Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr12

Orthogroup ID

OG0000328

Physical Location & Seq

Genomic Coordinates Reverse (-)

9476765 .. 9477977

Gene Structure 1213 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD12G1077900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGACGATGACACCGCCGATTTCGATCAATGATGGGAACCTGGTGGTTCATGGAAGGACCATTTTGACTGGAGTTCCAGACAACATCGTACTCACACCAGGAAAGGGTGTCGGGCTTGTTGCCGGTGCTTTCATTGGCGCCACGGTCTCCCACAGCAAAAGCCTCCATATCTTCCCTATTGGGGTTTTAGAGGGTCTCCATTTCATGTGCTGTTTTCGATTCAAGTTGTGGTGGATGACTCAGAGGATGGGGACATCTGGGAAGGATGTACCATTGGAGACCCAATTCATGCTTGTCGAGAGCAAAGGTGGTGGTGAAGGAGATGAAGAAGAGGATTCTTCTCCAACTATCTACACCGTCTTCCTGCCTCTACTTGAGGGCCTGTTCCGCTCTGTTCTGCAAGGCAATGAGAGAAACGAAGTCGAGATTTGCCTCGAGAGTGGTGAGTAG

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

150

Amino Acids

16.18

Weight (kDa)

4.91

Isoelectric Point (pI)

36.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Raffinose_syn	PF05691	7 - 149	8.9e-53	Raffinose synthase or seed imbibition protein Sip1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000328)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g13832 FvH4_3g26701 FvH4_4g14350 FvH4_7g17370
malus_domestica	MD12G1077900.v1.1 MD14G1070200.v1.1
prunus_persica	Prupe.2G073100_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0365191 RchiOBHm_Chr2g0105141 RchiOBHm_Chr2g0120431 RchiOBHm_Chr2g0139381 RchiOBHm_Chr3g0494421 RchiOBHm_Chr6g0248181 RchiOBHm_Chr7g0235571
rosa_laevigata	RLG00000005158 RLG00000008937 RLG00000013742 RLG00000015899 RLG00000019885 RLG00000024515 RLG00000024516 RLG00000028740 RLG00000030656 RLG00000030662 RLG00000032758 RLG00000035668 RLG00000036717 RLG00000036718
rosa_multiflora	Rmu_sc0000252.1_g000016 Rmu_sc0001386.1_g000020 Rmu_sc0002271.1_g000010 Rmu_sc0003833.1_g000002 Rmu_sc0004718.1_g000004 Rmu_sc0006031.1_g000006 Rmu_sc0006598.1_g000013 Rmu_sc0007472.1_g000023 Rmu_sc0009313.1_g000012
rosa_roxburghii	Rroxscaffold_2G00103830 Rroxscaffold_2G00109880 Rroxscaffold_3G00225910 Rroxscaffold_3G00271600 Rroxscaffold_3G00274560 Rroxscaffold_4G00299580 Rroxscaffold_5G00352530 Rroxscaffold_5G00379280 Rroxscaffold_7G00177320
rosa_rugosa	Rorug01G0027200 Rorug01G0032100 Rorug02G0050600 Rorug02G0054800 Rorug04G0083300 Rorug05G0115200 Rorug07G0006800
rosa_samantha	Rh1CG086700 Rh1DG093300 Rh1DG217000 Rh2AG120200 Rh2AG227900 Rh2AG254000 Rh2AG434200 Rh2AG469200 Rh2BG159500 Rh2CG419900 Rh2CG455200 Rh2DG320100 Rh2DG603500 Rh3CG319900 Rh3DG300800 Rh3DG319200 Rh4AG199400 Rh4BG329100 Rh4BG329200 Rh4CG110800 Rh4DG042000 Rh4DG129400 Rh4DG187700 Rh4DG231900 Rh5AG038800 Rh5AG107300 Rh5AG303600 Rh5AG386500 Rh5AG454200 Rh5CG041800 Rh5CG534800 Rh5DG076400 Rh5DG109800 Rh5DG123600 Rh6AG164400 Rh6BG035100 Rh6BG036000 Rh6BG041000 Rh6BG215500 Rh6CG173900 Rh6CG174000 Rh6DG020300 Rh6DG166300 Rh6DG320000 Rh6DG509700 Rh7AG059500 Rh7AG291700 Rh7BG404300 Rh7DG402000
rosa_wichuraiana	Rw1G000890 Rw1G020020 Rw3G005730 Rw4G011330 Rw4G026960 Rw5G014010 Rw6G002230 Rw7G038480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	137
AccBSI	CCGCTC	1 cut(s)	390
AciI	CCGC	2 cut(s)	14, 388
AcyI	GRCGYC	1 cut(s)	138
AfaI	GTAC	2 cut(s)	90, 270
AfiI	CCNNNNNNNGG	2 cut(s)	104, 181
AgsI	TTSAA	1 cut(s)	223
AjnI	CCWGG	2 cut(s)	39, 97
Alw26I	GTCTC	3 cut(s)	151, 200, 272
Ama87I	CYCGRG	1 cut(s)	434
AoxI	GGCC	1 cut(s)	379
AspLEI	GCGC	1 cut(s)	140
AspS9I	GGNCC	2 cut(s)	57, 379
AsuHPI	GGTGA	1 cut(s)	326
AvaI	CYCGRG	1 cut(s)	434
AvaII	GGWCC	1 cut(s)	57
BanI	GGYRCC	1 cut(s)	137
BbsI	GAAGAC	1 cut(s)	352
BccI	CCATC	2 cut(s)	26, 241
BciT130I	CCWGG	2 cut(s)	41, 99
BcoDI	GTCTC	3 cut(s)	151, 200, 272
BfoI	RGCGCY	1 cut(s)	141
Bme1390I	CCNGG	2 cut(s)	41, 99
Bme18I	GGWCC	1 cut(s)	57
BmeT110I	CYCGRG	1 cut(s)	434
BmgT120I	GGNCC	2 cut(s)	57, 379
BmiI	GGNNCC	2 cut(s)	38, 139
BmrFI	CCNGG	2 cut(s)	41, 99
BpiI	GAAGAC	1 cut(s)	352
BpmI	CTGGAG	1 cut(s)	90
BpuEI	CTTGAG	1 cut(s)	395
BsaBI	GATNNNNATC	1 cut(s)	23
BsaHI	GRCGYC	1 cut(s)	138
BsaI	GGTCTC	3 cut(s)	151, 200, 272
BsaJI	CCNNGG	1 cut(s)	141
Bsc4I	CCNNNNNNNGG	2 cut(s)	104, 181
Bse118I	RCCGGY	1 cut(s)	122
Bse1I	ACTGG	1 cut(s)	73
Bse3DI	GCAATG	1 cut(s)	412
Bse8I	GATNNNNATC	1 cut(s)	23
BseBI	CCWGG	2 cut(s)	41, 99
BseDI	CCNNGG	1 cut(s)	141
BseGI	GGATG	3 cut(s)	240, 252, 271
BseJI	GATNNNNATC	1 cut(s)	23
BseLI	CCNNNNNNNGG	2 cut(s)	104, 181
BseMI	GCAATG	1 cut(s)	412
BseMII	CTCAG	1 cut(s)	254
BseNI	ACTGG	1 cut(s)	73
BshFI	GGCC	1 cut(s)	381
BshNI	GGYRCC	1 cut(s)	137
BsiHKCI	CYCGRG	1 cut(s)	434
BsiSI	CCGG	1 cut(s)	123
BslFI	GGGAC	1 cut(s)	265
BslI	CCNNNNNNNGG	2 cut(s)	104, 181
BsmAI	GTCTC	3 cut(s)	151, 200, 272
BsmFI	GGGAC	1 cut(s)	265
BsnI	GGCC	1 cut(s)	381
Bso31I	GGTCTC	3 cut(s)	151, 200, 272
BsoBI	CYCGRG	1 cut(s)	434
Bsp143I	GATC	1 cut(s)	24
BspACI	CCGC	2 cut(s)	14, 388
BspANI	GGCC	1 cut(s)	381
BspCNI	CTCAG	1 cut(s)	253
BspLI	GGNNCC	2 cut(s)	38, 139
BspT107I	GGYRCC	1 cut(s)	137
BspTNI	GGTCTC	3 cut(s)	151, 200, 272
BsrBI	CCGCTC	1 cut(s)	390
BsrDI	GCAATG	1 cut(s)	412
BsrFI	RCCGGY	1 cut(s)	122
BsrI	ACTGG	1 cut(s)	73
BssAI	RCCGGY	1 cut(s)	122
BssECI	CCNNGG	1 cut(s)	141
BssMI	GATC	1 cut(s)	24
BssNI	GRCGYC	1 cut(s)	138
Bst2UI	CCWGG	2 cut(s)	41, 99
Bst4CI	ACNGT	2 cut(s)	145, 358
Bst6I	CTCTTC	1 cut(s)	324
BstACI	GRCGYC	1 cut(s)	138
BstDEI	CTNAG	1 cut(s)	240
BstDSI	CCRYGG	1 cut(s)	141
BstF5I	GGATG	3 cut(s)	240, 252, 271
BstH2I	RGCGCY	1 cut(s)	141
BstHHI	GCGC	1 cut(s)	140
BstKTI	GATC	1 cut(s)	27
BstMAI	GTCTC	3 cut(s)	151, 200, 272
BstMBI	GATC	1 cut(s)	24
BstMWI	GCNNNNNNNGC	1 cut(s)	387
BstNI	CCWGG	2 cut(s)	41, 99
BstSCI	CCNGG	2 cut(s)	39, 97
BstV2I	GAAGAC	1 cut(s)	352
BsuRI	GGCC	1 cut(s)	381
BtgI	CCRYGG	1 cut(s)	141
BtsCI	GGATG	3 cut(s)	240, 252, 271
CfoI	GCGC	1 cut(s)	140
Cfr10I	RCCGGY	1 cut(s)	122
Cfr13I	GGNCC	2 cut(s)	57, 379
CsiI	ACCWGGT	1 cut(s)	39
Csp6I	GTAC	2 cut(s)	89, 269
CspCI	CAANNNNNGTGG	2 cut(s)	292, 327
CviAII	CATG	3 cut(s)	50, 205, 289
CviJI	RGCY	3 cut(s)	115, 162, 381
CviKI_1	RGCY	3 cut(s)	115, 162, 381
CviQI	GTAC	2 cut(s)	89, 269
DdeI	CTNAG	1 cut(s)	240
DinI	GGCGCC	1 cut(s)	139
DpnI	GATC	1 cut(s)	26
DpnII	GATC	1 cut(s)	24
Eam1104I	CTCTTC	1 cut(s)	324
EarI	CTCTTC	1 cut(s)	324
Eco31I	GGTCTC	3 cut(s)	151, 200, 272
Eco47I	GGWCC	1 cut(s)	57
Eco88I	CYCGRG	1 cut(s)	434
EcoO109I	RGGNCCY	1 cut(s)	379
EcoRII	CCWGG	2 cut(s)	39, 97
EgeI	GGCGCC	1 cut(s)	139
EheI	GGCGCC	1 cut(s)	139
FaeI	CATG	3 cut(s)	53, 208, 292
FaiI	YATR	4 cut(s)	51, 168, 206, 290
FaqI	GGGAC	1 cut(s)	265
FatI	CATG	3 cut(s)	49, 204, 288
FokI	GGATG	3 cut(s)	247, 259, 278
GlaI	GCGC	1 cut(s)	139
GsuI	CTGGAG	1 cut(s)	90
HaeII	RGCGCY	1 cut(s)	141
HaeIII	GGCC	1 cut(s)	381
HapII	CCGG	1 cut(s)	123
HhaI	GCGC	1 cut(s)	140
Hin1I	GRCGYC	1 cut(s)	138
Hin1II	CATG	3 cut(s)	53, 208, 292
Hin6I	GCGC	1 cut(s)	138
HinP1I	GCGC	1 cut(s)	138
HinfI	GANTC	3 cut(s)	219, 238, 335
HpaII	CCGG	1 cut(s)	123
HphI	GGTGA	1 cut(s)	326
Hpy188I	TCNGA	1 cut(s)	243
Hpy188III	TCNNGA	4 cut(s)	77, 298, 424, 436
HpyAV	CCTTC	3 cut(s)	48, 256, 311
HpyCH4III	ACNGT	2 cut(s)	145, 358
HpyCH4V	TGCA	1 cut(s)	400
HpyF10VI	GCNNNNNNNGC	1 cut(s)	387
HpyF3I	CTNAG	1 cut(s)	240
Hsp92I	GRCGYC	1 cut(s)	138
Hsp92II	CATG	3 cut(s)	53, 208, 292
HspAI	GCGC	1 cut(s)	138
KasI	GGCGCC	1 cut(s)	137
Kzo9I	GATC	1 cut(s)	24
MabI	ACCWGGT	1 cut(s)	39
MalI	GATC	1 cut(s)	26
MbiI	CCGCTC	1 cut(s)	390
MboI	GATC	1 cut(s)	24
MboII	GAAGA	5 cut(s)	163, 330, 338, 341, 352
MluCI	AATT	1 cut(s)	284
Mly113I	GGCGCC	1 cut(s)	138
MlyI	GAGTC	1 cut(s)	232
MmeI	TCCRAC	1 cut(s)	368
MnlI	CCTC	7 cut(s)	173, 184, 237, 325, 370, 378, 443
MspI	CCGG	1 cut(s)	123
MspR9I	CCNGG	2 cut(s)	41, 99
MvaI	CCWGG	2 cut(s)	41, 99
MwoI	GCNNNNNNNGC	1 cut(s)	387
NarI	GGCGCC	1 cut(s)	138
NdeII	GATC	1 cut(s)	24
NlaIII	CATG	3 cut(s)	53, 208, 292
NlaIV	GGNNCC	2 cut(s)	38, 139
PaeR7I	CTCGAG	1 cut(s)	434
PfeI	GAWTC	2 cut(s)	219, 335
PleI	GAGTC	1 cut(s)	232
PluTI	GGCGCC	1 cut(s)	141
PpsI	GAGTC	1 cut(s)	232
Psp6I	CCWGG	2 cut(s)	39, 97
PspGI	CCWGG	2 cut(s)	39, 97
PspN4I	GGNNCC	2 cut(s)	38, 139
PspPI	GGNCC	2 cut(s)	57, 379
RsaI	GTAC	2 cut(s)	90, 270
RsaNI	GTAC	2 cut(s)	89, 269
Sau3AI	GATC	1 cut(s)	24
Sau96I	GGNCC	2 cut(s)	57, 379
SchI	GAGTC	1 cut(s)	232
ScrFI	CCNGG	2 cut(s)	41, 99
SetI	ASST	2 cut(s)	42, 310
SexAI	ACCWGGT	1 cut(s)	39
SfoI	GGCGCC	1 cut(s)	139
Sfr274I	CTCGAG	1 cut(s)	434
SinI	GGWCC	1 cut(s)	57
SlaI	CTCGAG	1 cut(s)	434
SmlI	CTYRAG	2 cut(s)	374, 434
SmoI	CTYRAG	2 cut(s)	374, 434
Sse9I	AATT	1 cut(s)	284
SsiI	CCGC	2 cut(s)	14, 388
SspDI	GGCGCC	1 cut(s)	137
StyD4I	CCNGG	2 cut(s)	39, 97
TaaI	ACNGT	2 cut(s)	145, 358
TaqI	TCGA	5 cut(s)	23, 217, 297, 423, 435
TasI	AATT	1 cut(s)	284
TfiI	GAWTC	2 cut(s)	219, 335
TspDTI	ATGAA	5 cut(s)	38, 121, 193, 277, 339
VpaK11BI	GGWCC	1 cut(s)	57
XhoI	CTCGAG	1 cut(s)	434

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