Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0017862

Physical Location & Seq

Genomic Coordinates Forward (+)

37377040 .. 37377680

Gene Structure 641 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00028960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGAACATCACGGCCACTCCATCACCAAACGAAACCACCGTGGGCTGCTTCATTGGCTTCGACGCCGACGAGCCCAAAAGCAGCCATGTGGTGCCGCTCGGCAAGCTCGGCGGCATCAAGTTCATGAGCATTTTCCGGTTCAAAGTTTGGTGGACCACCCGGTCCCTTCCGAGCCTCCCTCCAACCCGCACCGACCGCCACATGGTCATGACCGTCGAAAGTGGAGGCGGTGAGAGTCCATTTGAGAAGCTTCAAGCTTCGGAGAAGAAGACACCTCCGCCTATAGTGGACAAGTTTAGTTGGTACACGTGGGATGCGTTTTATCTTAGGGTACACCCCAATAAAGTTTGGGAAGGGGTTAAAGGCCTAGTGGAGGGTGGGTGTCCTCCGGAAATGGTACTCATCGACTACGGCCGGCAGTCCATTTGTCACGATGACGACCCCCTAACCGACGAAGAAGCCATGAAAAAGACATCTGCCGGTGAGCAAATGCCATGTAGGCTCACAAGTTTCGTAGAGAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00052 map00052

Pfam Domains

Protein Families

Raffinose_syn

Protein Analysis

174

Amino Acids

19.48

Weight (kDa)

5.58

Isoelectric Point (pI)

50.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Raffinose_syn	PF05691	7 - 56	2.9e-14	Raffinose synthase or seed imbibition protein Sip1
Raffinose_syn	PF05691	83 - 174	1.5e-29	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: OG0017862)

Species	Orthologous Gene IDs
rosa_roxburghii	Rroxscaffold_1G00004850 Rroxscaffold_1G00028960 Rroxscaffold_2G00103200 Rroxscaffold_2G00120180 Rroxscaffold_3G00237870 Rroxscaffold_3G00239580 Rroxscaffold_3G00267700 Rroxscaffold_4G00320220 Rroxscaffold_5G00354610 Rroxscaffold_6G00391490 Rroxscaffold_7G00179660 Rroxscaffold_7G00194190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	160
AccB1I	GGYRCC	1 cut(s)	91
AccBSI	CCGCTC	1 cut(s)	97
AccIII	TCCGGA	1 cut(s)	388
AciI	CCGC	6 cut(s)	95, 111, 187, 196, 228, 278
AcoI	YGGCCR	2 cut(s)	12, 412
AcvI	CACGTG	1 cut(s)	309
AcyI	GRCGYC	1 cut(s)	63
AfaI	GTAC	3 cut(s)	305, 333, 399
AfiI	CCNNNNNNNGG	2 cut(s)	202, 373
AflIII	ACRYGT	1 cut(s)	306
AgsI	TTSAA	2 cut(s)	142, 254
AluBI	AGCT	3 cut(s)	106, 250, 257
AluI	AGCT	3 cut(s)	106, 250, 257
Aor13HI	TCCGGA	1 cut(s)	388
AoxI	GGCC	3 cut(s)	12, 364, 412
ApeKI	GCWGC	2 cut(s)	45, 81
AspS9I	GGNCC	2 cut(s)	153, 162
AsuC2I	CCSGG	1 cut(s)	160
AsuHPI	GGTGA	3 cut(s)	15, 242, 494
AvaII	GGWCC	2 cut(s)	153, 162
BanI	GGYRCC	1 cut(s)	91
BanII	GRGCYC	1 cut(s)	75
BbrPI	CACGTG	1 cut(s)	309
BbsI	GAAGAC	1 cut(s)	275
BbvI	GCAGC	2 cut(s)	32, 93
BccI	CCATC	1 cut(s)	28
BceAI	ACGGC	2 cut(s)	27, 427
BcnI	CCSGG	1 cut(s)	160
BfaI	CTAG	1 cut(s)	368
BfmI	CTRYAG	1 cut(s)	282
BglI	GCCNNNNNGGC	1 cut(s)	499
BisI	GCNGC	4 cut(s)	46, 82, 95, 112
BlsI	GCNGC	4 cut(s)	47, 83, 96, 113
Bme1390I	CCNGG	1 cut(s)	160
Bme18I	GGWCC	2 cut(s)	153, 162
BmgT120I	GGNCC	2 cut(s)	153, 162
BmiI	GGNNCC	2 cut(s)	93, 164
BmrFI	CCNGG	1 cut(s)	160
BmsI	GCATC	2 cut(s)	123, 304
BpiI	GAAGAC	1 cut(s)	275
BplI	GAGNNNNNCTC	2 cut(s)	163, 195
BpuMI	CCSGG	1 cut(s)	160
BsaAI	YACGTR	1 cut(s)	309
BsaHI	GRCGYC	1 cut(s)	63
BsaJI	CCNNGG	1 cut(s)	39
BsaWI	WCCGGW	2 cut(s)	135, 388
BsaXI	ACNNNNNCTCC	3 cut(s)	31, 365, 395
Bsc4I	CCNNNNNNNGG	2 cut(s)	202, 373
Bse118I	RCCGGY	2 cut(s)	414, 479
BseAI	TCCGGA	1 cut(s)	388
BseDI	CCNNGG	1 cut(s)	39
BseGI	GGATG	1 cut(s)	319
BseLI	CCNNNNNNNGG	2 cut(s)	202, 373
BseX3I	CGGCCG	1 cut(s)	412
BseXI	GCAGC	2 cut(s)	32, 93
Bsh1285I	CGRYCG	2 cut(s)	196, 415
BshFI	GGCC	3 cut(s)	14, 366, 414
BshNI	GGYRCC	1 cut(s)	91
BsiEI	CGRYCG	2 cut(s)	196, 415
BsiSI	CCGG	5 cut(s)	136, 160, 389, 415, 480
BslFI	GGGAC	1 cut(s)	148
BslI	CCNNNNNNNGG	2 cut(s)	202, 373
BsmFI	GGGAC	1 cut(s)	148
BsnI	GGCC	3 cut(s)	14, 366, 414
Bsp1286I	GDGCHC	1 cut(s)	75
Bsp13I	TCCGGA	1 cut(s)	388
BspACI	CCGC	6 cut(s)	95, 111, 187, 196, 228, 278
BspANI	GGCC	3 cut(s)	14, 366, 414
BspEI	TCCGGA	1 cut(s)	388
BspHI	TCATGA	2 cut(s)	123, 207
BspLI	GGNNCC	2 cut(s)	93, 164
BspT107I	GGYRCC	1 cut(s)	91
BsrBI	CCGCTC	1 cut(s)	97
BsrFI	RCCGGY	2 cut(s)	414, 479
BssAI	RCCGGY	2 cut(s)	414, 479
BssECI	CCNNGG	1 cut(s)	39
BssNI	GRCGYC	1 cut(s)	63
Bst4CI	ACNGT	2 cut(s)	40, 214
BstACI	GRCGYC	1 cut(s)	63
BstBAI	YACGTR	1 cut(s)	309
BstC8I	GCNNGC	2 cut(s)	104, 416
BstDEI	CTNAG	1 cut(s)	326
BstDSI	CCRYGG	1 cut(s)	39
BstENI	CCTNNNNNAGG	1 cut(s)	371
BstF5I	GGATG	1 cut(s)	319
BstMCI	CGRYCG	2 cut(s)	196, 415
BstMWI	GCNNNNNNNGC	5 cut(s)	54, 103, 108, 195, 499
BstSCI	CCNGG	1 cut(s)	158
BstSFI	CTRYAG	1 cut(s)	282
BstV1I	GCAGC	2 cut(s)	32, 93
BstV2I	GAAGAC	1 cut(s)	275
BstZI	CGGCCG	1 cut(s)	412
BsuRI	GGCC	3 cut(s)	14, 366, 414
BtgI	CCRYGG	1 cut(s)	39
BtsCI	GGATG	1 cut(s)	319
Cac8I	GCNNGC	2 cut(s)	104, 416
CciI	TCATGA	2 cut(s)	123, 207
Cfr10I	RCCGGY	2 cut(s)	414, 479
Cfr13I	GGNCC	2 cut(s)	153, 162
CseI	GACGC	1 cut(s)	71
Csp6I	GTAC	3 cut(s)	304, 332, 398
CviAII	CATG	6 cut(s)	86, 124, 202, 208, 463, 495
CviQI	GTAC	3 cut(s)	304, 332, 398
DdeI	CTNAG	1 cut(s)	326
DrdI	GACNNNNNNGTC	1 cut(s)	160
DseDI	GACNNNNNNGTC	1 cut(s)	160
EaeI	YGGCCR	2 cut(s)	12, 412
EagI	CGGCCG	1 cut(s)	412
EciI	GGCGGA	1 cut(s)	267
EclXI	CGGCCG	1 cut(s)	412
Eco147I	AGGCCT	1 cut(s)	366
Eco24I	GRGCYC	1 cut(s)	75
Eco47I	GGWCC	2 cut(s)	153, 162
Eco52I	CGGCCG	1 cut(s)	412
Eco72I	CACGTG	1 cut(s)	309
EcoNI	CCTNNNNNAGG	1 cut(s)	371
EcoT38I	GRGCYC	1 cut(s)	75
FaeI	CATG	6 cut(s)	89, 127, 205, 211, 466, 498
FaiI	YATR	7 cut(s)	87, 125, 203, 209, 284, 464, 496
FaqI	GGGAC	1 cut(s)	148
FatI	CATG	6 cut(s)	85, 123, 201, 207, 462, 494
FauI	CCCGC	1 cut(s)	194
Fnu4HI	GCNGC	4 cut(s)	46, 82, 95, 112
FokI	GGATG	1 cut(s)	326
FriOI	GRGCYC	1 cut(s)	75
Fsp4HI	GCNGC	4 cut(s)	46, 82, 95, 112
FspBI	CTAG	1 cut(s)	368
GluI	GCNGC	4 cut(s)	46, 82, 95, 112
HaeIII	GGCC	3 cut(s)	14, 366, 414
HapII	CCGG	5 cut(s)	136, 160, 389, 415, 480
HgaI	GACGC	1 cut(s)	71
Hin1I	GRCGYC	1 cut(s)	63
Hin1II	CATG	6 cut(s)	89, 127, 205, 211, 466, 498
HindIII	AAGCTT	2 cut(s)	248, 255
HinfI	GANTC	1 cut(s)	235
HpaII	CCGG	5 cut(s)	136, 160, 389, 415, 480
HphI	GGTGA	3 cut(s)	15, 242, 494
Hpy166II	GTNNAC	4 cut(s)	153, 289, 306, 334
Hpy188I	TCNGA	2 cut(s)	171, 262
Hpy188III	TCNNGA	4 cut(s)	124, 208, 389, 431
Hpy8I	GTNNAC	4 cut(s)	153, 289, 306, 334
Hpy99I	CGWCG	4 cut(s)	65, 71, 218, 455
HpyAV	CCTTC	2 cut(s)	176, 347
HpyCH4III	ACNGT	2 cut(s)	40, 214
HpyCH4IV	ACGT	1 cut(s)	308
HpyF10VI	GCNNNNNNNGC	5 cut(s)	54, 103, 108, 195, 499
HpyF3I	CTNAG	1 cut(s)	326
HpySE526I	ACGT	1 cut(s)	308
Hsp92I	GRCGYC	1 cut(s)	63
Hsp92II	CATG	6 cut(s)	89, 127, 205, 211, 466, 498
Kpn2I	TCCGGA	1 cut(s)	388
KroI	GCCGGC	1 cut(s)	414
KroNI	GCCGGC	1 cut(s)	416
LpnPI	CCDG	5 cut(s)	149, 173, 402, 428, 493
Lsp1109I	GCAGC	2 cut(s)	32, 93
LweI	GCATC	2 cut(s)	123, 304
MaeI	CTAG	1 cut(s)	368
MaeII	ACGT	1 cut(s)	308
MaeIII	GTNAC	1 cut(s)	428
MbiI	CCGCTC	1 cut(s)	97
MboII	GAAGA	3 cut(s)	277, 280, 467
MhlI	GDGCHC	1 cut(s)	75
MlyI	GAGTC	1 cut(s)	244
MmeI	TCCRAC	1 cut(s)	206
MnlI	CCTC	6 cut(s)	185, 189, 218, 285, 367, 396
MroI	TCCGGA	1 cut(s)	388
MroNI	GCCGGC	1 cut(s)	414
MseI	TTAA	1 cut(s)	360
MslI	CAYNNNNRTG	1 cut(s)	206
MspI	CCGG	5 cut(s)	136, 160, 389, 415, 480
MspR9I	CCNGG	1 cut(s)	160
MwoI	GCNNNNNNNGC	5 cut(s)	54, 103, 108, 195, 499
NaeI	GCCGGC	1 cut(s)	416
NciI	CCSGG	1 cut(s)	160
NgoMIV	GCCGGC	1 cut(s)	414
NlaIII	CATG	6 cut(s)	89, 127, 205, 211, 466, 498
NlaIV	GGNNCC	2 cut(s)	93, 164
NmeAIII	GCCGAG	2 cut(s)	78, 87
NmuCI	GTSAC	1 cut(s)	428
PagI	TCATGA	2 cut(s)	123, 207
PceI	AGGCCT	1 cut(s)	366
PcsI	WCGNNNNNNNCGW	3 cut(s)	36, 66, 314
PdiI	GCCGGC	1 cut(s)	416
PkrI	GCNGC	4 cut(s)	47, 83, 96, 113
PleI	GAGTC	1 cut(s)	243
PmaCI	CACGTG	1 cut(s)	309
PmlI	CACGTG	1 cut(s)	309
PpsI	GAGTC	1 cut(s)	243
Ppu21I	YACGTR	1 cut(s)	309
PspCI	CACGTG	1 cut(s)	309
PspN4I	GGNNCC	2 cut(s)	93, 164
PspPI	GGNCC	2 cut(s)	153, 162
RsaI	GTAC	3 cut(s)	305, 333, 399
RsaNI	GTAC	3 cut(s)	304, 332, 398
RseI	CAYNNNNRTG	1 cut(s)	206
SaqAI	TTAA	1 cut(s)	360
SatI	GCNGC	4 cut(s)	46, 82, 95, 112
Sau96I	GGNCC	2 cut(s)	153, 162
SchI	GAGTC	1 cut(s)	244
ScrFI	CCNGG	1 cut(s)	160
SduI	GDGCHC	1 cut(s)	75
SetI	ASST	5 cut(s)	108, 252, 259, 277, 311
SfaNI	GCATC	2 cut(s)	123, 304
SfcI	CTRYAG	1 cut(s)	282
SinI	GGWCC	2 cut(s)	153, 162
SmiMI	CAYNNNNRTG	1 cut(s)	206
SseBI	AGGCCT	1 cut(s)	366
SsiI	CCGC	6 cut(s)	95, 111, 187, 196, 228, 278
SspMI	CTAG	1 cut(s)	368
StuI	AGGCCT	1 cut(s)	366
StyD4I	CCNGG	1 cut(s)	158
TaaI	ACNGT	2 cut(s)	40, 214
TaiI	ACGT	1 cut(s)	311
TaqI	TCGA	3 cut(s)	60, 216, 405
TauI	GCSGC	2 cut(s)	97, 114
Tru1I	TTAA	1 cut(s)	360
Tru9I	TTAA	1 cut(s)	360
TseFI	GTSAC	1 cut(s)	428
TseI	GCWGC	2 cut(s)	45, 81
Tsp45I	GTSAC	1 cut(s)	428
TspDTI	ATGAA	4 cut(s)	17, 40, 112, 479
VpaK11BI	GGWCC	2 cut(s)	153, 162
XagI	CCTNNNNNAGG	1 cut(s)	371
XspI	CTAG	1 cut(s)	368

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