Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0003499.1

Orthogroup ID

OG0001407

Physical Location & Seq

Genomic Coordinates Forward (+)

1154 .. 4424

Gene Structure 3271 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0003499.1_g000003.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1476 bp

atgatcctgactcacctacataaaatccgagttggaagaatcactctaatttttcttggagagaccaaggaggttcatctagtaggtttccaggtggaaagcaaagctttaggggtggccaaggtcaagacttatcaaattttactcattacggcaatgcacactaaggaaacactcaaatttcacaatttggtcaacatggacagcaagcatacaggccaaattcttaatgtcaatccacctcaagtcaaggatttcatgctcaaaatgctcctcccgagttcactcaaggtggtggttatagtcccaacaagtttcaaggtgtttcaagctcatttcaaggccaaaaccaaagtgggaactacatttcttcacctatgcctcaaggtgttcccattgcctcacaaccagaggagaaaagagtgcaaaagaaataaaagggtggataaggtagccggaggagaagaaaatgtaccttctggaggagctattcttggtaaaggttatggtttcttgtcctatgagaattatgcgagaaaatatgatttgattgatattggaaaggaaatggccatgttgagaaacaacactgtttggctccagaatttgtttgagctggtcaacagtctcttttctgctcgggcgtgccagcaccgttcggatcgagcagagcgagaaccaccgggaagtgaggagaacttgctaaagcgtgactttagcttggctgggttggtagggcgttacccttgcttggctggttccgtaatcgttgtggtcgcggcactaccgtcggctctcgaggagactaggaccgaaatcgagttttccagttttgcttctgtagaaaataggactgattgtttgaaggccttccactcaaaactagctctggaactcttcattctgctggacctcttacagatcaagttttccagttttgcttctgtagaaaataggactgattatggtgaggtcataaaggctagtaacccatttaaggctgatgacacctctagcaaggttcttgatgatattagacccttaccctatgagtttgagtcatctacttcaatcgaaaaagaggggagaaataaggaagaatacctatatgtgtatggtagctctacggataggagtggcctggtctactcatcactaggcgaggccttgagggctaaggatcctagtcggaccttgactacccttaggggcaccatcggaagtctcacatttgatccacctcttgatttgagcacaccagaacctcaacttccttaccctaatgtgctaagaaaggaaaatgtgaagaagagtgggaagaagaagaaagttggtttgatgtccgaagtacatgatatttttaagaaggtcaatgtcaatataccgttgattgagctccttcaacaaatgtcagtttatgaaaaatttctaaaggacttgtgcacccataagaggaagataaagaatgatgagtag

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

491

Amino Acids

55.38

Weight (kDa)

9.34

Isoelectric Point (pI)

42.61

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
AccB1I	GGYRCC	1 cut(s)	1211
AccI	GTMKAC	1 cut(s)	1146
AccII	CGCG	1 cut(s)	779
AciI	CCGC	1 cut(s)	779
AclWI	GGATC	4 cut(s)	669, 1175, 1188, 1229
AcoI	YGGCCR	2 cut(s)	117, 570
AcsI	RAATTY	5 cut(s)	138, 179, 222, 604, 1424
AfaI	GTAC	2 cut(s)	474, 1350
AfiI	CCNNNNNNNGG	4 cut(s)	482, 751, 997, 1452
AgsI	TTSAA	6 cut(s)	319, 329, 340, 865, 1071, 1403
AjnI	CCWGG	2 cut(s)	90, 1140
AluBI	AGCT	8 cut(s)	107, 332, 488, 616, 720, 887, 1122, 1396
AluI	AGCT	8 cut(s)	107, 332, 488, 616, 720, 887, 1122, 1396
Alw21I	GWGCWC	3 cut(s)	1256, 1398, 1445
Alw26I	GTCTC	4 cut(s)	56, 632, 797, 1229
Alw44I	GTGCAC	1 cut(s)	1441
AlwI	GGATC	4 cut(s)	669, 1175, 1188, 1229
Ama87I	CYCGRG	3 cut(s)	277, 639, 797
AoxI	GGCC	7 cut(s)	117, 217, 342, 570, 867, 1138, 1164
ApaLI	GTGCAC	1 cut(s)	1441
ApoI	RAATTY	5 cut(s)	138, 179, 222, 604, 1424
ArsI	GACNNNNNNTTYG	2 cut(s)	844, 876
Asp700I	GAANNNNTTC	2 cut(s)	869, 1425
AspS9I	GGNCC	3 cut(s)	810, 910, 1191
AsuC2I	CCSGG	1 cut(s)	684
AsuHPI	GGTGA	3 cut(s)	5, 365, 980
AvaI	CYCGRG	3 cut(s)	277, 639, 797
AvaII	GGWCC	3 cut(s)	810, 910, 1191
AxyI	CCTNAGG	1 cut(s)	1205
BaeGI	GKGCMC	2 cut(s)	1214, 1445
BalI	TGGCCA	2 cut(s)	119, 572
BamHI	GGATCC	1 cut(s)	1180
BanI	GGYRCC	1 cut(s)	1211
BanII	GRGCYC	1 cut(s)	1398
BarI	GAAGNNNNNNTAC	2 cut(s)	456, 488
Bbv12I	GWGCWC	3 cut(s)	1256, 1398, 1445
BccI	CCATC	1 cut(s)	1223
BceAI	ACGGC	1 cut(s)	168
BcgI	CGANNNNNNTGC	2 cut(s)	771, 805
BciT130I	CCWGG	2 cut(s)	92, 1142
BcnI	CCSGG	1 cut(s)	684
BcoDI	GTCTC	4 cut(s)	56, 632, 797, 1229
BfaI	CTAG	7 cut(s)	80, 807, 884, 984, 1014, 1157, 1185
BfmI	CTRYAG	2 cut(s)	840, 945
BglI	GCCNNNNNGGC	1 cut(s)	1172
BisI	GCNGC	1 cut(s)	780
BlsI	GCNGC	1 cut(s)	781
Bme1390I	CCNGG	3 cut(s)	92, 684, 1142
Bme18I	GGWCC	3 cut(s)	810, 910, 1191
BmeT110I	CYCGRG	3 cut(s)	277, 639, 797
BmgT120I	GGNCC	3 cut(s)	810, 910, 1191
BmiI	GGNNCC	4 cut(s)	599, 760, 1182, 1213
BmrFI	CCNGG	3 cut(s)	92, 684, 1142
BpmI	CTGGAG	2 cut(s)	501, 584
Bpu10I	CCTNAGC	1 cut(s)	1176
BpuEI	CTTGAG	4 cut(s)	228, 272, 368, 1189
BpuMI	CCSGG	1 cut(s)	684
BsaI	GGTCTC	1 cut(s)	56
BsaJI	CCNNGG	2 cut(s)	66, 120
Bsc4I	CCNNNNNNNGG	4 cut(s)	482, 751, 997, 1452
Bse1I	ACTGG	2 cut(s)	828, 933
Bse21I	CCTNAGG	1 cut(s)	1205
Bse3DI	GCAATG	2 cut(s)	162, 395
BseBI	CCWGG	2 cut(s)	92, 1142
BseDI	CCNNGG	2 cut(s)	66, 120
BseLI	CCNNNNNNNGG	4 cut(s)	482, 751, 997, 1452
BseMI	GCAATG	2 cut(s)	162, 395
BseNI	ACTGG	2 cut(s)	828, 933
BseRI	GAGGAG	6 cut(s)	263, 427, 474, 498, 707, 815
BseSI	GKGCMC	2 cut(s)	1214, 1445
BseYI	CCCAGC	1 cut(s)	725
Bsh1236I	CGCG	1 cut(s)	779
BshFI	GGCC	7 cut(s)	119, 219, 344, 572, 869, 1140, 1166
BshNI	GGYRCC	1 cut(s)	1211
BsiHKAI	GWGCWC	3 cut(s)	1256, 1398, 1445
BsiHKCI	CYCGRG	3 cut(s)	277, 639, 797
BsiSI	CCGG	2 cut(s)	456, 683
BslFI	GGGAC	1 cut(s)	290
BslI	CCNNNNNNNGG	4 cut(s)	482, 751, 997, 1452
BsmAI	GTCTC	4 cut(s)	56, 632, 797, 1229
BsmFI	GGGAC	1 cut(s)	290
BsnI	GGCC	7 cut(s)	119, 219, 344, 572, 869, 1140, 1166
Bso31I	GGTCTC	1 cut(s)	56
BsoBI	CYCGRG	3 cut(s)	277, 639, 797
Bsp1286I	GDGCHC	4 cut(s)	1214, 1256, 1398, 1445
Bsp143I	GATC	5 cut(s)	3, 661, 921, 1180, 1234
BspACI	CCGC	1 cut(s)	779
BspANI	GGCC	7 cut(s)	119, 219, 344, 572, 869, 1140, 1166
BspFNI	CGCG	1 cut(s)	779
BspLI	GGNNCC	4 cut(s)	599, 760, 1182, 1213
BspPI	GGATC	4 cut(s)	669, 1175, 1188, 1229
BspT107I	GGYRCC	1 cut(s)	1211
BspTNI	GGTCTC	1 cut(s)	56
BsrDI	GCAATG	2 cut(s)	162, 395
BsrI	ACTGG	2 cut(s)	828, 933
BssECI	CCNNGG	2 cut(s)	66, 120
BssMI	GATC	5 cut(s)	3, 661, 921, 1180, 1234
BssT1I	CCWWGG	2 cut(s)	66, 120
Bst2UI	CCWGG	2 cut(s)	92, 1142
Bst4CI	ACNGT	5 cut(s)	592, 626, 656, 789, 1386
Bst6I	CTCTTC	2 cut(s)	902, 1304
BstC8I	GCNNGC	3 cut(s)	209, 646, 650
BstDEI	CTNAG	4 cut(s)	165, 1176, 1205, 1289
BstENI	CCTNNNNNAGG	1 cut(s)	480
BstFNI	CGCG	1 cut(s)	779
BstKTI	GATC	5 cut(s)	6, 664, 924, 1183, 1237
BstMAI	GTCTC	4 cut(s)	56, 632, 797, 1229
BstMBI	GATC	5 cut(s)	3, 661, 921, 1180, 1234
BstMWI	GCNNNNNNNGC	2 cut(s)	268, 1172
BstNI	CCWGG	2 cut(s)	92, 1142
BstSCI	CCNGG	3 cut(s)	90, 682, 1140
BstSFI	CTRYAG	2 cut(s)	840, 945
BstSLI	GKGCMC	2 cut(s)	1214, 1445
BstUI	CGCG	1 cut(s)	779
BstX2I	RGATCY	1 cut(s)	1180
BstYI	RGATCY	1 cut(s)	1180
Bsu36I	CCTNAGG	1 cut(s)	1205
BsuRI	GGCC	7 cut(s)	119, 219, 344, 572, 869, 1140, 1166
BtsIMutI	CAGTG	1 cut(s)	588
Cac8I	GCNNGC	3 cut(s)	209, 646, 650
Cfr13I	GGNCC	3 cut(s)	810, 910, 1191
Csp6I	GTAC	2 cut(s)	473, 1349
CviAII	CATG	4 cut(s)	199, 259, 574, 1352
CviQI	GTAC	2 cut(s)	473, 1349
DdeI	CTNAG	4 cut(s)	165, 1176, 1205, 1289
DpnI	GATC	5 cut(s)	5, 663, 923, 1182, 1236
DpnII	GATC	5 cut(s)	3, 661, 921, 1180, 1234
EaeI	YGGCCR	2 cut(s)	117, 570
Eam1104I	CTCTTC	2 cut(s)	902, 1304
EarI	CTCTTC	2 cut(s)	902, 1304
Ecl136II	GAGCTC	1 cut(s)	1396
Eco130I	CCWWGG	2 cut(s)	66, 120
Eco147I	AGGCCT	2 cut(s)	869, 1166
Eco24I	GRGCYC	1 cut(s)	1398
Eco31I	GGTCTC	1 cut(s)	56
Eco47I	GGWCC	3 cut(s)	810, 910, 1191
Eco53kI	GAGCTC	1 cut(s)	1396
Eco81I	CCTNAGG	1 cut(s)	1205
Eco88I	CYCGRG	3 cut(s)	277, 639, 797
EcoICRI	GAGCTC	1 cut(s)	1396
EcoNI	CCTNNNNNAGG	1 cut(s)	480
EcoRII	CCWGG	2 cut(s)	90, 1140
EcoT14I	CCWWGG	2 cut(s)	66, 120
EcoT38I	GRGCYC	1 cut(s)	1398
ErhI	CCWWGG	2 cut(s)	66, 120
FaeI	CATG	4 cut(s)	202, 262, 577, 1355
FalI	AAGNNNNNCTT	4 cut(s)	91, 123, 698, 730
FaqI	GGGAC	1 cut(s)	290
FatI	CATG	4 cut(s)	198, 258, 573, 1351
FblI	GTMKAC	1 cut(s)	1146
Fnu4HI	GCNGC	1 cut(s)	780
FriOI	GRGCYC	1 cut(s)	1398
Fsp4HI	GCNGC	1 cut(s)	780
FspBI	CTAG	7 cut(s)	80, 807, 884, 984, 1014, 1157, 1185
GluI	GCNGC	1 cut(s)	780
GsaI	CCCAGC	1 cut(s)	729
GsuI	CTGGAG	2 cut(s)	501, 584
HaeIII	GGCC	7 cut(s)	119, 219, 344, 572, 869, 1140, 1166
HapII	CCGG	2 cut(s)	456, 683
Hin1II	CATG	4 cut(s)	202, 262, 577, 1355
HincII	GTYRAC	2 cut(s)	196, 622
HindII	GTYRAC	2 cut(s)	196, 622
HindIII	AAGCTT	1 cut(s)	105
HinfI	GANTC	3 cut(s)	10, 39, 1058
HpaII	CCGG	2 cut(s)	456, 683
HphI	GGTGA	3 cut(s)	5, 365, 980
Hpy166II	GTNNAC	5 cut(s)	196, 284, 622, 1147, 1443
Hpy188I	TCNGA	5 cut(s)	29, 661, 1191, 1220, 1345
Hpy188III	TCNNGA	9 cut(s)	7, 127, 277, 480, 601, 797, 890, 1025, 1244
Hpy8I	GTNNAC	5 cut(s)	196, 284, 622, 1147, 1443
Hpy99I	CGWCG	1 cut(s)	793
HpyAV	CCTTC	5 cut(s)	486, 859, 880, 1360, 1409
HpyCH4III	ACNGT	5 cut(s)	592, 626, 656, 789, 1386
HpyCH4V	TGCA	3 cut(s)	160, 426, 1443
HpyF10VI	GCNNNNNNNGC	2 cut(s)	268, 1172
HpyF3I	CTNAG	4 cut(s)	165, 1176, 1205, 1289
Hsp92II	CATG	4 cut(s)	202, 262, 577, 1355
Kzo9I	GATC	5 cut(s)	3, 661, 921, 1180, 1234
LmnI	GCTCC	4 cut(s)	276, 485, 603, 1401
MaeI	CTAG	7 cut(s)	80, 807, 884, 984, 1014, 1157, 1185
MaeIII	GTNAC	3 cut(s)	710, 740, 986
MalI	GATC	5 cut(s)	5, 663, 923, 1182, 1236
MboI	GATC	5 cut(s)	3, 661, 921, 1180, 1234
MflI	RGATCY	1 cut(s)	1180
MhlI	GDGCHC	4 cut(s)	1214, 1256, 1398, 1445
MlsI	TGGCCA	2 cut(s)	119, 572
MluCI	AATT	8 cut(s)	48, 138, 179, 187, 222, 526, 604, 1424
MluNI	TGGCCA	2 cut(s)	119, 572
MlyI	GAGTC	2 cut(s)	4, 1067
MmeI	TCCRAC	2 cut(s)	13, 1169
Mox20I	TGGCCA	2 cut(s)	119, 572
MroXI	GAANNNNTTC	2 cut(s)	869, 1425
MscI	TGGCCA	2 cut(s)	119, 572
MseI	TTAA	3 cut(s)	228, 996, 1362
Msp20I	TGGCCA	2 cut(s)	119, 572
MspI	CCGG	2 cut(s)	456, 683
MspR9I	CCNGG	3 cut(s)	92, 684, 1142
MvaI	CCWGG	2 cut(s)	92, 1142
MvnI	CGCG	1 cut(s)	779
MwoI	GCNNNNNNNGC	2 cut(s)	268, 1172
NciI	CCSGG	1 cut(s)	684
NdeII	GATC	5 cut(s)	3, 661, 921, 1180, 1234
NlaIII	CATG	4 cut(s)	202, 262, 577, 1355
NlaIV	GGNNCC	4 cut(s)	599, 760, 1182, 1213
NmuCI	GTSAC	1 cut(s)	710
PaeR7I	CTCGAG	1 cut(s)	797
PceI	AGGCCT	2 cut(s)	869, 1166
PcsI	WCGNNNNNNNCGW	1 cut(s)	670
PdmI	GAANNNNTTC	2 cut(s)	869, 1425
PfeI	GAWTC	1 cut(s)	39
PkrI	GCNGC	1 cut(s)	781
PleI	GAGTC	2 cut(s)	4, 1066
PpsI	GAGTC	2 cut(s)	4, 1066
Psp124BI	GAGCTC	1 cut(s)	1398
Psp6I	CCWGG	2 cut(s)	90, 1140
PspFI	CCCAGC	1 cut(s)	725
PspGI	CCWGG	2 cut(s)	90, 1140
PspN4I	GGNNCC	4 cut(s)	599, 760, 1182, 1213
PspPI	GGNCC	3 cut(s)	810, 910, 1191
PsuI	RGATCY	1 cut(s)	1180
RsaI	GTAC	2 cut(s)	474, 1350
RsaNI	GTAC	2 cut(s)	473, 1349
SacI	GAGCTC	1 cut(s)	1398
SaqAI	TTAA	3 cut(s)	228, 996, 1362
SatI	GCNGC	1 cut(s)	780
Sau3AI	GATC	5 cut(s)	3, 661, 921, 1180, 1234
Sau96I	GGNCC	3 cut(s)	810, 910, 1191
SchI	GAGTC	2 cut(s)	4, 1067
ScrFI	CCNGG	3 cut(s)	92, 684, 1142
SduI	GDGCHC	4 cut(s)	1214, 1256, 1398, 1445
SfcI	CTRYAG	2 cut(s)	840, 945
Sfr274I	CTCGAG	1 cut(s)	797
SinI	GGWCC	3 cut(s)	810, 910, 1191
SlaI	CTCGAG	1 cut(s)	797
SmlI	CTYRAG	5 cut(s)	243, 287, 383, 797, 1168
SmoI	CTYRAG	5 cut(s)	243, 287, 383, 797, 1168
Sse9I	AATT	8 cut(s)	48, 138, 179, 187, 222, 526, 604, 1424
SseBI	AGGCCT	2 cut(s)	869, 1166
SsiI	CCGC	1 cut(s)	779
SspMI	CTAG	7 cut(s)	80, 807, 884, 984, 1014, 1157, 1185
SstI	GAGCTC	1 cut(s)	1398
StuI	AGGCCT	2 cut(s)	869, 1166
StyD4I	CCNGG	3 cut(s)	90, 682, 1140
StyI	CCWWGG	2 cut(s)	66, 120
TaaI	ACNGT	5 cut(s)	592, 626, 656, 789, 1386
TaqI	TCGA	4 cut(s)	664, 798, 819, 1074
TaqII	GACCGA	1 cut(s)	827
TasI	AATT	8 cut(s)	48, 138, 179, 187, 222, 526, 604, 1424
TatI	WGTACW	1 cut(s)	1348
TauI	GCSGC	1 cut(s)	782
TfiI	GAWTC	1 cut(s)	39
Tru1I	TTAA	3 cut(s)	228, 996, 1362
Tru9I	TTAA	3 cut(s)	228, 996, 1362
TscAI	CASTG	1 cut(s)	595
TseFI	GTSAC	1 cut(s)	710
Tsp45I	GTSAC	1 cut(s)	710
TspDTI	ATGAA	4 cut(s)	65, 247, 889, 1434
TspGWI	ACGGA	2 cut(s)	751, 1142
TspRI	CASTG	1 cut(s)	595
VneI	GTGCAC	1 cut(s)	1441
VpaK11BI	GGWCC	3 cut(s)	810, 910, 1191
XagI	CCTNNNNNAGG	1 cut(s)	480
XapI	RAATTY	5 cut(s)	138, 179, 222, 604, 1424
XcmI	CCANNNNNNNNNTGG	1 cut(s)	352
XhoI	CTCGAG	1 cut(s)	797
XmiI	GTMKAC	1 cut(s)	1146
XmnI	GAANNNNTTC	2 cut(s)	869, 1425
XspI	CTAG	7 cut(s)	80, 807, 884, 984, 1014, 1157, 1185

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