Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0000427.1

Orthogroup ID

OG0001407

Physical Location & Seq

Genomic Coordinates Reverse (-)

50764 .. 52027

Gene Structure 1264 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0000427.1_g000012.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1194 bp

atgcacaccaaggaagcactcatttttcacaatatggtcaacatggacagcaagcatatgggtctaattctcaaggccaatctacctcaagtcaaggatttcatgctcatttcaaggccccaccaaggcgagaactacaattcccctccttttctccaaggcattcctattcaagctccaaatgaaccaaacaagcctaattttgaagacttgatgggagagtttctcaaggttcaaacttttactaatgcggagaccaagcaaaacatctcttcactagttcaagggtatcaaactctacaacaaggcatggctagactagaggtacaagtgggccaaatggccaccaatatgagtgagagaccaaaaggagccttaccttcacaaccagagccaaacccaagaggaaaactccatgaatgcaatgccatcaccactctacgttcgggaaaggtatatgataatcatgtttacatgcctacatcttctagtttccatacaaatcctctatttgatgacgatgttgatttgcattcatatggggccaagagggaagaaaatgtacctcttggccatgttgttgatgatcaattgcatacacatcatgattctttttatcataaggaagatgggaccgaaagggaagaaaatgtacattccggtaaatatggagtgggtgatgtgactttgaatgccaacggaagaaataagggggtggataaggtaaccggaggggaagaaaatgtaccctccggagaatctattcttggtgaaggttatggtttcttgtcctttgagaacaatgcaagcaactatggtttgattgatagtggcaaagaaatggccatgttgagaaagaagacttctagggatgaggatgtctcggaccctaaattagatggtgaggccatgaaggctagggacccatctacggccgataacacctctaggaaggttcttgatgacattagacccaccactcatgagtttgagccatctacttctagagaaaatgaggggaggaataaggaggaagatttacatatgcatggtagctctagggataggagtggtccggtctactcatcactaggcgaggccttaagggctaagaaccctagtgggaccttgactacccttaggggcactaccggaagtctcacatttgatccacctcttacttccttattctaa

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

RVT_1 Retrotrans_gag rve

Protein Analysis

397

Amino Acids

44.01

Weight (kDa)

5.58

Isoelectric Point (pI)

45.4

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0001407)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g10250 FvH4_4g10250 FvH4_6g21790
rosa_chinensis	RchiOBHm_Chr2g0133891 RchiOBHm_Chr3g0452821 RchiOBHm_Chr3g0452831 RchiOBHm_Chr5g0042701 RchiOBHm_Chr5g0080601 RchiOBHm_Chr6g0279391
rosa_multiflora	Rmu_co8061076.1_g000001 Rmu_co8477889.1_g000001 Rmu_co8492139.1_g000002 Rmu_sc0000083.1_g000025 Rmu_sc0000084.1_g000033 Rmu_sc0000239.1_g000083 Rmu_sc0000427.1_g000012 Rmu_sc0000677.1_g000017 Rmu_sc0000684.1_g000015 Rmu_sc0000893.1_g000006 Rmu_sc0001047.1_g000017 Rmu_sc0001124.1_g000001 Rmu_sc0001353.1_g000052 Rmu_sc0001575.1_g000031 Rmu_sc0001687.1_g000017 Rmu_sc0002083.1_g000017 Rmu_sc0002083.1_g000018 Rmu_sc0002319.1_g000002 Rmu_sc0002385.1_g000007 Rmu_sc0002472.1_g000033 Rmu_sc0002564.1_g000008 Rmu_sc0002564.1_g000009 Rmu_sc0002702.1_g000010 Rmu_sc0003499.1_g000003 Rmu_sc0003527.1_g000011 Rmu_sc0003882.1_g000025 Rmu_sc0003882.1_g000047 Rmu_sc0004191.1_g000027 Rmu_sc0004431.1_g000007 Rmu_sc0005670.1_g000007 Rmu_sc0006954.1_g000001 Rmu_sc0008128.1_g000002 Rmu_sc0012865.1_g000004 Rmu_sc0013815.1_g000001 Rmu_sc0017745.1_g000001 Rmu_ssc0000350.1_g000007
rosa_roxburghii	Rroxscaffold_1G00030490 Rroxscaffold_2G00129400 Rroxscaffold_3G00218530 Rroxscaffold_4G00320090 Rroxscaffold_4G00322270
rosa_samantha	Rh1CG054500 Rh5BG351400
rosa_wichuraiana	Rw5G029510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	1080
AccIII	TCCGGA	1 cut(s)	752
AciI	CCGC	1 cut(s)	251
AclWI	GGATC	1 cut(s)	1163
AcoI	YGGCCR	4 cut(s)	342, 571, 843, 933
AfaI	GTAC	4 cut(s)	327, 564, 654, 747
AfiI	CCNNNNNNNGG	2 cut(s)	125, 931
AflII	CTTAAG	1 cut(s)	1102
AgsI	TTSAA	6 cut(s)	114, 173, 206, 236, 284, 691
AhlI	ACTAGT	1 cut(s)	277
AjuI	GAANNNNNNNTTGG	2 cut(s)	750, 782
AloI	GAACNNNNNNTCC	2 cut(s)	125, 157
AluBI	AGCT	2 cut(s)	176, 1056
AluI	AGCT	2 cut(s)	176, 1056
Alw26I	GTCTC	4 cut(s)	248, 355, 886, 1163
AlwI	GGATC	1 cut(s)	1163
Aor13HI	TCCGGA	1 cut(s)	752
Asp700I	GAANNNNTTC	1 cut(s)	762
AspS9I	GGNCC	8 cut(s)	117, 334, 543, 633, 886, 922, 1073, 1125
AsuHPI	GGTGA	4 cut(s)	424, 689, 782, 914
AvaII	GGWCC	5 cut(s)	633, 886, 922, 1073, 1125
AxyI	CCTNAGG	1 cut(s)	1139
BaeGI	GKGCMC	1 cut(s)	1148
BalI	TGGCCA	3 cut(s)	344, 573, 845
BarI	GAAGNNNNNNTAC	6 cut(s)	546, 578, 636, 668, 729, 761
BbsI	GAAGAC	2 cut(s)	213, 866
BccI	CCATC	6 cut(s)	208, 437, 623, 893, 934, 1003
BceAI	ACGGC	1 cut(s)	948
BclI	TGATCA	1 cut(s)	586
BcoDI	GTCTC	4 cut(s)	248, 355, 886, 1163
BcuI	ACTAGT	1 cut(s)	277
BfrI	CTTAAG	1 cut(s)	1102
BglI	GCCNNNNNGGC	2 cut(s)	914, 1106
Bme18I	GGWCC	5 cut(s)	633, 886, 922, 1073, 1125
BmgT120I	GGNCC	8 cut(s)	117, 334, 543, 633, 886, 922, 1073, 1125
BmiI	GGNNCC	8 cut(s)	119, 373, 544, 634, 888, 923, 924, 1126
BpiI	GAAGAC	2 cut(s)	213, 866
BplI	GAGNNNNNCTC	6 cut(s)	210, 242, 396, 428, 866, 898
BpuEI	CTTGAG	3 cut(s)	56, 72, 212
BsaI	GGTCTC	2 cut(s)	248, 355
BsaJI	CCNNGG	3 cut(s)	9, 124, 157
BsaWI	WCCGGW	5 cut(s)	659, 728, 752, 1075, 1151
Bsc4I	CCNNNNNNNGG	2 cut(s)	125, 931
Bse21I	CCTNAGG	1 cut(s)	1139
Bse3DI	GCAATG	1 cut(s)	430
BseAI	TCCGGA	1 cut(s)	752
BseDI	CCNNGG	3 cut(s)	9, 124, 157
BseGI	GGATG	2 cut(s)	877, 883
BseLI	CCNNNNNNNGG	2 cut(s)	125, 931
BseMI	GCAATG	1 cut(s)	430
BseSI	GKGCMC	1 cut(s)	1148
BseX3I	CGGCCG	1 cut(s)	933
Bsh1285I	CGRYCG	1 cut(s)	936
BsiEI	CGRYCG	1 cut(s)	936
BsiSI	CCGG	5 cut(s)	660, 729, 753, 1076, 1152
BslFI	GGGAC	3 cut(s)	646, 935, 1138
BslI	CCNNNNNNNGG	2 cut(s)	125, 931
BsmAI	GTCTC	4 cut(s)	248, 355, 886, 1163
BsmFI	GGGAC	3 cut(s)	646, 935, 1138
BsmI	GAATGC	4 cut(s)	162, 425, 532, 697
Bso31I	GGTCTC	2 cut(s)	248, 355
Bsp1286I	GDGCHC	1 cut(s)	1148
Bsp13I	TCCGGA	1 cut(s)	752
Bsp1407I	TGTACA	1 cut(s)	652
Bsp143I	GATC	2 cut(s)	586, 1168
BspACI	CCGC	1 cut(s)	251
BspEI	TCCGGA	1 cut(s)	752
BspHI	TCATGA	2 cut(s)	604, 982
BspLI	GGNNCC	8 cut(s)	119, 373, 544, 634, 888, 923, 924, 1126
BspPI	GGATC	1 cut(s)	1163
BspTI	CTTAAG	1 cut(s)	1102
BspTNI	GGTCTC	2 cut(s)	248, 355
BsrDI	GCAATG	1 cut(s)	430
BsrGI	TGTACA	1 cut(s)	652
BssECI	CCNNGG	3 cut(s)	9, 124, 157
BssMI	GATC	2 cut(s)	586, 1168
BssT1I	CCWWGG	3 cut(s)	9, 124, 157
Bst6I	CTCTTC	1 cut(s)	277
BstAFI	CTTAAG	1 cut(s)	1102
BstAUI	TGTACA	1 cut(s)	652
BstC8I	GCNNGC	2 cut(s)	53, 808
BstDEI	CTNAG	2 cut(s)	1110, 1139
BstEII	GGTNACC	1 cut(s)	724
BstF5I	GGATG	2 cut(s)	877, 883
BstKTI	GATC	2 cut(s)	589, 1171
BstMAI	GTCTC	4 cut(s)	248, 355, 886, 1163
BstMBI	GATC	2 cut(s)	586, 1168
BstMCI	CGRYCG	1 cut(s)	936
BstMWI	GCNNNNNNNGC	2 cut(s)	914, 1106
BstNSI	RCATGY	1 cut(s)	478
BstPI	GGTNACC	1 cut(s)	724
BstSLI	GKGCMC	1 cut(s)	1148
BstV2I	GAAGAC	2 cut(s)	213, 866
BstZI	CGGCCG	1 cut(s)	933
Bsu36I	CCTNAGG	1 cut(s)	1139
BtsCI	GGATG	2 cut(s)	877, 883
Cac8I	GCNNGC	2 cut(s)	53, 808
CciI	TCATGA	2 cut(s)	604, 982
Cfr13I	GGNCC	8 cut(s)	117, 334, 543, 633, 886, 922, 1073, 1125
Csp6I	GTAC	4 cut(s)	326, 563, 653, 746
CviQI	GTAC	4 cut(s)	326, 563, 653, 746
DdeI	CTNAG	2 cut(s)	1110, 1139
DpnI	GATC	2 cut(s)	588, 1170
DpnII	GATC	2 cut(s)	586, 1168
EaeI	YGGCCR	4 cut(s)	342, 571, 843, 933
EagI	CGGCCG	1 cut(s)	933
Eam1104I	CTCTTC	1 cut(s)	277
EarI	CTCTTC	1 cut(s)	277
EclXI	CGGCCG	1 cut(s)	933
Eco130I	CCWWGG	3 cut(s)	9, 124, 157
Eco147I	AGGCCT	1 cut(s)	1100
Eco31I	GGTCTC	2 cut(s)	248, 355
Eco47I	GGWCC	5 cut(s)	633, 886, 922, 1073, 1125
Eco52I	CGGCCG	1 cut(s)	933
Eco81I	CCTNAGG	1 cut(s)	1139
Eco91I	GGTNACC	1 cut(s)	724
EcoO109I	RGGNCCY	3 cut(s)	117, 922, 1125
EcoO65I	GGTNACC	1 cut(s)	724
EcoT14I	CCWWGG	3 cut(s)	9, 124, 157
EcoT22I	ATGCAT	1 cut(s)	1050
ErhI	CCWWGG	3 cut(s)	9, 124, 157
FaqI	GGGAC	3 cut(s)	646, 935, 1138
FauNDI	CATATG	3 cut(s)	57, 538, 1044
FbaI	TGATCA	1 cut(s)	586
FblI	GTMKAC	1 cut(s)	1080
FokI	GGATG	2 cut(s)	884, 890
HapII	CCGG	5 cut(s)	660, 729, 753, 1076, 1152
HincII	GTYRAC	1 cut(s)	40
HindII	GTYRAC	1 cut(s)	40
HinfI	GANTC	2 cut(s)	608, 758
HpaII	CCGG	5 cut(s)	660, 729, 753, 1076, 1152
HphI	GGTGA	4 cut(s)	424, 689, 782, 914
Hpy166II	GTNNAC	3 cut(s)	40, 472, 1081
Hpy188I	TCNGA	1 cut(s)	886
Hpy188III	TCNNGA	6 cut(s)	447, 605, 753, 959, 983, 1005
Hpy8I	GTNNAC	3 cut(s)	40, 472, 1081
HpyAV	CCTTC	4 cut(s)	390, 767, 907, 946
HpyCH4IV	ACGT	1 cut(s)	442
HpyCH4V	TGCA	6 cut(s)	4, 423, 532, 595, 806, 1048
HpyF10VI	GCNNNNNNNGC	2 cut(s)	914, 1106
HpyF3I	CTNAG	2 cut(s)	1110, 1139
HpySE526I	ACGT	1 cut(s)	442
KflI	GGGWCCC	1 cut(s)	922
Kpn2I	TCCGGA	1 cut(s)	752
Ksp22I	TGATCA	1 cut(s)	586
Kzo9I	GATC	2 cut(s)	586, 1168
LmnI	GCTCC	2 cut(s)	181, 371
LpnPI	CCDG	6 cut(s)	402, 673, 742, 766, 1089, 1165
MaeII	ACGT	1 cut(s)	442
MaeIII	GTNAC	2 cut(s)	682, 724
MalI	GATC	2 cut(s)	588, 1170
MboI	GATC	2 cut(s)	586, 1168
MfeI	CAATTG	1 cut(s)	590
MhlI	GDGCHC	1 cut(s)	1148
MlsI	TGGCCA	3 cut(s)	344, 573, 845
MluCI	AATT	5 cut(s)	66, 139, 199, 590, 893
MluNI	TGGCCA	3 cut(s)	344, 573, 845
Mox20I	TGGCCA	3 cut(s)	344, 573, 845
Mph1103I	ATGCAT	1 cut(s)	1050
MroI	TCCGGA	1 cut(s)	752
MroXI	GAANNNNTTC	1 cut(s)	762
MscI	TGGCCA	3 cut(s)	344, 573, 845
MseI	TTAA	1 cut(s)	1103
MslI	CAYNNNNRTG	3 cut(s)	350, 537, 1047
Msp20I	TGGCCA	3 cut(s)	344, 573, 845
MspCI	CTTAAG	1 cut(s)	1102
MspI	CCGG	5 cut(s)	660, 729, 753, 1076, 1152
MunI	CAATTG	1 cut(s)	590
Mva1269I	GAATGC	4 cut(s)	162, 425, 532, 697
MwoI	GCNNNNNNNGC	2 cut(s)	914, 1106
NdeI	CATATG	3 cut(s)	57, 538, 1044
NdeII	GATC	2 cut(s)	586, 1168
NlaIV	GGNNCC	8 cut(s)	119, 373, 544, 634, 888, 923, 924, 1126
NmuCI	GTSAC	1 cut(s)	682
NsiI	ATGCAT	1 cut(s)	1050
NspI	RCATGY	1 cut(s)	478
PagI	TCATGA	2 cut(s)	604, 982
PceI	AGGCCT	1 cut(s)	1100
PctI	GAATGC	4 cut(s)	162, 425, 532, 697
PdmI	GAANNNNTTC	1 cut(s)	762
PfeI	GAWTC	2 cut(s)	608, 758
PpuMI	RGGWCCY	2 cut(s)	922, 1125
Psp5II	RGGWCCY	2 cut(s)	922, 1125
PspEI	GGTNACC	1 cut(s)	724
PspN4I	GGNNCC	8 cut(s)	119, 373, 544, 634, 888, 923, 924, 1126
PspPI	GGNCC	8 cut(s)	117, 334, 543, 633, 886, 922, 1073, 1125
PspPPI	RGGWCCY	2 cut(s)	922, 1125
RsaI	GTAC	4 cut(s)	327, 564, 654, 747
RsaNI	GTAC	4 cut(s)	326, 563, 653, 746
RseI	CAYNNNNRTG	3 cut(s)	350, 537, 1047
SaqAI	TTAA	1 cut(s)	1103
Sau3AI	GATC	2 cut(s)	586, 1168
Sau96I	GGNCC	8 cut(s)	117, 334, 543, 633, 886, 922, 1073, 1125
SduI	GDGCHC	1 cut(s)	1148
SinI	GGWCC	5 cut(s)	633, 886, 922, 1073, 1125
SmiMI	CAYNNNNRTG	3 cut(s)	350, 537, 1047
SmlI	CTYRAG	4 cut(s)	71, 87, 227, 1102
SmoI	CTYRAG	4 cut(s)	71, 87, 227, 1102
SpeI	ACTAGT	1 cut(s)	277
Sse9I	AATT	5 cut(s)	66, 139, 199, 590, 893
SseBI	AGGCCT	1 cut(s)	1100
SsiI	CCGC	1 cut(s)	251
StuI	AGGCCT	1 cut(s)	1100
StyI	CCWWGG	3 cut(s)	9, 124, 157
TaiI	ACGT	1 cut(s)	445
TaqII	GACCGA	1 cut(s)	650
TasI	AATT	5 cut(s)	66, 139, 199, 590, 893
TatI	WGTACW	1 cut(s)	652
TfiI	GAWTC	2 cut(s)	608, 758
Tru1I	TTAA	1 cut(s)	1103
Tru9I	TTAA	1 cut(s)	1103
TseFI	GTSAC	1 cut(s)	682
Tsp45I	GTSAC	1 cut(s)	682
TspDTI	ATGAA	5 cut(s)	91, 198, 432, 525, 926
TspGWI	ACGGA	1 cut(s)	714
Vha464I	CTTAAG	1 cut(s)	1102
VpaK11BI	GGWCC	5 cut(s)	633, 886, 922, 1073, 1125
XbaI	TCTAGA	1 cut(s)	1004
XceI	RCATGY	1 cut(s)	478
XmiI	GTMKAC	1 cut(s)	1080
XmnI	GAANNNNTTC	1 cut(s)	762
Zsp2I	ATGCAT	1 cut(s)	1050

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