Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0004190

Physical Location & Seq

Genomic Coordinates Reverse (-)

1346090 .. 1347997

Gene Structure 1908 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG020800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1128 bp

ATGGTTTTCAATGTGATGCGTTATGGAGCTATTGAAGGAGGAAGAACTGATAATAGTCAGGCATTTTTGAAAGCATGGAGTGAAGCATGTAAATGGGATGGAAGAGCAAAGGTTGTGATTCCGCCCGGAACATTCAAGTTGTTCCCAGTTGTATTCTCAGGTCCATGCAAGGGTAACATGGCCTTTGTAATCAAGGGAACTTTGTTGGCTTCTACTAGTCCATCAGCATTGAGTTCTGAAAATTGGATAAACTTTCGGAACATTGAACAATTAACTGTAGCCGGGGGAGGTACGCTGGACGGCCAAGGATCCTCGGTTTGGTCTCTTAACGATTGCAAAACTAATCCCGTATGCAAAGCTCTCCCAACTTCAATGACTTTCGACTTCGTAACAAATGCAAGTGTTCATCACTTAAGATCATTCAACAGCCAAAATGGTCATTTTAAGGTTCATGGATGCCAGAAGATAGACTTCGGAAACATTAGAATATCGGCTCCTGAGGACAGTCCAAACACCGATGGCATAAAAATTGGAAACTCATACCGCATCAGAATTAGACGAACGATCATTGAGACCGGCGATGATTGTATAGGAATTGTATCGGGAAGTCAAAAAATCCACATTTCTAATGTCTTTTGCGGTCCCGGACATGGAATTAGCGTTGGAAGTCTTGGAGGGCATAGTTATACAGAATATGATGTGGAGGGAATTTTTGTGAAAAATAGCGTTTTCAAAAAGACTGATAATGGTTTGAGAATCAAAACATGGGCTCGAGATACTCCAAAACCATTGAAGGCTTCAAATATTGTGTATGAAGATATTAACATGATTGATGTCATGAATCCCATTGTCATCGATCAACAATATTGTCCGAACAATCAATGCAATCAACAGGATACTTCATCAAATGTGCAAATCAGCGATGTAACATTCAGAAACATATGGGGAACCTCGTCTTCCCAAGAAGCAGTGACTCTGAAATGCAGCAAAAGCAAGCCATGCAAGAATATAGTGATGGAGAATATCAAGTTACCTCATACTGATTCCAAAGGAGCTGCGACGACTTCCATCTGTAATAATGTCATCGGCAACTCTTATGGCTCACACATCCCTCCTAGTTGCATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28

Protein Analysis

375

Amino Acids

40.81

Weight (kDa)

8.72

Isoelectric Point (pI)

32.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	3 - 222	7.2e-06	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	32 - 361	7.7e-94	Glycosyl hydrolases family 28

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: OG0004190)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G78400
fragaria_vesca	FvH4_3g01611 FvH4_3g01620 FvH4_3g16670 FvH4_6g48250
malus_domestica	MD05G1208400.v1.1 MD10G1194900.v1.1
prunus_persica	Prupe.4G149100_v2.0.a1
pyrus_communis	pycom10g16830
rosa_chinensis	RchiOBHm_Chr5g0002411 RchiOBHm_Chr5g0027771
rosa_laevigata	RLG00000015288 RLG00000031030 RLG00000033042
rosa_multiflora	Rmu_co8379139.1_g000001 Rmu_sc0000920.1_g000006
rosa_roxburghii	Rroxscaffold_1G00051830 Rroxscaffold_1G00051840 Rroxscaffold_1G00073440
rosa_rugosa	Rorug04G0396100 Rorug05G0101000 Rorug05G0517000
rosa_samantha	Rh5AG018900 Rh5AG195300 Rh5BG193600 Rh5CG020800 Rh5CG213900 Rh5DG019900 Rh5DG195600 Rh6CG028000 Rh6DG027300
rosa_wichuraiana	Rw5G001770 Rw5G017820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	122, 544, 639
AclWI	GGATC	2 cut(s)	303, 316
AcoI	YGGCCR	1 cut(s)	301
AcsI	RAATTY	1 cut(s)	708
AfaI	GTAC	1 cut(s)	292
AfiI	CCNNNNNNNGG	3 cut(s)	170, 318, 650
AflII	CTTAAG	1 cut(s)	412
AhlI	ACTAGT	1 cut(s)	215
AluBI	AGCT	3 cut(s)	29, 359, 1055
AluI	AGCT	3 cut(s)	29, 359, 1055
Alw26I	GTCTC	2 cut(s)	327, 566
AlwI	GGATC	2 cut(s)	303, 316
Ama87I	CYCGRG	1 cut(s)	771
AoxI	GGCC	2 cut(s)	180, 301
ApeKI	GCWGC	2 cut(s)	984, 1055
ApoI	RAATTY	1 cut(s)	708
AspS9I	GGNCC	2 cut(s)	161, 641
AsuC2I	CCSGG	3 cut(s)	126, 283, 645
AvaI	CYCGRG	1 cut(s)	771
AvaII	GGWCC	2 cut(s)	161, 641
AxyI	CCTNAGG	1 cut(s)	498
BamHI	GGATCC	1 cut(s)	308
BanII	GRGCYC	1 cut(s)	772
BbsI	GAAGAC	1 cut(s)	948
BbvI	GCAGC	2 cut(s)	996, 1042
BccI	CCATC	5 cut(s)	92, 229, 512, 1009, 1076
BceAI	ACGGC	1 cut(s)	316
BciVI	GTATCC	1 cut(s)	889
BcnI	CCSGG	3 cut(s)	126, 283, 645
BcoDI	GTCTC	2 cut(s)	327, 566
BcuI	ACTAGT	1 cut(s)	215
BfaI	CTAG	2 cut(s)	216, 1116
BfmI	CTRYAG	1 cut(s)	276
BfrI	CTTAAG	1 cut(s)	412
BfuI	GTATCC	1 cut(s)	889
BisI	GCNGC	2 cut(s)	985, 1056
BlsI	GCNGC	2 cut(s)	986, 1057
Bme1390I	CCNGG	3 cut(s)	126, 283, 645
Bme18I	GGWCC	2 cut(s)	161, 641
BmeT110I	CYCGRG	1 cut(s)	771
BmgT120I	GGNCC	2 cut(s)	161, 641
BmiI	GGNNCC	4 cut(s)	310, 495, 643, 949
BmrFI	CCNGG	3 cut(s)	126, 283, 645
BmrI	ACTGGG	1 cut(s)	140
BmsI	GCATC	3 cut(s)	6, 446, 555
BmuI	ACTGGG	1 cut(s)	140
BpiI	GAAGAC	1 cut(s)	948
BpuMI	CCSGG	3 cut(s)	126, 283, 645
Bsa29I	ATCGAT	1 cut(s)	855
BsaI	GGTCTC	2 cut(s)	327, 566
BsaJI	CCNNGG	3 cut(s)	282, 304, 312
Bsc4I	CCNNNNNNNGG	3 cut(s)	170, 318, 650
Bse118I	RCCGGY	1 cut(s)	575
Bse1I	ACTGG	1 cut(s)	146
Bse21I	CCTNAGG	1 cut(s)	498
BseCI	ATCGAT	1 cut(s)	855
BseDI	CCNNGG	3 cut(s)	282, 304, 312
BseGI	GGATG	3 cut(s)	103, 461, 1107
BseLI	CCNNNNNNNGG	3 cut(s)	170, 318, 650
BseMII	CTCAG	2 cut(s)	171, 489
BseNI	ACTGG	1 cut(s)	146
BseXI	GCAGC	2 cut(s)	996, 1042
BshFI	GGCC	2 cut(s)	182, 303
BshVI	ATCGAT	1 cut(s)	855
BsiHKCI	CYCGRG	1 cut(s)	771
BsiSI	CCGG	4 cut(s)	126, 282, 576, 645
BslFI	GGGAC	1 cut(s)	627
BslI	CCNNNNNNNGG	3 cut(s)	170, 318, 650
BsmAI	GTCTC	2 cut(s)	327, 566
BsmFI	GGGAC	1 cut(s)	627
BsnI	GGCC	2 cut(s)	182, 303
Bso31I	GGTCTC	2 cut(s)	327, 566
BsoBI	CYCGRG	1 cut(s)	771
Bsp1286I	GDGCHC	1 cut(s)	772
Bsp143I	GATC	4 cut(s)	308, 416, 564, 856
BspACI	CCGC	3 cut(s)	122, 544, 639
BspANI	GGCC	2 cut(s)	182, 303
BspCNI	CTCAG	2 cut(s)	170, 490
BspDI	ATCGAT	1 cut(s)	855
BspHI	TCATGA	1 cut(s)	837
BspLI	GGNNCC	4 cut(s)	310, 495, 643, 949
BspPI	GGATC	2 cut(s)	303, 316
BspQI	GCTCTTC	1 cut(s)	97
BspTI	CTTAAG	1 cut(s)	412
BspTNI	GGTCTC	2 cut(s)	327, 566
BsrFI	RCCGGY	1 cut(s)	575
BsrI	ACTGG	1 cut(s)	146
BssAI	RCCGGY	1 cut(s)	575
BssECI	CCNNGG	3 cut(s)	282, 304, 312
BssMI	GATC	4 cut(s)	308, 416, 564, 856
BssT1I	CCWWGG	1 cut(s)	304
Bst4CI	ACNGT	2 cut(s)	277, 506
Bst6I	CTCTTC	1 cut(s)	97
BstAFI	CTTAAG	1 cut(s)	412
BstAPI	GCANNNNNTGC	1 cut(s)	999
BstC8I	GCNNGC	1 cut(s)	995
BstDEI	CTNAG	2 cut(s)	157, 498
BstF5I	GGATG	3 cut(s)	103, 461, 1107
BstKTI	GATC	4 cut(s)	311, 419, 567, 859
BstMAI	GTCTC	2 cut(s)	327, 566
BstMBI	GATC	4 cut(s)	308, 416, 564, 856
BstMWI	GCNNNNNNNGC	2 cut(s)	990, 999
BstNSI	RCATGY	1 cut(s)	90
BstSCI	CCNGG	3 cut(s)	124, 281, 643
BstSFI	CTRYAG	1 cut(s)	276
BstV1I	GCAGC	2 cut(s)	996, 1042
BstV2I	GAAGAC	1 cut(s)	948
BstX2I	RGATCY	1 cut(s)	308
BstYI	RGATCY	1 cut(s)	308
Bsu15I	ATCGAT	1 cut(s)	855
Bsu36I	CCTNAGG	1 cut(s)	498
BsuI	GTATCC	1 cut(s)	889
BsuRI	GGCC	2 cut(s)	182, 303
BsuTUI	ATCGAT	1 cut(s)	855
BtgZI	GCGATG	2 cut(s)	594, 936
BtsCI	GGATG	3 cut(s)	103, 461, 1107
BtsI	GCAGTG	1 cut(s)	975
BtsIMutI	CAGTG	1 cut(s)	975
Cac8I	GCNNGC	1 cut(s)	995
CciI	TCATGA	1 cut(s)	837
Cfr10I	RCCGGY	1 cut(s)	575
Cfr13I	GGNCC	2 cut(s)	161, 641
ClaI	ATCGAT	1 cut(s)	855
Csp6I	GTAC	1 cut(s)	291
CviQI	GTAC	1 cut(s)	291
DdeI	CTNAG	2 cut(s)	157, 498
DpnI	GATC	4 cut(s)	310, 418, 566, 858
DpnII	GATC	4 cut(s)	308, 416, 564, 856
EaeI	YGGCCR	1 cut(s)	301
Eam1104I	CTCTTC	1 cut(s)	97
EarI	CTCTTC	1 cut(s)	97
EciI	GGCGGA	1 cut(s)	111
Eco130I	CCWWGG	1 cut(s)	304
Eco24I	GRGCYC	1 cut(s)	772
Eco31I	GGTCTC	2 cut(s)	327, 566
Eco47I	GGWCC	2 cut(s)	161, 641
Eco81I	CCTNAGG	1 cut(s)	498
Eco88I	CYCGRG	1 cut(s)	771
EcoT14I	CCWWGG	1 cut(s)	304
EcoT38I	GRGCYC	1 cut(s)	772
ErhI	CCWWGG	1 cut(s)	304
FalI	AAGNNNNNCTT	2 cut(s)	455, 487
FaqI	GGGAC	1 cut(s)	627
FauNDI	CATATG	1 cut(s)	941
Fnu4HI	GCNGC	2 cut(s)	985, 1056
FokI	GGATG	3 cut(s)	110, 468, 1094
FriOI	GRGCYC	1 cut(s)	772
Fsp4HI	GCNGC	2 cut(s)	985, 1056
FspBI	CTAG	2 cut(s)	216, 1116
GluI	GCNGC	2 cut(s)	985, 1056
HaeIII	GGCC	2 cut(s)	182, 303
HapII	CCGG	4 cut(s)	126, 282, 576, 645
HinfI	GANTC	5 cut(s)	118, 756, 841, 973, 1043
HpaII	CCGG	4 cut(s)	126, 282, 576, 645
Hpy188I	TCNGA	7 cut(s)	238, 258, 476, 551, 873, 935, 978
Hpy188III	TCNNGA	4 cut(s)	497, 603, 773, 838
Hpy99I	CGWCG	1 cut(s)	1063
HpyAV	CCTTC	2 cut(s)	29, 787
HpyCH4III	ACNGT	2 cut(s)	277, 506
HpyCH4V	TGCA	9 cut(s)	168, 336, 354, 398, 885, 913, 984, 1002, 1122
HpyF10VI	GCNNNNNNNGC	2 cut(s)	990, 999
HpyF3I	CTNAG	2 cut(s)	157, 498
Kzo9I	GATC	4 cut(s)	308, 416, 564, 856
LguI	GCTCTTC	1 cut(s)	97
LmnI	GCTCC	3 cut(s)	26, 499, 1052
Lsp1109I	GCAGC	2 cut(s)	996, 1042
LweI	GCATC	3 cut(s)	6, 446, 555
MaeI	CTAG	2 cut(s)	216, 1116
MaeIII	GTNAC	5 cut(s)	173, 388, 925, 970, 1029
MalI	GATC	4 cut(s)	310, 418, 566, 858
MboI	GATC	4 cut(s)	308, 416, 564, 856
MboII	GAAGA	5 cut(s)	54, 114, 475, 827, 948
MflI	RGATCY	1 cut(s)	308
MhlI	GDGCHC	1 cut(s)	772
MluCI	AATT	7 cut(s)	241, 269, 528, 552, 594, 654, 708
MlyI	GAGTC	1 cut(s)	967
MmeI	TCCRAC	1 cut(s)	643
MnlI	CCTC	9 cut(s)	32, 281, 322, 493, 668, 697, 961, 1044, 1122
MseI	TTAA	5 cut(s)	272, 327, 413, 444, 822
MslI	CAYNNNNRTG	1 cut(s)	91
MspCI	CTTAAG	1 cut(s)	412
MspI	CCGG	4 cut(s)	126, 282, 576, 645
MspR9I	CCNGG	3 cut(s)	126, 283, 645
MwoI	GCNNNNNNNGC	2 cut(s)	990, 999
NciI	CCSGG	3 cut(s)	126, 283, 645
NdeI	CATATG	1 cut(s)	941
NdeII	GATC	4 cut(s)	308, 416, 564, 856
NlaIV	GGNNCC	4 cut(s)	310, 495, 643, 949
NmuCI	GTSAC	1 cut(s)	970
NspI	RCATGY	1 cut(s)	90
PaeR7I	CTCGAG	1 cut(s)	771
PagI	TCATGA	1 cut(s)	837
PciSI	GCTCTTC	1 cut(s)	97
PfeI	GAWTC	4 cut(s)	118, 756, 841, 1043
PfoI	TCCNGGA	1 cut(s)	643
PkrI	GCNGC	2 cut(s)	986, 1057
PleI	GAGTC	1 cut(s)	967
PpsI	GAGTC	1 cut(s)	967
PspN4I	GGNNCC	4 cut(s)	310, 495, 643, 949
PspPI	GGNCC	2 cut(s)	161, 641
PsuI	RGATCY	1 cut(s)	308
RsaI	GTAC	1 cut(s)	292
RsaNI	GTAC	1 cut(s)	291
RseI	CAYNNNNRTG	1 cut(s)	91
SapI	GCTCTTC	1 cut(s)	97
SaqAI	TTAA	5 cut(s)	272, 327, 413, 444, 822
SatI	GCNGC	2 cut(s)	985, 1056
Sau3AI	GATC	4 cut(s)	308, 416, 564, 856
Sau96I	GGNCC	2 cut(s)	161, 641
SchI	GAGTC	1 cut(s)	967
ScrFI	CCNGG	3 cut(s)	126, 283, 645
SduI	GDGCHC	1 cut(s)	772
SetI	ASST	9 cut(s)	31, 114, 163, 292, 361, 450, 953, 1036, 1057
SfaNI	GCATC	3 cut(s)	6, 446, 555
SfcI	CTRYAG	1 cut(s)	276
Sfr274I	CTCGAG	1 cut(s)	771
SinI	GGWCC	2 cut(s)	161, 641
SlaI	CTCGAG	1 cut(s)	771
SmiMI	CAYNNNNRTG	1 cut(s)	91
SmlI	CTYRAG	2 cut(s)	412, 771
SmoI	CTYRAG	2 cut(s)	412, 771
SpeI	ACTAGT	1 cut(s)	215
Sse9I	AATT	7 cut(s)	241, 269, 528, 552, 594, 654, 708
SsiI	CCGC	3 cut(s)	122, 544, 639
SspI	AATATT	2 cut(s)	805, 866
SspMI	CTAG	2 cut(s)	216, 1116
StyD4I	CCNGG	3 cut(s)	124, 281, 643
StyI	CCWWGG	1 cut(s)	304
TaaI	ACNGT	2 cut(s)	277, 506
TaqI	TCGA	3 cut(s)	381, 772, 855
TasI	AATT	7 cut(s)	241, 269, 528, 552, 594, 654, 708
TfiI	GAWTC	4 cut(s)	118, 756, 841, 1043
Tru1I	TTAA	5 cut(s)	272, 327, 413, 444, 822
Tru9I	TTAA	5 cut(s)	272, 327, 413, 444, 822
TscAI	CASTG	1 cut(s)	975
TseFI	GTSAC	1 cut(s)	970
TseI	GCWGC	2 cut(s)	984, 1055
Tsp45I	GTSAC	1 cut(s)	970
TspDTI	ATGAA	5 cut(s)	395, 440, 828, 854, 891
TspRI	CASTG	1 cut(s)	975
Vha464I	CTTAAG	1 cut(s)	412
VpaK11BI	GGWCC	2 cut(s)	161, 641
XapI	RAATTY	1 cut(s)	708
XceI	RCATGY	1 cut(s)	90
XhoI	CTCGAG	1 cut(s)	771
XspI	CTAG	2 cut(s)	216, 1116

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