Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0006149

Physical Location & Seq

Genomic Coordinates Forward (+)

37019857 .. 37022177

Gene Structure 2321 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0213200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1341 bp

ATGGAGAAGGAAGAGAACAACTACTCGGCTGCTTTCCTGCCAACTAACTTTAACGGTCTGGATTACACCTTAGACCACCATCATGATGAAGATCAGCAGCAGCAGCAGATGAACTCATGCCATGTCGACCAGACTTCTTCGAGTCACGAAAACAACAACAATGGAATGATCAATTACTTGATGAATGATCATCACCATGATCAGCTTCAACTTCAACATCAACAACCACAGCAGACGCAACATCCTCCTCCGGCAGGGTTTAGTGGTGCTTCAACTACTTCTTTTGATAAGCTGAGCTTCGCCGACGTGATGCAGTTTGCCGATTTTGGACCCAAACTAGCCTTAAACCAAACCAAGATCTCAGAAGAAGAATCCGGGATTGACCCGGTTTACTTCCTCAAGTTTCCGGTTTTAAACGACAAGTTGGACGACGATGACGATCAGTCTCTGATGGTTCTGAGGCAGGATGGACCAGACAGTCATCAGGAAGAGAGATTTACAAAGTCCGGGGAAGAAGAGGAAACTCGAGGGGTTTCGGGTAGTACTAATTCGGTCCAGCTCCGGTTTCTTGGAGATGATGTTCCAAACCCTAGAGGAGGACTACCGGAGCTGCCAAAGAACAAGAGGAAAAGACCAAGAAGTACTAAGACGAGTCAGGAAGTTGAGAGCCAGAGGATGACTCACATCGCCGTTGAGAGGAACCGAAGGAAGCAAATGAATGAGCATCTTCGAGTGCTCAGGTCCCTCATGCCCGGTTCATATGTACAAAGGGGGGATCAAGCTTCTATTATTGGAGGAGCCATAGACTTTGTTAGAGAATTGGAGCAGCTCCTGCAGTGCTTGGAATCACAGAAGCGGAGAAGGCTCTTAGGTGAAGCGCCTCCTCCGAGACAAGTGGGAGCTGACCCTACTGCGGCGGCTAATATGGCGGTGCTACCTTCACAGCCAGATCATCAAGGCGGTGGTGGTGTGCCGTTCTTTCCGGCTCCTAATCTGCCTCTTAATCCAAATGATCCAATCAAGTTTGTGGACTTTGAAACGGGGCTCCGCGAAGAAACTGCCGAGATCAAGTCGTGCTTCGCAGATGTTGAAGTGAAGGTTTTAGGGGGTGATGCCATGATCAAGATTCTTTCTCAGAGAAGACCGGGCCAGCTCATTAAGGCCATTGCTGCCCTTGAAGATTTGCAGCTTAAAATTCTTCACACTAACATCACCACCATCGAACAAACTGTTCTATATTGCTTTAAGGTTGCAAGTGAATCGAGGTTCACGGCTGAAGATATAGCAAGTTCGGTTCAGCAGATATTCAGCTTTATCCATGCAAACACCGCCAGCGTGTGA

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

YTH

Protein Analysis

446

Amino Acids

49.92

Weight (kDa)

5.29

Isoelectric Point (pI)

56.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	224 - 275	1.9e-11	Helix-loop-helix DNA-binding domain
bHLH-TF_ACT-like_plant	PF22754	362 - 436	6.4e-08	Plant bHLH transcription factor, ACT-like domain

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: OG0006149)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G48110 AT1G48110
fragaria_vesca	FvH4_4g21030 FvH4_4g21030
malus_domestica	MD13G1146000.v1.1 MD16G1140100.v1.1
prunus_persica	Prupe.1G109700_v2.0.a1 Prupe.1G109700_v2.0.a1 Prupe.1G109700_v2.0.a1 Prupe.1G109700_v2.0.a1 Prupe.1G109700_v2.0.a1
pyrus_communis	pycom13g12550 pycom13g12560 pycom16g12420
rosa_chinensis	RchiOBHm_Chr4g0426561
rosa_laevigata	RLG00000007290
rosa_multiflora	Rmu_sc0001821.1_g000008
rosa_roxburghii	Rroxscaffold_5G00368570
rosa_rugosa	Rorug04G0213100 Rorug04G0213200 Rorug04G0213300 Rorug04G0213400
rosa_samantha	Rh4AG268600 Rh4BG274900 Rh4CG289200 Rh4DG271700
rosa_wichuraiana	Rw4G023300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	477
AccI	GTMKAC	1 cut(s)	126
AccII	CGCG	1 cut(s)	1050
AciI	CCGC	7 cut(s)	856, 914, 917, 929, 960, 1048, 1329
AclWI	GGATC	2 cut(s)	783, 1007
AcsI	RAATTY	1 cut(s)	1194
AcuI	CTGAAG	1 cut(s)	1296
AfaI	GTAC	3 cut(s)	544, 643, 765
AfiI	CCNNNNNNNGG	4 cut(s)	254, 596, 696, 913
AgsI	TTSAA	6 cut(s)	209, 215, 273, 1037, 1091, 1178
AhdI	GACNNNNNGTC	1 cut(s)	442
AjiI	CACGTC	1 cut(s)	307
AloI	GAACNNNNNNTCC	2 cut(s)	564, 596
Alw21I	GWGCWC	1 cut(s)	738
Alw26I	GTCTC	2 cut(s)	450, 883
AlwI	GGATC	2 cut(s)	783, 1007
AlwNI	CAGNNNCTG	2 cut(s)	448, 832
Ama87I	CYCGRG	1 cut(s)	525
AoxI	GGCC	2 cut(s)	1147, 1161
ApeKI	GCWGC	8 cut(s)	29, 97, 100, 103, 610, 826, 1169, 1186
ApoI	RAATTY	1 cut(s)	1194
AspLEI	GCGC	1 cut(s)	880
AspS9I	GGNCC	5 cut(s)	329, 470, 553, 741, 1147
AsuC2I	CCSGG	5 cut(s)	376, 386, 508, 753, 1146
AsuHPI	GGTGA	4 cut(s)	185, 884, 1121, 1204
AvaI	CYCGRG	1 cut(s)	525
AvaII	GGWCC	4 cut(s)	329, 470, 553, 741
BanII	GRGCYC	1 cut(s)	1047
BbsI	GAAGAC	1 cut(s)	1147
Bbv12I	GWGCWC	1 cut(s)	738
BbvI	GCAGC	8 cut(s)	16, 109, 112, 115, 597, 838, 1156, 1198
BccI	CCATC	4 cut(s)	87, 445, 461, 1226
BceAI	ACGGC	3 cut(s)	674, 958, 1287
BcgI	CGANNNNNNTGC	4 cut(s)	1040, 1074, 1242, 1276
BclI	TGATCA	4 cut(s)	168, 187, 199, 1119
BcnI	CCSGG	5 cut(s)	376, 386, 508, 753, 1146
BcoDI	GTCTC	2 cut(s)	450, 883
BfaI	CTAG	2 cut(s)	338, 591
BfmI	CTRYAG	1 cut(s)	833
BfoI	RGCGCY	1 cut(s)	881
BglII	AGATCT	1 cut(s)	357
BlpI	GCTNAGC	1 cut(s)	293
BmcAI	AGTACT	2 cut(s)	544, 643
Bme1390I	CCNGG	5 cut(s)	376, 386, 508, 753, 1146
Bme18I	GGWCC	4 cut(s)	329, 470, 553, 741
BmeRI	GACNNNNNGTC	1 cut(s)	442
BmeT110I	CYCGRG	1 cut(s)	525
BmgBI	CACGTC	1 cut(s)	307
BmgT120I	GGNCC	5 cut(s)	329, 470, 553, 741, 1147
BmiI	GGNNCC	6 cut(s)	331, 701, 743, 799, 987, 1046
BmrFI	CCNGG	5 cut(s)	376, 386, 508, 753, 1146
BmsI	GCATC	3 cut(s)	300, 733, 1102
BpiI	GAAGAC	1 cut(s)	1147
BplI	GAGNNNNNCTC	2 cut(s)	664, 696
Bpu10I	CCTNAGC	1 cut(s)	737
Bpu1102I	GCTNAGC	1 cut(s)	293
BpuEI	CTTGAG	1 cut(s)	383
BpuMI	CCSGG	5 cut(s)	376, 386, 508, 753, 1146
BsaBI	GATNNNNATC	2 cut(s)	90, 438
BsaJI	CCNNGG	1 cut(s)	507
BsaWI	WCCGGW	3 cut(s)	406, 561, 604
BsaXI	ACNNNNNCTCC	2 cut(s)	564, 594
Bsc4I	CCNNNNNNNGG	4 cut(s)	254, 596, 696, 913
Bse3DI	GCAATG	1 cut(s)	1164
Bse8I	GATNNNNATC	2 cut(s)	90, 438
BseDI	CCNNGG	1 cut(s)	507
BseGI	GGATG	3 cut(s)	241, 472, 681
BseJI	GATNNNNATC	2 cut(s)	90, 438
BseLI	CCNNNNNNNGG	4 cut(s)	254, 596, 696, 913
BseMI	GCAATG	1 cut(s)	1164
BseMII	CTCAG	5 cut(s)	284, 375, 449, 751, 1148
BseRI	GAGGAG	4 cut(s)	237, 609, 810, 873
BseXI	GCAGC	8 cut(s)	16, 109, 112, 115, 597, 838, 1156, 1198
Bsh1236I	CGCG	1 cut(s)	1050
BshFI	GGCC	2 cut(s)	1149, 1163
BsiHKAI	GWGCWC	1 cut(s)	738
BsiHKCI	CYCGRG	1 cut(s)	525
BslFI	GGGAC	1 cut(s)	727
BslI	CCNNNNNNNGG	4 cut(s)	254, 596, 696, 913
BsmAI	GTCTC	2 cut(s)	450, 883
BsmFI	GGGAC	1 cut(s)	727
BsnI	GGCC	2 cut(s)	1149, 1163
BsoBI	CYCGRG	1 cut(s)	525
Bsp1286I	GDGCHC	2 cut(s)	738, 1047
Bsp1407I	TGTACA	1 cut(s)	763
Bsp1720I	GCTNAGC	1 cut(s)	293
BspACI	CCGC	7 cut(s)	856, 914, 917, 929, 960, 1048, 1329
BspANI	GGCC	2 cut(s)	1149, 1163
BspCNI	CTCAG	5 cut(s)	285, 374, 450, 750, 1147
BspFNI	CGCG	1 cut(s)	1050
BspHI	TCATGA	1 cut(s)	82
BspLI	GGNNCC	6 cut(s)	331, 701, 743, 799, 987, 1046
BspMAI	CTGCAG	1 cut(s)	837
BspPI	GGATC	2 cut(s)	783, 1007
BsrDI	GCAATG	1 cut(s)	1164
BsrGI	TGTACA	1 cut(s)	763
BssECI	CCNNGG	1 cut(s)	507
Bst4CI	ACNGT	3 cut(s)	56, 479, 1231
Bst6I	CTCTTC	3 cut(s)	6, 483, 510
BstAPI	GCANNNNNTGC	1 cut(s)	832
BstAUI	TGTACA	1 cut(s)	763
BstC8I	GCNNGC	2 cut(s)	1151, 1333
BstDEI	CTNAG	8 cut(s)	70, 293, 361, 458, 645, 737, 868, 1134
BstENI	CCTNNNNNAGG	2 cut(s)	252, 594
BstF5I	GGATG	3 cut(s)	241, 472, 681
BstFNI	CGCG	1 cut(s)	1050
BstH2I	RGCGCY	1 cut(s)	881
BstHHI	GCGC	1 cut(s)	880
BstMAI	GTCTC	2 cut(s)	450, 883
BstMWI	GCNNNNNNNGC	6 cut(s)	103, 832, 862, 926, 1169, 1328
BstSCI	CCNGG	5 cut(s)	374, 384, 506, 751, 1144
BstSFI	CTRYAG	1 cut(s)	833
BstUI	CGCG	1 cut(s)	1050
BstV1I	GCAGC	8 cut(s)	16, 109, 112, 115, 597, 838, 1156, 1198
BstV2I	GAAGAC	1 cut(s)	1147
BstX2I	RGATCY	1 cut(s)	357
BstYI	RGATCY	1 cut(s)	357
BsuRI	GGCC	2 cut(s)	1149, 1163
BtgZI	GCGATG	1 cut(s)	670
BtrI	CACGTC	1 cut(s)	307
BtsCI	GGATG	3 cut(s)	241, 472, 681
BtsI	GCAGTG	1 cut(s)	842
BtsIMutI	CAGTG	1 cut(s)	842
Cac8I	GCNNGC	2 cut(s)	1151, 1333
CaiI	CAGNNNCTG	2 cut(s)	448, 832
CciI	TCATGA	1 cut(s)	82
CfoI	GCGC	1 cut(s)	880
Cfr13I	GGNCC	5 cut(s)	329, 470, 553, 741, 1147
CseI	GACGC	1 cut(s)	244
Csp6I	GTAC	3 cut(s)	543, 642, 764
CviAII	CATG	7 cut(s)	83, 117, 122, 197, 748, 1117, 1319
CviQI	GTAC	3 cut(s)	543, 642, 764
DdeI	CTNAG	8 cut(s)	70, 293, 361, 458, 645, 737, 868, 1134
DraI	TTTAAA	1 cut(s)	414
DrdI	GACNNNNNNGTC	1 cut(s)	477
DriI	GACNNNNNGTC	1 cut(s)	442
DseDI	GACNNNNNNGTC	1 cut(s)	477
Eam1104I	CTCTTC	3 cut(s)	6, 483, 510
Eam1105I	GACNNNNNGTC	1 cut(s)	442
EarI	CTCTTC	3 cut(s)	6, 483, 510
Eco24I	GRGCYC	1 cut(s)	1047
Eco47I	GGWCC	4 cut(s)	329, 470, 553, 741
Eco57I	CTGAAG	1 cut(s)	1296
Eco88I	CYCGRG	1 cut(s)	525
EcoNI	CCTNNNNNAGG	2 cut(s)	252, 594
EcoO109I	RGGNCCY	1 cut(s)	741
EcoT38I	GRGCYC	1 cut(s)	1047
FaeI	CATG	7 cut(s)	86, 120, 125, 200, 751, 1120, 1322
FalI	AAGNNNNNCTT	4 cut(s)	281, 313, 1061, 1093
FaqI	GGGAC	1 cut(s)	727
FatI	CATG	7 cut(s)	82, 116, 121, 196, 747, 1116, 1318
FauNDI	CATATG	1 cut(s)	760
FbaI	TGATCA	4 cut(s)	168, 187, 199, 1119
FblI	GTMKAC	1 cut(s)	126
FokI	GGATG	3 cut(s)	228, 479, 688
FriOI	GRGCYC	1 cut(s)	1047
FspBI	CTAG	2 cut(s)	338, 591
GlaI	GCGC	1 cut(s)	879
HaeII	RGCGCY	1 cut(s)	881
HaeIII	GGCC	2 cut(s)	1149, 1163
HgaI	GACGC	1 cut(s)	244
HhaI	GCGC	1 cut(s)	880
Hin1II	CATG	7 cut(s)	86, 120, 125, 200, 751, 1120, 1322
Hin6I	GCGC	1 cut(s)	878
HinP1I	GCGC	1 cut(s)	878
HincII	GTYRAC	1 cut(s)	127
HindII	GTYRAC	1 cut(s)	127
HindIII	AAGCTT	1 cut(s)	780
HinfI	GANTC	7 cut(s)	142, 371, 652, 679, 845, 1126, 1259
HphI	GGTGA	4 cut(s)	185, 884, 1121, 1204
Hpy166II	GTNNAC	4 cut(s)	127, 391, 1030, 1269
Hpy188I	TCNGA	5 cut(s)	364, 450, 459, 888, 1137
Hpy188III	TCNNGA	6 cut(s)	59, 83, 146, 485, 656, 1123
Hpy8I	GTNNAC	4 cut(s)	127, 391, 1030, 1269
Hpy99I	CGWCG	2 cut(s)	308, 434
HpyAV	CCTTC	4 cut(s)	699, 855, 948, 1090
HpyCH4III	ACNGT	3 cut(s)	56, 479, 1231
HpyCH4IV	ACGT	1 cut(s)	306
HpyCH4V	TGCA	5 cut(s)	313, 835, 1186, 1253, 1322
HpyF10VI	GCNNNNNNNGC	6 cut(s)	103, 832, 862, 926, 1169, 1328
HpyF3I	CTNAG	8 cut(s)	70, 293, 361, 458, 645, 737, 868, 1134
HpySE526I	ACGT	1 cut(s)	306
Hsp92II	CATG	7 cut(s)	86, 120, 125, 200, 751, 1120, 1322
HspAI	GCGC	1 cut(s)	878
Ksp22I	TGATCA	4 cut(s)	168, 187, 199, 1119
LmnI	GCTCC	8 cut(s)	564, 607, 797, 823, 834, 899, 991, 1050
Lsp1109I	GCAGC	8 cut(s)	16, 109, 112, 115, 597, 838, 1156, 1198
LweI	GCATC	3 cut(s)	300, 733, 1102
MaeI	CTAG	2 cut(s)	338, 591
MaeII	ACGT	1 cut(s)	306
MaeIII	GTNAC	1 cut(s)	143
MflI	RGATCY	1 cut(s)	357
MhlI	GDGCHC	2 cut(s)	738, 1047
MluCI	AATT	4 cut(s)	172, 547, 818, 1194
MlyI	GAGTC	3 cut(s)	151, 661, 673
MmeI	TCCRAC	1 cut(s)	405
MseI	TTAA	7 cut(s)	51, 344, 413, 1002, 1158, 1191, 1245
MslI	CAYNNNNRTG	3 cut(s)	81, 84, 195
MspR9I	CCNGG	5 cut(s)	376, 386, 508, 753, 1146
MvnI	CGCG	1 cut(s)	1050
MwoI	GCNNNNNNNGC	6 cut(s)	103, 832, 862, 926, 1169, 1328
NciI	CCSGG	5 cut(s)	376, 386, 508, 753, 1146
NdeI	CATATG	1 cut(s)	760
NlaIII	CATG	7 cut(s)	86, 120, 125, 200, 751, 1120, 1322
NlaIV	GGNNCC	6 cut(s)	331, 701, 743, 799, 987, 1046
NmeAIII	GCCGAG	2 cut(s)	5, 1087
NmuCI	GTSAC	1 cut(s)	143
PaeR7I	CTCGAG	1 cut(s)	525
PagI	TCATGA	1 cut(s)	82
PcsI	WCGNNNNNNNCGW	1 cut(s)	435
PfeI	GAWTC	4 cut(s)	371, 845, 1126, 1259
PfoI	TCCNGGA	1 cut(s)	374
PleI	GAGTC	3 cut(s)	150, 660, 673
PpsI	GAGTC	3 cut(s)	150, 660, 673
PpuMI	RGGWCCY	1 cut(s)	741
Psp5II	RGGWCCY	1 cut(s)	741
PspN4I	GGNNCC	6 cut(s)	331, 701, 743, 799, 987, 1046
PspPI	GGNCC	5 cut(s)	329, 470, 553, 741, 1147
PspPPI	RGGWCCY	1 cut(s)	741
PspXI	VCTCGAGB	1 cut(s)	525
PstI	CTGCAG	1 cut(s)	837
PstNI	CAGNNNCTG	2 cut(s)	448, 832
PsuI	RGATCY	1 cut(s)	357
RsaI	GTAC	3 cut(s)	544, 643, 765
RsaNI	GTAC	3 cut(s)	543, 642, 764
RseI	CAYNNNNRTG	3 cut(s)	81, 84, 195
SalI	GTCGAC	1 cut(s)	125
SaqAI	TTAA	7 cut(s)	51, 344, 413, 1002, 1158, 1191, 1245
Sau96I	GGNCC	5 cut(s)	329, 470, 553, 741, 1147
ScaI	AGTACT	2 cut(s)	544, 643
SchI	GAGTC	3 cut(s)	151, 661, 673
ScrFI	CCNGG	5 cut(s)	376, 386, 508, 753, 1146
SduI	GDGCHC	2 cut(s)	738, 1047
SfaNI	GCATC	3 cut(s)	300, 733, 1102
SfcI	CTRYAG	1 cut(s)	833
Sfr274I	CTCGAG	1 cut(s)	525
SinI	GGWCC	4 cut(s)	329, 470, 553, 741
SlaI	CTCGAG	1 cut(s)	525
SmiMI	CAYNNNNRTG	3 cut(s)	81, 84, 195
SmlI	CTYRAG	2 cut(s)	398, 525
SmoI	CTYRAG	2 cut(s)	398, 525
Sse9I	AATT	4 cut(s)	172, 547, 818, 1194
SsiI	CCGC	7 cut(s)	856, 914, 917, 929, 960, 1048, 1329
SspMI	CTAG	2 cut(s)	338, 591
StyD4I	CCNGG	5 cut(s)	374, 384, 506, 751, 1144
TaaI	ACNGT	3 cut(s)	56, 479, 1231
TaiI	ACGT	1 cut(s)	309
TaqI	TCGA	6 cut(s)	126, 140, 526, 730, 1221, 1262
TaqII	GACCGA	1 cut(s)	541
TasI	AATT	4 cut(s)	172, 547, 818, 1194
TatI	WGTACW	3 cut(s)	542, 641, 763
TauI	GCSGC	2 cut(s)	917, 920
TfiI	GAWTC	4 cut(s)	371, 845, 1126, 1259
Tru1I	TTAA	7 cut(s)	51, 344, 413, 1002, 1158, 1191, 1245
Tru9I	TTAA	7 cut(s)	51, 344, 413, 1002, 1158, 1191, 1245
TscAI	CASTG	1 cut(s)	842
TseFI	GTSAC	1 cut(s)	143
TseI	GCWGC	8 cut(s)	29, 97, 100, 103, 610, 826, 1169, 1186
Tsp45I	GTSAC	1 cut(s)	143
TspDTI	ATGAA	5 cut(s)	102, 125, 197, 731, 747
TspRI	CASTG	1 cut(s)	842
VpaK11BI	GGWCC	4 cut(s)	329, 470, 553, 741
XagI	CCTNNNNNAGG	2 cut(s)	252, 594
XapI	RAATTY	1 cut(s)	1194
XhoI	CTCGAG	1 cut(s)	525
XmiI	GTMKAC	1 cut(s)	126
XspI	CTAG	2 cut(s)	338, 591
ZrmI	AGTACT	2 cut(s)	544, 643

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