Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr09

Orthogroup ID

OG0000881

Physical Location & Seq

Genomic Coordinates Forward (+)

13100446 .. 13102157

Gene Structure 1712 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD09G1162100.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGGAACACTATGACACTGCTTTAGCATACCCAGTGACGTCCCCTGGTGTAGAGGGCAACCAACCAGACATAGTTATGGACAGCTTAACTGCTCATGGTCTTGGTCTGGTACATCCGAAGAAAATTTTCAATTTCTACAATGAGCTTCATTCCTACTTGGCTTCCTGTGGAGTTGATGGAGTTAAGGTTGATGTTCAGAACATCATCGAGACTCTAGGGTCTGGTCATGGTGGAAGAGTTTCTCTGACCCGCAGCTACCACCAGGCACTTGAGGCTTCAGTTGCTCGAAATTTTGCTGACAACGGATGCATTTCTTGCATGTGTCACAACACTGATGGGCTCTACAGTGCCAAGCAGACTGCTGTGGTTAGAGCCTCTGATGACTTCTATCCCCGAGATCCTGCTTCGCACACGATTCACATATCTTCCGTTGCTTATAACACCCTGTTCCTTGGAGAATTCATGCAACCTGACTGGGATATGTTTCACCGGCAGAGTATCACGGTAATGCTGTGCACCAAACAAATTTATTTTATTGCCACTTCAGGAGGTAGGGGTTCTCTAATGCATAAGTTTGGTATTTCTGTGAATAGTGATAAGCCAGGCAATCACAATTTTGACCTTCTGAGGAAGCTGGTTCTCCCTGATGGATCTGTCCTCCGTGCCAAGTTACCTGGCAGGCCTACCCGTGATTGTCTCTTCGCGGATCCAGCAAGAGACAGGACCAGGTTTGTTCTGTTTACTCCTCTTTATGCTTCCCAACTTGCTCAAATATGGAATGTCAACAATCTCTCTGGTGTGGTTGGTGTGTTTAACTGTCAAGGTGCCGGTTGGTGCAAGATTGAAAAGAAGACACGCATTCATGATTACTGTCCCGGTACCCTCAGTGGTTCTGTTCGTGCCGCTGATGTTGATGCCATTGCTCAAGTTGTTGGTGCTGATTGGAATGGAGAAACAGTAGTATATGCTCATAAGTCTGTGAGGTTCTTCGGTTGCCAAAAGGTGCTTCAGTGCCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004553 GO:0004557 GO:0005575 GO:0005911 GO:0005975 GO:0006950 GO:0006979 GO:0008150 GO:0008152 GO:0009056 GO:0009311 GO:0009313 GO:0009506 GO:0009628 GO:0015925 GO:0016052 GO:0016787 GO:0016798 GO:0030054 GO:0033530 GO:0034484 GO:0044238 GO:0050896 GO:0052692 GO:0055044 GO:0071704 GO:0080167 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00052 map00052

Pfam Domains

Protein Families

Raffinose_syn

Protein Analysis

340

Amino Acids

37.25

Weight (kDa)

7.61

Isoelectric Point (pI)

34.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Raffinose_syn	PF05691	1 - 328	7.3e-131	Raffinose synthase or seed imbibition protein Sip1

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000881)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G57520 AT3G57520 AT3G57520
fragaria_vesca	FvH4_3g00160 FvH4_6g23550 FvH4_6g23550 FvH4_6g23550 FvH4_6g23550
malus_domestica	MD09G1161700.v1.1 MD09G1162100.v1.1 MD10G1341400.v1.1 MD10G1341500.v1.1 MD10G1341600.v1.1 MD12G1077800.v1.1 MD14G1070300.v1.1
prunus_persica	Prupe.4G001700_v2.0.a1 Prupe.5G162400_v2.0.a1 Prupe.5G162400_v2.0.a1 Prupe.7G064000_v2.0.a1 Prupe.7G064000_v2.0.a1
pyrus_communis	pycom10g29090 pycom12g06210 pycom14g05800 pycom14g05880 pycom14g05890 pycom14g05910 pycom14g05930
rosa_chinensis	RchiOBHm_Chr3g0481621 RchiOBHm_Chr5g0000211 RchiOBHm_Chr7g0192011 RchiOBHm_Chr7g0192021
rosa_laevigata	RLG00000004409 RLG00000023385 RLG00000030850
rosa_multiflora	Rmu_co8093432.1_g000001 Rmu_co8314355.1_g000001 Rmu_sc0010409.1_g000002 Rmu_sc0021936.1_g000002 Rmu_ssc0000243.1_g000010 Rmu_ssc0000421.1_g000033
rosa_roxburghii	Rroxscaffold_1G00075890 Rroxscaffold_3G00263360 Rroxscaffold_6G00400310
rosa_rugosa	Rorug03G0192700 Rorug03G0192800 Rorug03G0192900 Rorug04G0382500 Rorug06G0512300 Rorug06G0512300
rosa_samantha	Rh3AG244100 Rh3BG279100 Rh3BG279300 Rh3CG274100 Rh3DG270900 Rh5AG001400 Rh5BG002800 Rh5CG001700 Rh5DG001600 Rh7AG122700 Rh7AG122800 Rh7BG124300 Rh7CG127000 Rh7DG125800
rosa_wichuraiana	Rw3G021800 Rw5G000190 Rw7G010450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	438
AasI	GACNNNNNNGTC	1 cut(s)	217
AatII	GACGTC	1 cut(s)	41
Acc65I	GGTACC	1 cut(s)	878
AccB1I	GGYRCC	2 cut(s)	824, 878
AccII	CGCG	1 cut(s)	704
AciI	CCGC	3 cut(s)	250, 704, 903
AclWI	GGATC	4 cut(s)	392, 658, 701, 714
AcsI	RAATTY	4 cut(s)	123, 289, 458, 525
AcuI	CTGAAG	3 cut(s)	261, 528, 992
AcyI	GRCGYC	1 cut(s)	38
AfaI	GTAC	2 cut(s)	111, 880
AgsI	TTSAA	2 cut(s)	130, 845
AjnI	CCWGG	5 cut(s)	43, 261, 601, 673, 725
AjuI	GAANNNNNNNTTGG	1 cut(s)	990
AluBI	AGCT	4 cut(s)	84, 145, 255, 634
AluI	AGCT	4 cut(s)	84, 145, 255, 634
Alw21I	GWGCWC	1 cut(s)	518
Alw26I	GTCTC	3 cut(s)	203, 701, 711
Alw44I	GTGCAC	1 cut(s)	514
AlwI	GGATC	4 cut(s)	392, 658, 701, 714
AlwNI	CAGNNNCTG	1 cut(s)	1015
Ama87I	CYCGRG	1 cut(s)	393
AoxI	GGCC	1 cut(s)	680
ApaLI	GTGCAC	1 cut(s)	514
ApeKI	GCWGC	1 cut(s)	252
ApoI	RAATTY	4 cut(s)	123, 289, 458, 525
Asp700I	GAANNNNTTC	2 cut(s)	125, 238
Asp718I	GGTACC	1 cut(s)	878
AspS9I	GGNCC	1 cut(s)	723
AsuC2I	CCSGG	1 cut(s)	876
AsuHPI	GGTGA	1 cut(s)	479
AvaI	CYCGRG	1 cut(s)	393
AvaII	GGWCC	1 cut(s)	723
BaeGI	GKGCMC	1 cut(s)	518
BamHI	GGATCC	1 cut(s)	706
BanI	GGYRCC	2 cut(s)	824, 878
BanII	GRGCYC	1 cut(s)	342
BbsI	GAAGAC	1 cut(s)	857
Bbv12I	GWGCWC	1 cut(s)	518
BbvI	GCAGC	1 cut(s)	264
BccI	CCATC	3 cut(s)	170, 329, 641
BciT130I	CCWGG	5 cut(s)	45, 263, 603, 675, 727
BcnI	CCSGG	1 cut(s)	876
BcoDI	GTCTC	3 cut(s)	203, 701, 711
BfaI	CTAG	1 cut(s)	215
BfmI	CTRYAG	1 cut(s)	343
BisI	GCNGC	2 cut(s)	253, 903
BlsI	GCNGC	2 cut(s)	254, 904
Bme1390I	CCNGG	6 cut(s)	45, 263, 603, 675, 727, 876
Bme18I	GGWCC	1 cut(s)	723
BmeT110I	CYCGRG	1 cut(s)	393
BmgT120I	GGNCC	1 cut(s)	723
BmiI	GGNNCC	3 cut(s)	708, 826, 880
BmrFI	CCNGG	6 cut(s)	45, 263, 603, 675, 727, 876
BmrI	ACTGGG	2 cut(s)	26, 484
BmsI	GCATC	2 cut(s)	296, 904
BmuI	ACTGGG	2 cut(s)	26, 484
BpiI	GAAGAC	1 cut(s)	857
BpuEI	CTTGAG	2 cut(s)	290, 909
BpuMI	CCSGG	1 cut(s)	876
BsaHI	GRCGYC	1 cut(s)	38
BsaJI	CCNNGG	2 cut(s)	43, 451
BsaXI	ACNNNNNCTCC	4 cut(s)	171, 201, 942, 972
Bse118I	RCCGGY	2 cut(s)	489, 827
Bse1I	ACTGG	2 cut(s)	32, 479
Bse3DI	GCAATG	1 cut(s)	918
BseBI	CCWGG	5 cut(s)	45, 263, 603, 675, 727
BseDI	CCNNGG	2 cut(s)	43, 451
BseGI	GGATG	2 cut(s)	112, 311
BseMI	GCAATG	1 cut(s)	918
BseMII	CTCAG	2 cut(s)	617, 898
BseNI	ACTGG	2 cut(s)	32, 479
BseRI	GAGGAG	1 cut(s)	735
BseSI	GKGCMC	1 cut(s)	518
BseXI	GCAGC	1 cut(s)	264
Bsh1236I	CGCG	1 cut(s)	704
BshFI	GGCC	1 cut(s)	682
BshNI	GGYRCC	2 cut(s)	824, 878
BsiHKAI	GWGCWC	1 cut(s)	518
BsiHKCI	CYCGRG	1 cut(s)	393
BsiSI	CCGG	3 cut(s)	490, 828, 876
BslFI	GGGAC	2 cut(s)	25, 858
BsmAI	GTCTC	3 cut(s)	203, 701, 711
BsmFI	GGGAC	2 cut(s)	25, 858
BsmI	GAATGC	1 cut(s)	858
BsnI	GGCC	1 cut(s)	682
BsoBI	CYCGRG	1 cut(s)	393
Bsp1286I	GDGCHC	2 cut(s)	342, 518
Bsp143I	GATC	3 cut(s)	397, 650, 706
BspACI	CCGC	3 cut(s)	250, 704, 903
BspANI	GGCC	1 cut(s)	682
BspCNI	CTCAG	2 cut(s)	618, 897
BspFNI	CGCG	1 cut(s)	704
BspHI	TCATGA	1 cut(s)	862
BspLI	GGNNCC	3 cut(s)	708, 826, 880
BspPI	GGATC	4 cut(s)	392, 658, 701, 714
BspT107I	GGYRCC	2 cut(s)	824, 878
BsrDI	GCAATG	1 cut(s)	918
BsrFI	RCCGGY	2 cut(s)	489, 827
BsrI	ACTGG	2 cut(s)	32, 479
BssAI	RCCGGY	2 cut(s)	489, 827
BssECI	CCNNGG	2 cut(s)	43, 451
BssMI	GATC	3 cut(s)	397, 650, 706
BssNI	GRCGYC	1 cut(s)	38
BssT1I	CCWWGG	1 cut(s)	451
Bst2UI	CCWGG	5 cut(s)	45, 263, 603, 675, 727
Bst4CI	ACNGT	5 cut(s)	347, 505, 818, 872, 958
Bst6I	CTCTTC	2 cut(s)	229, 704
BstACI	GRCGYC	1 cut(s)	38
BstAPI	GCANNNNNTGC	1 cut(s)	315
BstC8I	GCNNGC	1 cut(s)	680
BstDEI	CTNAG	2 cut(s)	626, 884
BstF5I	GGATG	2 cut(s)	112, 311
BstFNI	CGCG	1 cut(s)	704
BstKTI	GATC	3 cut(s)	400, 653, 709
BstMAI	GTCTC	3 cut(s)	203, 701, 711
BstMBI	GATC	3 cut(s)	397, 650, 706
BstMWI	GCNNNNNNNGC	4 cut(s)	272, 281, 315, 710
BstNI	CCWGG	5 cut(s)	45, 263, 603, 675, 727
BstNSI	RCATGY	1 cut(s)	322
BstSCI	CCNGG	6 cut(s)	43, 261, 601, 673, 725, 874
BstSFI	CTRYAG	1 cut(s)	343
BstSLI	GKGCMC	1 cut(s)	518
BstUI	CGCG	1 cut(s)	704
BstV1I	GCAGC	1 cut(s)	264
BstV2I	GAAGAC	1 cut(s)	857
BstX2I	RGATCY	3 cut(s)	397, 650, 706
BstYI	RGATCY	3 cut(s)	397, 650, 706
BsuRI	GGCC	1 cut(s)	682
BtsCI	GGATG	2 cut(s)	112, 311
BtsI	GCAGTG	1 cut(s)	15
BtsIMutI	CAGTG	6 cut(s)	15, 39, 330, 352, 892, 1016
Cac8I	GCNNGC	1 cut(s)	680
CaiI	CAGNNNCTG	1 cut(s)	1015
CciI	TCATGA	1 cut(s)	862
Cfr10I	RCCGGY	2 cut(s)	489, 827
Cfr13I	GGNCC	1 cut(s)	723
CsiI	ACCWGGT	1 cut(s)	725
Csp6I	GTAC	2 cut(s)	110, 879
CviAII	CATG	5 cut(s)	95, 227, 319, 463, 863
CviQI	GTAC	2 cut(s)	110, 879
DdeI	CTNAG	2 cut(s)	626, 884
DpnI	GATC	3 cut(s)	399, 652, 708
DpnII	GATC	3 cut(s)	397, 650, 706
DrdI	GACNNNNNNGTC	1 cut(s)	217
DseDI	GACNNNNNNGTC	1 cut(s)	217
Eam1104I	CTCTTC	2 cut(s)	229, 704
EarI	CTCTTC	2 cut(s)	229, 704
Eco130I	CCWWGG	1 cut(s)	451
Eco147I	AGGCCT	1 cut(s)	682
Eco24I	GRGCYC	1 cut(s)	342
Eco47I	GGWCC	1 cut(s)	723
Eco57I	CTGAAG	3 cut(s)	261, 528, 992
Eco88I	CYCGRG	1 cut(s)	393
EcoRI	GAATTC	1 cut(s)	458
EcoRII	CCWGG	5 cut(s)	43, 261, 601, 673, 725
EcoT14I	CCWWGG	1 cut(s)	451
EcoT22I	ATGCAT	2 cut(s)	311, 570
EcoT38I	GRGCYC	1 cut(s)	342
ErhI	CCWWGG	1 cut(s)	451
FaeI	CATG	5 cut(s)	98, 230, 322, 466, 866
FaqI	GGGAC	2 cut(s)	25, 858
FatI	CATG	5 cut(s)	94, 226, 318, 462, 862
FauI	CCCGC	1 cut(s)	257
Fnu4HI	GCNGC	2 cut(s)	253, 903
FokI	GGATG	2 cut(s)	99, 318
FriOI	GRGCYC	1 cut(s)	342
Fsp4HI	GCNGC	2 cut(s)	253, 903
FspBI	CTAG	1 cut(s)	215
GluI	GCNGC	2 cut(s)	253, 903
HaeIII	GGCC	1 cut(s)	682
HapII	CCGG	3 cut(s)	490, 828, 876
Hin1I	GRCGYC	1 cut(s)	38
Hin1II	CATG	5 cut(s)	98, 230, 322, 466, 866
HincII	GTYRAC	1 cut(s)	784
HindII	GTYRAC	1 cut(s)	784
HinfI	GANTC	2 cut(s)	211, 415
HpaII	CCGG	3 cut(s)	490, 828, 876
HphI	GGTGA	1 cut(s)	479
Hpy166II	GTNNAC	3 cut(s)	516, 741, 784
Hpy188I	TCNGA	5 cut(s)	117, 198, 246, 379, 627
Hpy188III	TCNNGA	3 cut(s)	208, 546, 863
Hpy8I	GTNNAC	3 cut(s)	516, 741, 784
HpyAV	CCTTC	1 cut(s)	632
HpyCH4III	ACNGT	5 cut(s)	347, 505, 818, 872, 958
HpyCH4IV	ACGT	1 cut(s)	38
HpyCH4V	TGCA	6 cut(s)	309, 318, 466, 516, 568, 837
HpyF10VI	GCNNNNNNNGC	4 cut(s)	272, 281, 315, 710
HpyF3I	CTNAG	2 cut(s)	626, 884
HpySE526I	ACGT	1 cut(s)	38
Hsp92I	GRCGYC	1 cut(s)	38
Hsp92II	CATG	5 cut(s)	98, 230, 322, 466, 866
KpnI	GGTACC	1 cut(s)	882
Kzo9I	GATC	3 cut(s)	397, 650, 706
Lsp1109I	GCAGC	1 cut(s)	264
LweI	GCATC	2 cut(s)	296, 904
MabI	ACCWGGT	1 cut(s)	725
MaeI	CTAG	1 cut(s)	215
MaeII	ACGT	1 cut(s)	38
MaeIII	GTNAC	3 cut(s)	34, 323, 669
MalI	GATC	3 cut(s)	399, 652, 708
MboI	GATC	3 cut(s)	397, 650, 706
MboII	GAAGA	6 cut(s)	130, 246, 417, 691, 862, 979
MflI	RGATCY	3 cut(s)	397, 650, 706
MhlI	GDGCHC	2 cut(s)	342, 518
MluCI	AATT	6 cut(s)	123, 130, 289, 458, 525, 613
MlyI	GAGTC	1 cut(s)	205
MnlI	CCTC	9 cut(s)	46, 265, 385, 542, 621, 668, 756, 893, 975
Mph1103I	ATGCAT	2 cut(s)	311, 570
MroXI	GAANNNNTTC	2 cut(s)	125, 238
MseI	TTAA	3 cut(s)	86, 183, 813
MslI	CAYNNNNRTG	2 cut(s)	74, 506
MspA1I	CMGCKG	1 cut(s)	905
MspI	CCGG	3 cut(s)	490, 828, 876
MspR9I	CCNGG	6 cut(s)	45, 263, 603, 675, 727, 876
Mva1269I	GAATGC	1 cut(s)	858
MvaI	CCWGG	5 cut(s)	45, 263, 603, 675, 727
MvnI	CGCG	1 cut(s)	704
MwoI	GCNNNNNNNGC	4 cut(s)	272, 281, 315, 710
NciI	CCSGG	1 cut(s)	876
NdeII	GATC	3 cut(s)	397, 650, 706
NlaIII	CATG	5 cut(s)	98, 230, 322, 466, 866
NlaIV	GGNNCC	3 cut(s)	708, 826, 880
NmuCI	GTSAC	2 cut(s)	34, 323
NsiI	ATGCAT	2 cut(s)	311, 570
NspI	RCATGY	1 cut(s)	322
PagI	TCATGA	1 cut(s)	862
PceI	AGGCCT	1 cut(s)	682
PctI	GAATGC	1 cut(s)	858
PdmI	GAANNNNTTC	2 cut(s)	125, 238
PfeI	GAWTC	1 cut(s)	415
PkrI	GCNGC	2 cut(s)	254, 904
PleI	GAGTC	1 cut(s)	205
PpsI	GAGTC	1 cut(s)	205
PsiI	TTATAA	1 cut(s)	438
Psp6I	CCWGG	5 cut(s)	43, 261, 601, 673, 725
PspGI	CCWGG	5 cut(s)	43, 261, 601, 673, 725
PspN4I	GGNNCC	3 cut(s)	708, 826, 880
PspPI	GGNCC	1 cut(s)	723
PstNI	CAGNNNCTG	1 cut(s)	1015
PsuI	RGATCY	3 cut(s)	397, 650, 706
RsaI	GTAC	2 cut(s)	111, 880
RsaNI	GTAC	2 cut(s)	110, 879
RseI	CAYNNNNRTG	2 cut(s)	74, 506
SaqAI	TTAA	3 cut(s)	86, 183, 813
SatI	GCNGC	2 cut(s)	253, 903
Sau3AI	GATC	3 cut(s)	397, 650, 706
Sau96I	GGNCC	1 cut(s)	723
SchI	GAGTC	1 cut(s)	205
ScrFI	CCNGG	6 cut(s)	45, 263, 603, 675, 727, 876
SduI	GDGCHC	2 cut(s)	342, 518
SexAI	ACCWGGT	1 cut(s)	725
SfaNI	GCATC	2 cut(s)	296, 904
SfcI	CTRYAG	1 cut(s)	343
SinI	GGWCC	1 cut(s)	723
SmiMI	CAYNNNNRTG	2 cut(s)	74, 506
SmlI	CTYRAG	2 cut(s)	269, 924
SmoI	CTYRAG	2 cut(s)	269, 924
Sse9I	AATT	6 cut(s)	123, 130, 289, 458, 525, 613
SseBI	AGGCCT	1 cut(s)	682
SsiI	CCGC	3 cut(s)	250, 704, 903
SspMI	CTAG	1 cut(s)	215
StuI	AGGCCT	1 cut(s)	682
StyD4I	CCNGG	6 cut(s)	43, 261, 601, 673, 725, 874
StyI	CCWWGG	1 cut(s)	451
TaaI	ACNGT	5 cut(s)	347, 505, 818, 872, 958
TaiI	ACGT	1 cut(s)	41
TaqI	TCGA	2 cut(s)	207, 286
TasI	AATT	6 cut(s)	123, 130, 289, 458, 525, 613
TauI	GCSGC	1 cut(s)	905
TfiI	GAWTC	1 cut(s)	415
Tru1I	TTAA	3 cut(s)	86, 183, 813
Tru9I	TTAA	3 cut(s)	86, 183, 813
TscAI	CASTG	6 cut(s)	22, 39, 337, 352, 892, 1016
TseFI	GTSAC	2 cut(s)	34, 323
TseI	GCWGC	1 cut(s)	252
Tsp45I	GTSAC	2 cut(s)	34, 323
TspDTI	ATGAA	3 cut(s)	137, 451, 851
TspGWI	ACGGA	3 cut(s)	318, 418, 650
TspRI	CASTG	6 cut(s)	22, 39, 337, 352, 892, 1016
VneI	GTGCAC	1 cut(s)	514
VpaK11BI	GGWCC	1 cut(s)	723
XapI	RAATTY	4 cut(s)	123, 289, 458, 525
XceI	RCATGY	1 cut(s)	322
XmnI	GAANNNNTTC	2 cut(s)	125, 238
XspI	CTAG	1 cut(s)	215
ZraI	GACGTC	1 cut(s)	39
Zsp2I	ATGCAT	2 cut(s)	311, 570

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