGAATGGAAATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006066 GO:0006082 GO:0006629 GO:0006714 GO:0006720 GO:0006721 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009507 GO:0009536 GO:0009687 GO:0009688 GO:0009987 GO:0016053 GO:0016106 GO:0016108 GO:0016109 GO:0016114 GO:0016116 GO:0016117 GO:0016122 GO:0016123 GO:0016853 GO:0016860 GO:0019752 GO:0032787 GO:0034020 GO:0042440 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043288 GO:0043289 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046148 GO:0046165 GO:0046394 GO:0071704 GO:0072330 GO:1901576 GO:1901615 GO:1901617 GO:1902644 GO:1902645

KEGG Pathways

Metabolic & Signaling

ko00906 ko01100 ko01110 map00906 map01100 map01110

Pfam Domains

Protein Families

Lycopene_cycl Trp_halogenase

Protein Analysis

293

Amino Acids

33.67

Weight (kDa)

5.95

Isoelectric Point (pI)

53.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lycopene_cycl	PF05834	81 - 291	3e-66	Lycopene cyclase protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0015577)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g25490
malus_domestica	MD03G1148700.v1.1 MD11G1168000.v1.1
prunus_persica	Prupe.6G135000_v2.0.a1
pyrus_communis	pycom03g10310 pycom11g14030
rosa_chinensis	RchiOBHm_Chr5g0046551
rosa_laevigata	RLG00000034417
rosa_multiflora	Rmu_sc0003878.1_g000038
rosa_roxburghii	Rroxscaffold_1G00034850
rosa_rugosa	Rorug05G0229500
rosa_samantha	Rh5AG309800 Rh5BG318200 Rh5CG343900 Rh5DG328500
rosa_wichuraiana	Rw5G028900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	743
Acc36I	ACCTGC	1 cut(s)	135
AccII	CGCG	1 cut(s)	229
AciI	CCGC	6 cut(s)	29, 32, 41, 229, 284, 469
AclI	AACGTT	1 cut(s)	767
AclWI	GGATC	1 cut(s)	320
AcoI	YGGCCR	5 cut(s)	3, 17, 42, 267, 347
AcsI	RAATTY	3 cut(s)	131, 377, 873
AcuI	CTGAAG	1 cut(s)	678
AfiI	CCNNNNNNNGG	1 cut(s)	15
AgsI	TTSAA	6 cut(s)	114, 383, 391, 398, 542, 622
AhlI	ACTAGT	1 cut(s)	746
AluBI	AGCT	2 cut(s)	387, 630
AluI	AGCT	2 cut(s)	387, 630
Alw26I	GTCTC	2 cut(s)	237, 530
AlwI	GGATC	1 cut(s)	320
Ama87I	CYCGRG	1 cut(s)	185
AoxI	GGCC	8 cut(s)	3, 17, 42, 262, 267, 347, 419, 833
ApeKI	GCWGC	3 cut(s)	38, 141, 318
ApoI	RAATTY	3 cut(s)	131, 377, 873
ArsI	GACNNNNNNTTYG	4 cut(s)	173, 205, 445, 477
Asp700I	GAANNNNTTC	1 cut(s)	617
AspLEI	GCGC	1 cut(s)	744
AspS9I	GGNCC	3 cut(s)	258, 263, 466
AsuC2I	CCSGG	2 cut(s)	266, 271
AsuHPI	GGTGA	1 cut(s)	95
AsuII	TTCGAA	1 cut(s)	794
AvaI	CYCGRG	1 cut(s)	185
AvaII	GGWCC	2 cut(s)	258, 466
BalI	TGGCCA	3 cut(s)	5, 19, 349
BbvI	GCAGC	3 cut(s)	50, 153, 330
BccI	CCATC	2 cut(s)	108, 115
BcgI	CGANNNNNNTGC	6 cut(s)	130, 142, 164, 176, 278, 312
BclI	TGATCA	1 cut(s)	246
BcnI	CCSGG	2 cut(s)	266, 271
BcoDI	GTCTC	2 cut(s)	237, 530
BcuI	ACTAGT	1 cut(s)	746
BfaI	CTAG	2 cut(s)	747, 756
BfuAI	ACCTGC	1 cut(s)	135
BisI	GCNGC	5 cut(s)	32, 39, 42, 142, 319
BlsI	GCNGC	5 cut(s)	33, 40, 43, 143, 320
Bme1390I	CCNGG	2 cut(s)	266, 271
Bme18I	GGWCC	2 cut(s)	258, 466
BmeT110I	CYCGRG	1 cut(s)	185
BmgT120I	GGNCC	3 cut(s)	258, 263, 466
BmiI	GGNNCC	1 cut(s)	259
BmrFI	CCNGG	2 cut(s)	266, 271
BmsI	GCATC	1 cut(s)	681
BplI	GAGNNNNNCTC	2 cut(s)	700, 732
Bpu10I	CCTNAGC	1 cut(s)	555
Bpu14I	TTCGAA	1 cut(s)	794
BpuEI	CTTGAG	1 cut(s)	485
BpuMI	CCSGG	2 cut(s)	266, 271
BsaBI	GATNNNNATC	2 cut(s)	251, 717
BsaI	GGTCTC	1 cut(s)	237
BsaXI	ACNNNNNCTCC	2 cut(s)	354, 384
Bsc4I	CCNNNNNNNGG	1 cut(s)	15
Bse118I	RCCGGY	3 cut(s)	34, 260, 835
Bse3DI	GCAATG	1 cut(s)	786
Bse8I	GATNNNNATC	2 cut(s)	251, 717
BseGI	GGATG	1 cut(s)	68
BseJI	GATNNNNATC	2 cut(s)	251, 717
BseLI	CCNNNNNNNGG	1 cut(s)	15
BseMI	GCAATG	1 cut(s)	786
BseRI	GAGGAG	1 cut(s)	324
BseX3I	CGGCCG	1 cut(s)	267
BseXI	GCAGC	3 cut(s)	50, 153, 330
Bsh1236I	CGCG	1 cut(s)	229
Bsh1285I	CGRYCG	1 cut(s)	270
BshFI	GGCC	8 cut(s)	5, 19, 44, 264, 269, 349, 421, 835
BsiEI	CGRYCG	1 cut(s)	270
BsiHKCI	CYCGRG	1 cut(s)	185
BsiSI	CCGG	5 cut(s)	35, 261, 266, 270, 836
BslFI	GGGAC	1 cut(s)	271
BslI	CCNNNNNNNGG	1 cut(s)	15
BsmAI	GTCTC	2 cut(s)	237, 530
BsmFI	GGGAC	1 cut(s)	271
BsnI	GGCC	8 cut(s)	5, 19, 44, 264, 269, 349, 421, 835
Bso31I	GGTCTC	1 cut(s)	237
BsoBI	CYCGRG	1 cut(s)	185
Bsp119I	TTCGAA	1 cut(s)	794
Bsp143I	GATC	3 cut(s)	202, 246, 325
BspACI	CCGC	6 cut(s)	29, 32, 41, 229, 284, 469
BspANI	GGCC	8 cut(s)	5, 19, 44, 264, 269, 349, 421, 835
BspFNI	CGCG	1 cut(s)	229
BspLI	GGNNCC	1 cut(s)	259
BspMI	ACCTGC	1 cut(s)	135
BspPI	GGATC	1 cut(s)	320
BspT104I	TTCGAA	1 cut(s)	794
BspTNI	GGTCTC	1 cut(s)	237
BsrDI	GCAATG	1 cut(s)	786
BsrFI	RCCGGY	3 cut(s)	34, 260, 835
BssAI	RCCGGY	3 cut(s)	34, 260, 835
BssMI	GATC	3 cut(s)	202, 246, 325
Bst6I	CTCTTC	1 cut(s)	573
BstBI	TTCGAA	1 cut(s)	794
BstC8I	GCNNGC	2 cut(s)	36, 628
BstDEI	CTNAG	3 cut(s)	238, 456, 555
BstF5I	GGATG	1 cut(s)	68
BstFNI	CGCG	1 cut(s)	229
BstHHI	GCGC	1 cut(s)	744
BstKTI	GATC	3 cut(s)	205, 249, 328
BstMAI	GTCTC	2 cut(s)	237, 530
BstMBI	GATC	3 cut(s)	202, 246, 325
BstMCI	CGRYCG	1 cut(s)	270
BstMWI	GCNNNNNNNGC	2 cut(s)	150, 739
BstSCI	CCNGG	2 cut(s)	264, 269
BstUI	CGCG	1 cut(s)	229
BstV1I	GCAGC	3 cut(s)	50, 153, 330
BstZI	CGGCCG	1 cut(s)	267
BsuRI	GGCC	8 cut(s)	5, 19, 44, 264, 269, 349, 421, 835
BtgZI	GCGATG	1 cut(s)	618
BtsCI	GGATG	1 cut(s)	68
BveI	ACCTGC	1 cut(s)	135
Cac8I	GCNNGC	2 cut(s)	36, 628
CfoI	GCGC	1 cut(s)	744
Cfr10I	RCCGGY	3 cut(s)	34, 260, 835
Cfr13I	GGNCC	3 cut(s)	258, 263, 466
CviAII	CATG	2 cut(s)	437, 644
DdeI	CTNAG	3 cut(s)	238, 456, 555
DpnI	GATC	3 cut(s)	204, 248, 327
DpnII	GATC	3 cut(s)	202, 246, 325
EaeI	YGGCCR	5 cut(s)	3, 17, 42, 267, 347
EagI	CGGCCG	1 cut(s)	267
Eam1104I	CTCTTC	1 cut(s)	573
EarI	CTCTTC	1 cut(s)	573
EclXI	CGGCCG	1 cut(s)	267
Eco31I	GGTCTC	1 cut(s)	237
Eco47I	GGWCC	2 cut(s)	258, 466
Eco52I	CGGCCG	1 cut(s)	267
Eco57I	CTGAAG	1 cut(s)	678
Eco88I	CYCGRG	1 cut(s)	185
EcoRI	GAATTC	1 cut(s)	131
FaeI	CATG	2 cut(s)	440, 647
FalI	AAGNNNNNCTT	2 cut(s)	614, 646
FaqI	GGGAC	1 cut(s)	271
FatI	CATG	2 cut(s)	436, 643
FbaI	TGATCA	1 cut(s)	246
Fnu4HI	GCNGC	5 cut(s)	32, 39, 42, 142, 319
FokI	GGATG	1 cut(s)	55
Fsp4HI	GCNGC	5 cut(s)	32, 39, 42, 142, 319
FspBI	CTAG	2 cut(s)	747, 756
FspI	TGCGCA	1 cut(s)	743
GlaI	GCGC	1 cut(s)	743
GluI	GCNGC	5 cut(s)	32, 39, 42, 142, 319
HaeIII	GGCC	8 cut(s)	5, 19, 44, 264, 269, 349, 421, 835
HapII	CCGG	5 cut(s)	35, 261, 266, 270, 836
HhaI	GCGC	1 cut(s)	744
Hin1II	CATG	2 cut(s)	440, 647
Hin6I	GCGC	1 cut(s)	742
HinP1I	GCGC	1 cut(s)	742
HincII	GTYRAC	1 cut(s)	225
HindII	GTYRAC	1 cut(s)	225
HindIII	AAGCTT	2 cut(s)	385, 628
HinfI	GANTC	7 cut(s)	188, 391, 505, 587, 713, 759, 791
HpaII	CCGG	5 cut(s)	35, 261, 266, 270, 836
HphI	GGTGA	1 cut(s)	95
Hpy166II	GTNNAC	2 cut(s)	225, 442
Hpy188I	TCNGA	1 cut(s)	130
Hpy188III	TCNNGA	8 cut(s)	114, 161, 256, 395, 502, 722, 756, 809
Hpy8I	GTNNAC	2 cut(s)	225, 442
HpyAV	CCTTC	2 cut(s)	20, 339
HpyCH4IV	ACGT	2 cut(s)	416, 767
HpyCH4V	TGCA	3 cut(s)	196, 318, 779
HpyF10VI	GCNNNNNNNGC	2 cut(s)	150, 739
HpyF3I	CTNAG	3 cut(s)	238, 456, 555
HpySE526I	ACGT	2 cut(s)	416, 767
Hsp92II	CATG	2 cut(s)	440, 647
HspAI	GCGC	1 cut(s)	742
KroI	GCCGGC	1 cut(s)	34
KroNI	GCCGGC	1 cut(s)	36
Ksp22I	TGATCA	1 cut(s)	246
Kzo9I	GATC	3 cut(s)	202, 246, 325
LmnI	GCTCC	1 cut(s)	286
LpnPI	CCDG	9 cut(s)	48, 130, 186, 274, 279, 283, 464, 794, 849
Lsp1109I	GCAGC	3 cut(s)	50, 153, 330
LweI	GCATC	1 cut(s)	681
MaeI	CTAG	2 cut(s)	747, 756
MaeII	ACGT	2 cut(s)	416, 767
MalI	GATC	3 cut(s)	204, 248, 327
MboI	GATC	3 cut(s)	202, 246, 325
MboII	GAAGA	5 cut(s)	102, 505, 590, 677, 824
MlsI	TGGCCA	3 cut(s)	5, 19, 349
MluCI	AATT	8 cut(s)	56, 131, 154, 212, 377, 542, 751, 873
MluNI	TGGCCA	3 cut(s)	5, 19, 349
MlyI	GAGTC	3 cut(s)	197, 499, 596
MmeI	TCCRAC	1 cut(s)	495
MnlI	CCTC	6 cut(s)	71, 87, 169, 345, 513, 601
Mox20I	TGGCCA	3 cut(s)	5, 19, 349
MroNI	GCCGGC	1 cut(s)	34
MroXI	GAANNNNTTC	1 cut(s)	617
MscI	TGGCCA	3 cut(s)	5, 19, 349
MseI	TTAA	3 cut(s)	167, 309, 858
Msp20I	TGGCCA	3 cut(s)	5, 19, 349
MspA1I	CMGCKG	1 cut(s)	41
MspI	CCGG	5 cut(s)	35, 261, 266, 270, 836
MspR9I	CCNGG	2 cut(s)	266, 271
MvnI	CGCG	1 cut(s)	229
MwoI	GCNNNNNNNGC	2 cut(s)	150, 739
NaeI	GCCGGC	1 cut(s)	36
NciI	CCSGG	2 cut(s)	266, 271
NdeII	GATC	3 cut(s)	202, 246, 325
NgoMIV	GCCGGC	1 cut(s)	34
NlaIII	CATG	2 cut(s)	440, 647
NlaIV	GGNNCC	1 cut(s)	259
NsbI	TGCGCA	1 cut(s)	743
NspV	TTCGAA	1 cut(s)	794
PcsI	WCGNNNNNNNCGW	1 cut(s)	582
PdiI	GCCGGC	1 cut(s)	36
PdmI	GAANNNNTTC	1 cut(s)	617
PfeI	GAWTC	4 cut(s)	391, 713, 759, 791
PkrI	GCNGC	5 cut(s)	33, 40, 43, 143, 320
PleI	GAGTC	3 cut(s)	196, 499, 595
PpsI	GAGTC	3 cut(s)	196, 499, 595
Psp1406I	AACGTT	1 cut(s)	767
PspN4I	GGNNCC	1 cut(s)	259
PspPI	GGNCC	3 cut(s)	258, 263, 466
SaqAI	TTAA	3 cut(s)	167, 309, 858
SatI	GCNGC	5 cut(s)	32, 39, 42, 142, 319
Sau3AI	GATC	3 cut(s)	202, 246, 325
Sau96I	GGNCC	3 cut(s)	258, 263, 466
SchI	GAGTC	3 cut(s)	197, 499, 596
ScrFI	CCNGG	2 cut(s)	266, 271
SetI	ASST	8 cut(s)	149, 315, 389, 419, 524, 561, 632, 770
SfaNI	GCATC	1 cut(s)	681
SfuI	TTCGAA	1 cut(s)	794
SinI	GGWCC	2 cut(s)	258, 466
SmlI	CTYRAG	1 cut(s)	500
SmoI	CTYRAG	1 cut(s)	500
SpeI	ACTAGT	1 cut(s)	746
Sse9I	AATT	8 cut(s)	56, 131, 154, 212, 377, 542, 751, 873
SsiI	CCGC	6 cut(s)	29, 32, 41, 229, 284, 469
SspMI	CTAG	2 cut(s)	747, 756
StyD4I	CCNGG	2 cut(s)	264, 269
TaiI	ACGT	2 cut(s)	419, 770
TaqI	TCGA	8 cut(s)	162, 201, 216, 408, 570, 585, 723, 794
TasI	AATT	8 cut(s)	56, 131, 154, 212, 377, 542, 751, 873
TauI	GCSGC	2 cut(s)	34, 44
TfiI	GAWTC	4 cut(s)	391, 713, 759, 791
Tru1I	TTAA	3 cut(s)	167, 309, 858
Tru9I	TTAA	3 cut(s)	167, 309, 858
TseI	GCWGC	3 cut(s)	38, 141, 318
TspDTI	ATGAA	3 cut(s)	390, 425, 536
TspGWI	ACGGA	1 cut(s)	375
VpaK11BI	GGWCC	2 cut(s)	258, 466
XapI	RAATTY	3 cut(s)	131, 377, 873
XbaI	TCTAGA	1 cut(s)	755
XmnI	GAANNNNTTC	1 cut(s)	617
XspI	CTAG	2 cut(s)	747, 756

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.