Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001809

Physical Location & Seq

Genomic Coordinates Reverse (-)

46784022 .. 46787183

Gene Structure 3162 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00252730.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1143 bp

ATGGCAACCGCGAACCCTTTCGATCTGTTGGGCGATGACGACAACGATGACGTAAGTCAACTCGCTGCTAAGGTGGTGGCTCCTGCCGCCGCCGCCCAGCCCAAGAAGGGTGCCCCGGCCCAAGCTGTCCAGCCTGCCAAGTCCGCCAAGCTCCCCTCCAAGCCTCTTCCTCCTGCTCAAGCTGTGAGGGAAGGCGGGCGTGGAGGTGGGCGTGGCGGCGGCCGAGGGTTTGGTGGTGAGGGCCGTGGATATGGCGAGGGGCGTGGGTATGGTGGTCGTGGACGTGGTGGTGGTGGTGGTGGTGGATATGGTGGATATAATCGGGATCGTGGCAGTGATGAGAACACTAATGGTTTCTCTGGTGGAGGGTATAGCAAACCCGAAGACGGGGATAGGGATGTTTCTGAAAGGCGTGGTGGCTACGGGGGACCTCGTGGTTCCTTCCGTGGTGGACGCCGTGGTGGCTTTAGCAATGGAGAGGATGCAGAAGGGGAGCGTCCTCGGAGGACATTTGACCGTCACAGTGGCACTGGACGTGGAGCTAACTTTAAACGTGATGGAGCTGGTCGTGGGAATTGGGGAACTCCCACTGATGAAATTGCTTCGGAGATAGAGGCTGGCACTGAAGTTGAGAAGGATGTTGGTGCTGAGAAGCAGTTGGGAGAGAATGAGGCTGTTGATGCCAGCAAGGAGAATCCTGTGGAAGAGGCAGAAGAGAAGGAGCCTGAGGAAAAGGAGATGACTCTGGAAGAGTATGAGAAGGTTCTTGAAGAGAAGAGGAAGGCTCTGGCTGCACTTAAGACTGAGGAGAGAAAGGTTGATTTGGACAAAGAGTTGAAGTCTATGCAGCAGCTCTCAAGCAAGAAGACAAATGATGAAATTTTTATCAAGCTGGGTTCTGAAAAGGATAAACGCAAGGAAGCTGCTGAGAAGGAGGAGAGAGCCAAGAAGTCTGTTAGCATAAATGAATTCCTGAAGCCTGTTGAAGGGGAGAACCAGAGGTTCTATGGTGGTCGTAATCGGGGCCGTGGAGGCCGTGGTTCAAGAGGTGGAAACAGTGGAGGACATGGAGGTTACTCGAGCAATGTGCAAGCACCGCCCATTGCAGATCCTGGGCACTTCCCATCCCTTGGTGGCAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HABP4_PAI-RBP1 Stm1_N

Protein Analysis

380

Amino Acids

40.07

Weight (kDa)

6.92

Isoelectric Point (pI)

35.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Stm1_N	PF09598	1 - 74	1.2e-21	Stm1
HABP4_PAI-RBP1	PF04774	167 - 273	7.2e-30	Hyaluronan / mRNA binding family

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001809)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G16830 AT4G16830 AT4G16830
fragaria_vesca	FvH4_5g20020 FvH4_5g20020 FvH4_5g20020 FvH4_7g10280
malus_domestica	MD02G1213500.v1.1 MD04G1050100.v1.1 MD06G1049800.v1.1 MD07G1109500.v1.1
prunus_persica	Prupe.2G132500_v2.0.a1 Prupe.5G060200_v2.0.a1 Prupe.5G060200_v2.0.a1 Prupe.5G060200_v2.0.a1
pyrus_communis	pycom04g04410 pycom06g04220 pycom07g09400 pycom12646g00030
rosa_chinensis	RchiOBHm_Chr1g0348031 RchiOBHm_Chr7g0204831 RchiOBHm_Chr7g0204851
rosa_laevigata	RLG00000003428 RLG00000028697
rosa_multiflora	Rmu_sc0002180.1_g000016 Rmu_sc0002180.1_g000023 Rmu_ssc0000263.1_g000007
rosa_roxburghii	Rroxscaffold_3G00252730 Rroxscaffold_4G00307320
rosa_rugosa	Rorug01G0190700 Rorug01G0190800 Rorug07G0086000 Rorug07G0086000 Rorug07G0086100
rosa_samantha	Rh1AG209300 Rh1BG174300 Rh1CG193700 Rh1DG204100 Rh7AG216500 Rh7AG216700 Rh7BG213600 Rh7CG230000 Rh7DG224100 Rh7DG224300
rosa_wichuraiana	Rw1G017440 Rw7G018760 Rw7G018780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	110
AccB7I	CCANNNNNTGG	1 cut(s)	1130
AccII	CGCG	1 cut(s)	11
AciI	CCGC	9 cut(s)	9, 87, 90, 93, 144, 195, 216, 219, 1097
AclWI	GGATC	2 cut(s)	333, 1103
AcoI	YGGCCR	1 cut(s)	220
AcsI	RAATTY	2 cut(s)	879, 968
AcuI	CTGAAG	2 cut(s)	645, 995
AcyI	GRCGYC	1 cut(s)	454
AfiI	CCNNNNNNNGG	5 cut(s)	107, 386, 387, 986, 1130
AflII	CTTAAG	1 cut(s)	797
AgsI	TTSAA	4 cut(s)	770, 838, 986, 1044
AjiI	CACGTC	2 cut(s)	284, 536
AjnI	CCWGG	1 cut(s)	1111
AluBI	AGCT	8 cut(s)	125, 151, 182, 542, 563, 853, 892, 923
AluI	AGCT	8 cut(s)	125, 151, 182, 542, 563, 853, 892, 923
AlwI	GGATC	2 cut(s)	333, 1103
AlwNI	CAGNNNCTG	1 cut(s)	1112
Ama87I	CYCGRG	1 cut(s)	1078
AoxI	GGCC	5 cut(s)	117, 220, 241, 1024, 1033
ApeKI	GCWGC	5 cut(s)	65, 791, 847, 850, 923
ApoI	RAATTY	2 cut(s)	879, 968
Asp700I	GAANNNNTTC	1 cut(s)	17
AspS9I	GGNCC	4 cut(s)	118, 241, 428, 1024
AsuC2I	CCSGG	1 cut(s)	116
AsuHPI	GGTGA	1 cut(s)	248
AvaI	CYCGRG	1 cut(s)	1078
AvaII	GGWCC	1 cut(s)	428
AxyI	CCTNAGG	1 cut(s)	726
BaeGI	GKGCMC	2 cut(s)	115, 1119
BanI	GGYRCC	1 cut(s)	110
BauI	CACGAG	1 cut(s)	432
BbsI	GAAGAC	2 cut(s)	390, 872
BbvI	GCAGC	5 cut(s)	52, 778, 859, 862, 910
BccI	CCATC	2 cut(s)	551, 1132
BceAI	ACGGC	4 cut(s)	228, 441, 1011, 1020
BcgI	CGANNNNNNTGC	2 cut(s)	1069, 1103
BciT130I	CCWGG	1 cut(s)	1113
BcnI	CCSGG	1 cut(s)	116
BfrI	CTTAAG	1 cut(s)	797
BglI	GCCNNNNNGGC	2 cut(s)	462, 1032
Bme1390I	CCNGG	2 cut(s)	116, 1113
Bme18I	GGWCC	1 cut(s)	428
BmeT110I	CYCGRG	1 cut(s)	1078
BmgBI	CACGTC	2 cut(s)	284, 536
BmgT120I	GGNCC	4 cut(s)	118, 241, 428, 1024
BmiI	GGNNCC	6 cut(s)	81, 112, 429, 439, 723, 1025
BmrFI	CCNGG	2 cut(s)	116, 1113
BmsI	GCATC	2 cut(s)	472, 670
BoxI	GACNNNNGTC	1 cut(s)	54
BpiI	GAAGAC	2 cut(s)	390, 872
BplI	GAGNNNNNCTC	2 cut(s)	769, 801
Bpu10I	CCTNAGC	1 cut(s)	69
BpuEI	CTTGAG	2 cut(s)	162, 841
BpuMI	CCSGG	1 cut(s)	116
BsaHI	GRCGYC	1 cut(s)	454
Bsc4I	CCNNNNNNNGG	5 cut(s)	107, 386, 387, 986, 1130
Bse1I	ACTGG	1 cut(s)	535
Bse21I	CCTNAGG	1 cut(s)	726
Bse3DI	GCAATG	3 cut(s)	478, 1090, 1101
BseBI	CCWGG	1 cut(s)	1113
BseGI	GGATG	4 cut(s)	403, 487, 643, 1124
BseLI	CCNNNNNNNGG	5 cut(s)	107, 386, 387, 986, 1130
BseMI	GCAATG	3 cut(s)	478, 1090, 1101
BseMII	CTCAG	4 cut(s)	639, 717, 795, 918
BseNI	ACTGG	1 cut(s)	535
BseRI	GAGGAG	2 cut(s)	821, 950
BseSI	GKGCMC	2 cut(s)	115, 1119
BseX3I	CGGCCG	1 cut(s)	220
BseXI	GCAGC	5 cut(s)	52, 778, 859, 862, 910
BseYI	CCCAGC	2 cut(s)	96, 892
BsgI	GTGCAG	1 cut(s)	777
Bsh1236I	CGCG	1 cut(s)	11
Bsh1285I	CGRYCG	1 cut(s)	223
BshFI	GGCC	5 cut(s)	119, 222, 243, 1026, 1035
BshNI	GGYRCC	1 cut(s)	110
BsiEI	CGRYCG	1 cut(s)	223
BsiHKCI	CYCGRG	1 cut(s)	1078
BsiSI	CCGG	1 cut(s)	116
BslFI	GGGAC	1 cut(s)	441
BslI	CCNNNNNNNGG	5 cut(s)	107, 386, 387, 986, 1130
BsmFI	GGGAC	1 cut(s)	441
BsnI	GGCC	5 cut(s)	119, 222, 243, 1026, 1035
BsoBI	CYCGRG	1 cut(s)	1078
Bsp1286I	GDGCHC	2 cut(s)	115, 1119
Bsp143I	GATC	3 cut(s)	22, 325, 1108
BspACI	CCGC	9 cut(s)	9, 87, 90, 93, 144, 195, 216, 219, 1097
BspANI	GGCC	5 cut(s)	119, 222, 243, 1026, 1035
BspCNI	CTCAG	4 cut(s)	640, 718, 796, 919
BspFNI	CGCG	1 cut(s)	11
BspLI	GGNNCC	6 cut(s)	81, 112, 429, 439, 723, 1025
BspPI	GGATC	2 cut(s)	333, 1103
BspT107I	GGYRCC	1 cut(s)	110
BspTI	CTTAAG	1 cut(s)	797
BsrDI	GCAATG	3 cut(s)	478, 1090, 1101
BsrI	ACTGG	1 cut(s)	535
BssMI	GATC	3 cut(s)	22, 325, 1108
BssNI	GRCGYC	1 cut(s)	454
BssSI	CACGAG	1 cut(s)	432
BssT1I	CCWWGG	1 cut(s)	1129
Bst2BI	CACGAG	1 cut(s)	432
Bst2UI	CCWGG	1 cut(s)	1113
Bst4CI	ACNGT	3 cut(s)	518, 524, 1058
Bst6I	CTCTTC	6 cut(s)	171, 699, 708, 744, 765, 770
BstACI	GRCGYC	1 cut(s)	454
BstAFI	CTTAAG	1 cut(s)	797
BstC8I	GCNNGC	5 cut(s)	135, 197, 619, 685, 1092
BstDEI	CTNAG	5 cut(s)	69, 648, 726, 804, 927
BstDSI	CCRYGG	5 cut(s)	244, 445, 457, 1027, 1036
BstENI	CCTNNNNNAGG	1 cut(s)	984
BstF5I	GGATG	4 cut(s)	403, 487, 643, 1124
BstFNI	CGCG	1 cut(s)	11
BstKTI	GATC	3 cut(s)	25, 328, 1111
BstMBI	GATC	3 cut(s)	22, 325, 1108
BstMCI	CGRYCG	1 cut(s)	223
BstMWI	GCNNNNNNNGC	8 cut(s)	86, 92, 143, 462, 680, 791, 1032, 1096
BstNI	CCWGG	1 cut(s)	1113
BstPAI	GACNNNNGTC	1 cut(s)	54
BstSCI	CCNGG	2 cut(s)	114, 1111
BstSLI	GKGCMC	2 cut(s)	115, 1119
BstUI	CGCG	1 cut(s)	11
BstV1I	GCAGC	5 cut(s)	52, 778, 859, 862, 910
BstV2I	GAAGAC	2 cut(s)	390, 872
BstX2I	RGATCY	1 cut(s)	1108
BstYI	RGATCY	1 cut(s)	1108
BstZI	CGGCCG	1 cut(s)	220
Bsu36I	CCTNAGG	1 cut(s)	726
BsuRI	GGCC	5 cut(s)	119, 222, 243, 1026, 1035
BtgI	CCRYGG	5 cut(s)	244, 445, 457, 1027, 1036
BtgZI	GCGATG	1 cut(s)	48
BtrI	CACGTC	2 cut(s)	284, 536
BtsCI	GGATG	4 cut(s)	403, 487, 643, 1124
BtsI	GCAGTG	1 cut(s)	340
BtsIMutI	CAGTG	6 cut(s)	340, 528, 529, 588, 621, 1063
Cac8I	GCNNGC	5 cut(s)	135, 197, 619, 685, 1092
CaiI	CAGNNNCTG	1 cut(s)	1112
Cfr13I	GGNCC	4 cut(s)	118, 241, 428, 1024
CseI	GACGC	2 cut(s)	462, 485
CviAII	CATG	1 cut(s)	1067
DdeI	CTNAG	5 cut(s)	69, 648, 726, 804, 927
DpnI	GATC	3 cut(s)	24, 327, 1110
DpnII	GATC	3 cut(s)	22, 325, 1108
DraI	TTTAAA	1 cut(s)	550
EaeI	YGGCCR	1 cut(s)	220
EagI	CGGCCG	1 cut(s)	220
Eam1104I	CTCTTC	6 cut(s)	171, 699, 708, 744, 765, 770
EarI	CTCTTC	6 cut(s)	171, 699, 708, 744, 765, 770
EciI	GGCGGA	1 cut(s)	133
EclXI	CGGCCG	1 cut(s)	220
Eco130I	CCWWGG	1 cut(s)	1129
Eco47I	GGWCC	1 cut(s)	428
Eco52I	CGGCCG	1 cut(s)	220
Eco57I	CTGAAG	2 cut(s)	645, 995
Eco81I	CCTNAGG	1 cut(s)	726
Eco88I	CYCGRG	1 cut(s)	1078
EcoNI	CCTNNNNNAGG	1 cut(s)	984
EcoO109I	RGGNCCY	1 cut(s)	428
EcoRI	GAATTC	1 cut(s)	968
EcoRII	CCWGG	1 cut(s)	1111
EcoT14I	CCWWGG	1 cut(s)	1129
ErhI	CCWWGG	1 cut(s)	1129
FaeI	CATG	1 cut(s)	1070
FaqI	GGGAC	1 cut(s)	441
FatI	CATG	1 cut(s)	1066
FauI	CCCGC	1 cut(s)	188
FokI	GGATG	4 cut(s)	410, 494, 650, 1111
GsaI	CCCAGC	2 cut(s)	100, 896
HaeIII	GGCC	5 cut(s)	119, 222, 243, 1026, 1035
HapII	CCGG	1 cut(s)	116
HgaI	GACGC	2 cut(s)	462, 485
Hin1I	GRCGYC	1 cut(s)	454
Hin1II	CATG	1 cut(s)	1070
HincII	GTYRAC	1 cut(s)	59
HindII	GTYRAC	1 cut(s)	59
HinfI	GANTC	2 cut(s)	694, 742
HpaII	CCGG	1 cut(s)	116
HphI	GGTGA	1 cut(s)	248
Hpy166II	GTNNAC	3 cut(s)	59, 281, 452
Hpy188I	TCNGA	4 cut(s)	406, 504, 607, 901
Hpy188III	TCNNGA	5 cut(s)	323, 746, 767, 973, 1044
Hpy8I	GTNNAC	3 cut(s)	59, 281, 452
HpyCH4III	ACNGT	3 cut(s)	518, 524, 1058
HpyCH4IV	ACGT	4 cut(s)	51, 283, 535, 553
HpyCH4V	TGCA	5 cut(s)	485, 794, 847, 1090, 1106
HpyF10VI	GCNNNNNNNGC	8 cut(s)	86, 92, 143, 462, 680, 791, 1032, 1096
HpyF3I	CTNAG	5 cut(s)	69, 648, 726, 804, 927
HpySE526I	ACGT	4 cut(s)	51, 283, 535, 553
Hsp92I	GRCGYC	1 cut(s)	454
Hsp92II	CATG	1 cut(s)	1070
Kzo9I	GATC	3 cut(s)	22, 325, 1108
LmnI	GCTCC	6 cut(s)	85, 156, 493, 539, 560, 721
Lsp1109I	GCAGC	5 cut(s)	52, 778, 859, 862, 910
LweI	GCATC	2 cut(s)	472, 670
MaeII	ACGT	4 cut(s)	51, 283, 535, 553
MaeIII	GTNAC	2 cut(s)	518, 1073
MalI	GATC	3 cut(s)	24, 327, 1110
MboI	GATC	3 cut(s)	22, 325, 1108
MboII	GAAGA	8 cut(s)	158, 395, 716, 725, 761, 782, 787, 877
MflI	RGATCY	1 cut(s)	1108
MhlI	GDGCHC	2 cut(s)	115, 1119
MluCI	AATT	4 cut(s)	574, 597, 879, 968
MlyI	GAGTC	1 cut(s)	736
MroXI	GAANNNNTTC	1 cut(s)	17
MseI	TTAA	2 cut(s)	549, 798
MspCI	CTTAAG	1 cut(s)	797
MspI	CCGG	1 cut(s)	116
MspR9I	CCNGG	2 cut(s)	116, 1113
MvaI	CCWGG	1 cut(s)	1113
MvnI	CGCG	1 cut(s)	11
MwoI	GCNNNNNNNGC	8 cut(s)	86, 92, 143, 462, 680, 791, 1032, 1096
NciI	CCSGG	1 cut(s)	116
NdeII	GATC	3 cut(s)	22, 325, 1108
NlaIII	CATG	1 cut(s)	1070
NlaIV	GGNNCC	6 cut(s)	81, 112, 429, 439, 723, 1025
NmeAIII	GCCGAG	1 cut(s)	248
NmuCI	GTSAC	1 cut(s)	518
PaeR7I	CTCGAG	1 cut(s)	1078
PdmI	GAANNNNTTC	1 cut(s)	17
PfeI	GAWTC	1 cut(s)	694
PflMI	CCANNNNNTGG	1 cut(s)	1130
PleI	GAGTC	1 cut(s)	736
PpsI	GAGTC	1 cut(s)	736
PpuMI	RGGWCCY	1 cut(s)	428
PshAI	GACNNNNGTC	1 cut(s)	54
Psp5II	RGGWCCY	1 cut(s)	428
Psp6I	CCWGG	1 cut(s)	1111
PspFI	CCCAGC	2 cut(s)	96, 892
PspGI	CCWGG	1 cut(s)	1111
PspN4I	GGNNCC	6 cut(s)	81, 112, 429, 439, 723, 1025
PspPI	GGNCC	4 cut(s)	118, 241, 428, 1024
PspPPI	RGGWCCY	1 cut(s)	428
PspXI	VCTCGAGB	1 cut(s)	1078
PstNI	CAGNNNCTG	1 cut(s)	1112
PsuI	RGATCY	1 cut(s)	1108
SaqAI	TTAA	2 cut(s)	549, 798
Sau3AI	GATC	3 cut(s)	22, 325, 1108
Sau96I	GGNCC	4 cut(s)	118, 241, 428, 1024
SchI	GAGTC	1 cut(s)	736
ScrFI	CCNGG	2 cut(s)	116, 1113
SduI	GDGCHC	2 cut(s)	115, 1119
SfaNI	GCATC	2 cut(s)	472, 670
SfiI	GGCCNNNNNGGCC	1 cut(s)	1032
Sfr274I	CTCGAG	1 cut(s)	1078
SinI	GGWCC	1 cut(s)	428
SlaI	CTCGAG	1 cut(s)	1078
SmlI	CTYRAG	4 cut(s)	177, 797, 856, 1078
SmoI	CTYRAG	4 cut(s)	177, 797, 856, 1078
Sse9I	AATT	4 cut(s)	574, 597, 879, 968
SsiI	CCGC	9 cut(s)	9, 87, 90, 93, 144, 195, 216, 219, 1097
StyD4I	CCNGG	2 cut(s)	114, 1111
StyI	CCWWGG	1 cut(s)	1129
TaaI	ACNGT	3 cut(s)	518, 524, 1058
TaiI	ACGT	4 cut(s)	54, 286, 538, 556
TaqI	TCGA	2 cut(s)	21, 1079
TasI	AATT	4 cut(s)	574, 597, 879, 968
TauI	GCSGC	5 cut(s)	89, 92, 95, 219, 222
TfiI	GAWTC	1 cut(s)	694
Tru1I	TTAA	2 cut(s)	549, 798
Tru9I	TTAA	2 cut(s)	549, 798
TscAI	CASTG	6 cut(s)	340, 529, 535, 595, 628, 1063
TseFI	GTSAC	1 cut(s)	518
TseI	GCWGC	5 cut(s)	65, 791, 847, 850, 923
Tsp45I	GTSAC	1 cut(s)	518
TspDTI	ATGAA	3 cut(s)	609, 891, 981
TspGWI	ACGGA	1 cut(s)	434
TspRI	CASTG	6 cut(s)	340, 529, 535, 595, 628, 1063
Van91I	CCANNNNNTGG	1 cut(s)	1130
Vha464I	CTTAAG	1 cut(s)	797
VpaK11BI	GGWCC	1 cut(s)	428
XagI	CCTNNNNNAGG	1 cut(s)	984
XapI	RAATTY	2 cut(s)	879, 968
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1004
XhoI	CTCGAG	1 cut(s)	1078
XmnI	GAANNNNTTC	1 cut(s)	17

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