Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0004193.1

Orthogroup ID

OG0001340

Physical Location & Seq

Genomic Coordinates Forward (+)

11089 .. 12741

Gene Structure 1653 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0004193.1_g000005.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1554 bp

atgactttgcttgctgctactctatccagtggtgttctctcttttgttgttggcagtaacacttctagagaactttggtgtttgcttaaggagaggtttgttcttacttcatggtttaacaaagagaagctaaagagcaacttttacaaacttcaaaaatggtcagattctattgacaagtatttggatcgggtgaagatagcttgtgatcagttggctaatgtaggaattcatatgcctgatgaagacattattgtctctgttcttcttgctgaacttgaagatagtgacaagtctatttatgctcctacaagtcttcctttgtcatcattgaatgcaattgttgcacacaatccatcatctacgttgcctattattggtggtcatgttgatgttcattccgggtttgccgcatcccattcccatccacctggtgtgccagtttacaatccaaatgtgatgctttcctatgttgtactaccacatgatgctatgagttattcatgtagcaattatgttgttaatcccactactccagttactcaagttgggtctatttcacgtgccaccaatatgacacaaagtctatgttctattcacaataattcatcatcttcacattctgcgttcactgcaaatgccagggtcaacaatggttcttgtcctatccaaaatggatatgtgatgtgttctacacctgcaccttatagagggaatactcagatgcatagaccttactcttctcaattgcgtagagccatacaacattccatcttcacacaattttctggtggctttactcagccgcaaaatggtggttatccttcactgcaaaacacacaattcactcagcaacagggaagctttacacaacaaaaagatggtggaaattattcgatgcaaaatgaaaatttcaatcaacataatgaaacttttatgcagcaaactgtcaatggtgtgagaatgcaagtaccatatggtagatctcaggtgcagggcaactttcagatttctgataactctaatggtgggttttccacacaacagaataaagcttgtacagaaaataccaggtatcctcattgtcttcagcagcaacccaatagctcttctccaaatggtgtctttttcaacaacaatctcattgtcttcagcagcaacctaatagctcttctccaaatggtgtctttttcaacaacaatcagaattgtcagcttaatgaaggatgctcaaaatcagttgtgtgtcaaatatgtgaaaagcctagacattctacccaaagatgttatcacagacattctcaggctcagaatattgctttcagctcatatgtggaaccccaaatctgcaggaggtcttgttacgttgccaaaatgtgcagatataaaaagcagtcaaacaatgacttcagtcaacccaagtctgcttccattgctgctcaaccaagtccatgttcttccatgccacttattcctcctagttgaagcatctggtctaatatcttctccaacaacgttcactcatctcaacatctatatctctgtgtcagcttga

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_2 Retrotran_gag_2

Protein Analysis

517

Amino Acids

56.87

Weight (kDa)

8.67

Isoelectric Point (pI)

41.17

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

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

Orthologous Genes (Group: OG0001340)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g05651 FvH4_5g06481
malus_domestica	MD04G1150100.v1.1
rosa_chinensis	RchiOBHm_Chr1g0366871 RchiOBHm_Chr2g0112811 RchiOBHm_Chr5g0022021 RchiOBHm_Chr5g0050161 RchiOBHm_Chr7g0178931
rosa_laevigata	RLG00000030270 RLG00000030274 RLG00000030285 RLG00000030289
rosa_multiflora	Rmu_sc0000206.1_g000011 Rmu_sc0000539.1_g000041 Rmu_sc0001706.1_g000020 Rmu_sc0002245.1_g000029 Rmu_sc0002935.1_g000016 Rmu_sc0002952.1_g000016 Rmu_sc0002952.1_g000017 Rmu_sc0003371.1_g000005 Rmu_sc0004193.1_g000005 Rmu_sc0004359.1_g000018 Rmu_sc0006422.1_g000014 Rmu_sc0007594.1_g000001 Rmu_sc0010925.1_g000018 Rmu_sc0013146.1_g000003 Rmu_sc0031630.1_g000002 Rmu_sc0033466.1_g000001 Rmu_ssc0000079.1_g000006 Rmu_ssc0000423.1_g000006
rosa_roxburghii	Rroxscaffold_1G00004520 Rroxscaffold_1G00005520 Rroxscaffold_1G00041540 Rroxscaffold_1G00045310 Rroxscaffold_5G00361650 Rroxscaffold_6G00388920 Rroxscaffold_6G00405980 Rroxscaffold_6G00410140 Rroxscaffold_6G00423840 Rroxscaffold_7G00200050
rosa_rugosa	Rorug02G0433500 Rorug02G0433600 Rorug02G0433600 Rorug02G0433700 Rorug04G0166100.1 Rorug05G0053500 Rorug06G0481300
rosa_samantha	Rh1CG036200 Rh4AG051700 Rh4BG049000 Rh4CG055700
rosa_wichuraiana	Rw0G022690 Rw1G035930 Rw4G004120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	706
AasI	GACNNNNNNGTC	1 cut(s)	254
Acc36I	ACCTGC	1 cut(s)	706
AciI	CCGC	2 cut(s)	411, 806
AclI	AACGTT	1 cut(s)	1514
AclWI	GGATC	1 cut(s)	195
AcsI	RAATTY	2 cut(s)	228, 910
AcuI	CTGAAG	3 cut(s)	1073, 1135, 1392
AcvI	CACGTG	1 cut(s)	563
AdeI	CACNNNGTG	1 cut(s)	434
AfaI	GTAC	3 cut(s)	477, 972, 1060
AfiI	CCNNNNNNNGG	3 cut(s)	377, 710, 812
AflII	CTTAAG	1 cut(s)	86
AgsI	TTSAA	7 cut(s)	155, 281, 334, 916, 1132, 1194, 1484
AhdI	GACNNNNNGTC	1 cut(s)	582
AjnI	CCWGG	3 cut(s)	430, 641, 1070
AjuI	GAANNNNNNNTTGG	2 cut(s)	1437, 1469
AluBI	AGCT	9 cut(s)	130, 203, 864, 1055, 1107, 1169, 1215, 1325, 1550
AluI	AGCT	9 cut(s)	130, 203, 864, 1055, 1107, 1169, 1215, 1325, 1550
Alw26I	GTCTC	1 cut(s)	262
AlwI	GGATC	1 cut(s)	195
ApeKI	GCWGC	5 cut(s)	14, 940, 1093, 1155, 1435
ApoI	RAATTY	2 cut(s)	228, 910
Asp700I	GAANNNNTTC	1 cut(s)	892
AsuC2I	CCSGG	1 cut(s)	403
AsuHPI	GGTGA	1 cut(s)	205
BbrPI	CACGTG	1 cut(s)	563
BbsI	GAAGAC	4 cut(s)	252, 308, 1079, 1141
BbvI	GCAGC	4 cut(s)	952, 1105, 1167, 1422
BccI	CCATC	4 cut(s)	364, 432, 779, 875
BciT130I	CCWGG	3 cut(s)	432, 643, 1072
BciVI	GTATCC	1 cut(s)	1086
BclI	TGATCA	1 cut(s)	208
BcnI	CCSGG	1 cut(s)	403
BcoDI	GTCTC	1 cut(s)	262
BfaI	CTAG	3 cut(s)	66, 1265, 1478
BfmI	CTRYAG	1 cut(s)	1347
BfrI	CTTAAG	1 cut(s)	86
BfuAI	ACCTGC	1 cut(s)	706
BfuI	GTATCC	1 cut(s)	1086
BglII	AGATCT	1 cut(s)	983
BisI	GCNGC	7 cut(s)	15, 411, 806, 941, 1094, 1156, 1436
BlsI	GCNGC	7 cut(s)	16, 412, 807, 942, 1095, 1157, 1437
Bme1390I	CCNGG	4 cut(s)	403, 432, 643, 1072
BmeRI	GACNNNNNGTC	1 cut(s)	582
BmiI	GGNNCC	1 cut(s)	1337
BmrFI	CCNGG	4 cut(s)	403, 432, 643, 1072
BmsI	GCATC	7 cut(s)	422, 450, 478, 714, 888, 1216, 1496
BoxI	GACNNNNGTC	1 cut(s)	1409
BpiI	GAAGAC	4 cut(s)	252, 308, 1079, 1141
BpmI	CTGGAG	1 cut(s)	519
BpuEI	CTTGAG	1 cut(s)	528
BpuMI	CCSGG	1 cut(s)	403
BsaAI	YACGTR	1 cut(s)	563
BsaJI	CCNNGG	1 cut(s)	642
BsaXI	ACNNNNNCTCC	2 cut(s)	1344, 1374
Bsc4I	CCNNNNNNNGG	3 cut(s)	377, 710, 812
Bse1I	ACTGG	3 cut(s)	27, 440, 536
Bse3DI	GCAATG	1 cut(s)	1430
BseBI	CCWGG	3 cut(s)	432, 643, 1072
BseDI	CCNNGG	1 cut(s)	642
BseGI	GGATG	3 cut(s)	413, 424, 1231
BseLI	CCNNNNNNNGG	3 cut(s)	377, 710, 812
BseMI	GCAATG	1 cut(s)	1430
BseMII	CTCAG	6 cut(s)	734, 815, 863, 1001, 1315, 1321
BseNI	ACTGG	3 cut(s)	27, 440, 536
BseXI	GCAGC	4 cut(s)	952, 1105, 1167, 1422
BsgI	GTGCAG	3 cut(s)	684, 1013, 1398
BsiSI	CCGG	1 cut(s)	402
BslI	CCNNNNNNNGG	3 cut(s)	377, 710, 812
BsmAI	GTCTC	1 cut(s)	262
BsmI	GAATGC	2 cut(s)	340, 969
Bsp1407I	TGTACA	1 cut(s)	1058
Bsp143I	GATC	3 cut(s)	187, 208, 983
BspACI	CCGC	2 cut(s)	411, 806
BspCNI	CTCAG	6 cut(s)	733, 814, 862, 1000, 1314, 1320
BspLI	GGNNCC	1 cut(s)	1337
BspMAI	CTGCAG	1 cut(s)	1351
BspMI	ACCTGC	1 cut(s)	706
BspPI	GGATC	1 cut(s)	195
BspQI	GCTCTTC	2 cut(s)	1114, 1176
BspTI	CTTAAG	1 cut(s)	86
BsrDI	GCAATG	1 cut(s)	1430
BsrGI	TGTACA	1 cut(s)	1058
BsrI	ACTGG	3 cut(s)	27, 440, 536
BssECI	CCNNGG	1 cut(s)	642
BssMI	GATC	3 cut(s)	187, 208, 983
Bst2UI	CCWGG	3 cut(s)	432, 643, 1072
Bst4CI	ACNGT	1 cut(s)	949
Bst6I	CTCTTC	3 cut(s)	745, 1114, 1176
BstAFI	CTTAAG	1 cut(s)	86
BstAPI	GCANNNNNTGC	1 cut(s)	344
BstAUI	TGTACA	1 cut(s)	1058
BstBAI	YACGTR	1 cut(s)	563
BstC8I	GCNNGC	1 cut(s)	12
BstDEI	CTNAG	6 cut(s)	720, 801, 849, 987, 1301, 1307
BstENI	CCTNNNNNAGG	1 cut(s)	708
BstF5I	GGATG	3 cut(s)	413, 424, 1231
BstKTI	GATC	3 cut(s)	190, 211, 986
BstMAI	GTCTC	1 cut(s)	262
BstMBI	GATC	3 cut(s)	187, 208, 983
BstMWI	GCNNNNNNNGC	3 cut(s)	344, 632, 1432
BstNI	CCWGG	3 cut(s)	432, 643, 1072
BstPAI	GACNNNNGTC	1 cut(s)	1409
BstSCI	CCNGG	4 cut(s)	401, 430, 641, 1070
BstSFI	CTRYAG	1 cut(s)	1347
BstV1I	GCAGC	4 cut(s)	952, 1105, 1167, 1422
BstV2I	GAAGAC	4 cut(s)	252, 308, 1079, 1141
BstX2I	RGATCY	1 cut(s)	983
BstXI	CCANNNNNNTGG	1 cut(s)	431
BstYI	RGATCY	1 cut(s)	983
BsuI	GTATCC	1 cut(s)	1086
BtsCI	GGATG	3 cut(s)	413, 424, 1231
BtsI	GCAGTG	2 cut(s)	630, 827
BtsIMutI	CAGTG	3 cut(s)	34, 630, 827
BveI	ACCTGC	1 cut(s)	706
Cac8I	GCNNGC	1 cut(s)	12
CsiI	ACCWGGT	2 cut(s)	430, 1070
Csp6I	GTAC	3 cut(s)	476, 971, 1059
CviAII	CATG	6 cut(s)	111, 386, 485, 504, 1451, 1461
CviQI	GTAC	3 cut(s)	476, 971, 1059
DdeI	CTNAG	6 cut(s)	720, 801, 849, 987, 1301, 1307
DpnI	GATC	3 cut(s)	189, 210, 985
DpnII	GATC	3 cut(s)	187, 208, 983
DraIII	CACNNNGTG	1 cut(s)	434
DrdI	GACNNNNNNGTC	1 cut(s)	254
DriI	GACNNNNNGTC	1 cut(s)	582
DseDI	GACNNNNNNGTC	1 cut(s)	254
Eam1104I	CTCTTC	3 cut(s)	745, 1114, 1176
Eam1105I	GACNNNNNGTC	1 cut(s)	582
EarI	CTCTTC	3 cut(s)	745, 1114, 1176
Eco57I	CTGAAG	3 cut(s)	1073, 1135, 1392
Eco72I	CACGTG	1 cut(s)	563
EcoNI	CCTNNNNNAGG	1 cut(s)	708
EcoRI	GAATTC	1 cut(s)	228
EcoRII	CCWGG	3 cut(s)	430, 641, 1070
EcoT22I	ATGCAT	1 cut(s)	729
FaeI	CATG	6 cut(s)	114, 389, 488, 507, 1454, 1464
FalI	AAGNNNNNCTT	4 cut(s)	125, 157, 304, 336
FatI	CATG	6 cut(s)	110, 385, 484, 503, 1450, 1460
FauNDI	CATATG	3 cut(s)	234, 976, 1329
FbaI	TGATCA	1 cut(s)	208
Fnu4HI	GCNGC	7 cut(s)	15, 411, 806, 941, 1094, 1156, 1436
FokI	GGATG	3 cut(s)	400, 411, 1238
Fsp4HI	GCNGC	7 cut(s)	15, 411, 806, 941, 1094, 1156, 1436
FspBI	CTAG	3 cut(s)	66, 1265, 1478
GluI	GCNGC	7 cut(s)	15, 411, 806, 941, 1094, 1156, 1436
GsuI	CTGGAG	1 cut(s)	519
HapII	CCGG	1 cut(s)	402
Hin1II	CATG	6 cut(s)	114, 389, 488, 507, 1454, 1464
HincII	GTYRAC	2 cut(s)	649, 1414
HindII	GTYRAC	2 cut(s)	649, 1414
HindIII	AAGCTT	2 cut(s)	862, 1053
HinfI	GANTC	1 cut(s)	167
HpaII	CCGG	1 cut(s)	402
HphI	GGTGA	1 cut(s)	205
Hpy166II	GTNNAC	5 cut(s)	445, 630, 649, 1414, 1518
Hpy188I	TCNGA	6 cut(s)	166, 723, 1008, 1015, 1205, 1310
Hpy188III	TCNNGA	1 cut(s)	66
Hpy8I	GTNNAC	5 cut(s)	445, 630, 649, 1414, 1518
HpyAV	CCTTC	2 cut(s)	834, 1216
HpyCH4III	ACNGT	1 cut(s)	949
HpyCH4IV	ACGT	4 cut(s)	365, 562, 1364, 1514
HpyF10VI	GCNNNNNNNGC	3 cut(s)	344, 632, 1432
HpyF3I	CTNAG	6 cut(s)	720, 801, 849, 987, 1301, 1307
HpySE526I	ACGT	4 cut(s)	365, 562, 1364, 1514
Hsp92II	CATG	6 cut(s)	114, 389, 488, 507, 1454, 1464
Ksp22I	TGATCA	1 cut(s)	208
Kzo9I	GATC	3 cut(s)	187, 208, 983
LguI	GCTCTTC	2 cut(s)	1114, 1176
LmnI	GCTCC	1 cut(s)	310
Lsp1109I	GCAGC	4 cut(s)	952, 1105, 1167, 1422
LweI	GCATC	7 cut(s)	422, 450, 478, 714, 888, 1216, 1496
MabI	ACCWGGT	2 cut(s)	430, 1070
MaeI	CTAG	3 cut(s)	66, 1265, 1478
MaeII	ACGT	4 cut(s)	365, 562, 1364, 1514
MaeIII	GTNAC	4 cut(s)	56, 287, 538, 1360
MalI	GATC	3 cut(s)	189, 210, 985
MboI	GATC	3 cut(s)	187, 208, 983
MfeI	CAATTG	2 cut(s)	339, 746
MflI	RGATCY	1 cut(s)	983
MmeI	TCCRAC	1 cut(s)	1532
MnlI	CCTC	5 cut(s)	87, 704, 1089, 1346, 1484
Mph1103I	ATGCAT	1 cut(s)	729
MroXI	GAANNNNTTC	1 cut(s)	892
MseI	TTAA	4 cut(s)	87, 117, 522, 1217
MslI	CAYNNNNRTG	2 cut(s)	390, 572
MspCI	CTTAAG	1 cut(s)	86
MspI	CCGG	1 cut(s)	402
MspR9I	CCNGG	4 cut(s)	403, 432, 643, 1072
MunI	CAATTG	2 cut(s)	339, 746
Mva1269I	GAATGC	2 cut(s)	340, 969
MvaI	CCWGG	3 cut(s)	432, 643, 1072
MwoI	GCNNNNNNNGC	3 cut(s)	344, 632, 1432
NciI	CCSGG	1 cut(s)	403
NdeI	CATATG	3 cut(s)	234, 976, 1329
NdeII	GATC	3 cut(s)	187, 208, 983
NlaIII	CATG	6 cut(s)	114, 389, 488, 507, 1454, 1464
NlaIV	GGNNCC	1 cut(s)	1337
NmuCI	GTSAC	1 cut(s)	287
NsiI	ATGCAT	1 cut(s)	729
PaqCI	CACCTGC	1 cut(s)	706
PciSI	GCTCTTC	2 cut(s)	1114, 1176
PctI	GAATGC	2 cut(s)	340, 969
PdmI	GAANNNNTTC	1 cut(s)	892
PfeI	GAWTC	1 cut(s)	167
PkrI	GCNGC	7 cut(s)	16, 412, 807, 942, 1095, 1157, 1437
PmaCI	CACGTG	1 cut(s)	563
PmlI	CACGTG	1 cut(s)	563
Ppu21I	YACGTR	1 cut(s)	563
PshAI	GACNNNNGTC	1 cut(s)	1409
Psp1406I	AACGTT	1 cut(s)	1514
Psp6I	CCWGG	3 cut(s)	430, 641, 1070
PspCI	CACGTG	1 cut(s)	563
PspGI	CCWGG	3 cut(s)	430, 641, 1070
PspN4I	GGNNCC	1 cut(s)	1337
PstI	CTGCAG	1 cut(s)	1351
PsuI	RGATCY	1 cut(s)	983
RsaI	GTAC	3 cut(s)	477, 972, 1060
RsaNI	GTAC	3 cut(s)	476, 971, 1059
RseI	CAYNNNNRTG	2 cut(s)	390, 572
SapI	GCTCTTC	2 cut(s)	1114, 1176
SaqAI	TTAA	4 cut(s)	87, 117, 522, 1217
SatI	GCNGC	7 cut(s)	15, 411, 806, 941, 1094, 1156, 1436
Sau3AI	GATC	3 cut(s)	187, 208, 983
ScrFI	CCNGG	4 cut(s)	403, 432, 643, 1072
SexAI	ACCWGGT	2 cut(s)	430, 1070
SfaNI	GCATC	7 cut(s)	422, 450, 478, 714, 888, 1216, 1496
SfcI	CTRYAG	1 cut(s)	1347
SmiMI	CAYNNNNRTG	2 cut(s)	390, 572
SmlI	CTYRAG	2 cut(s)	86, 543
SmoI	CTYRAG	2 cut(s)	86, 543
SsiI	CCGC	2 cut(s)	411, 806
SspI	AATATT	1 cut(s)	1314
SspMI	CTAG	3 cut(s)	66, 1265, 1478
StyD4I	CCNGG	4 cut(s)	401, 430, 641, 1070
TaaI	ACNGT	1 cut(s)	949
TaiI	ACGT	4 cut(s)	368, 565, 1367, 1517
TaqI	TCGA	1 cut(s)	896
TatI	WGTACW	2 cut(s)	475, 1058
TauI	GCSGC	2 cut(s)	413, 808
TfiI	GAWTC	1 cut(s)	167
Tru1I	TTAA	4 cut(s)	87, 117, 522, 1217
Tru9I	TTAA	4 cut(s)	87, 117, 522, 1217
TscAI	CASTG	3 cut(s)	34, 637, 834
TseFI	GTSAC	1 cut(s)	287
TseI	GCWGC	5 cut(s)	14, 940, 1093, 1155, 1435
Tsp45I	GTSAC	1 cut(s)	287
TspDTI	ATGAA	9 cut(s)	99, 221, 258, 386, 492, 597, 921, 942, 1235
TspRI	CASTG	3 cut(s)	34, 637, 834
Vha464I	CTTAAG	1 cut(s)	86
XagI	CCTNNNNNAGG	1 cut(s)	708
XapI	RAATTY	2 cut(s)	228, 910
XbaI	TCTAGA	1 cut(s)	65
XmnI	GAANNNNTTC	1 cut(s)	892
XspI	CTAG	3 cut(s)	66, 1265, 1478
Zsp2I	ATGCAT	1 cut(s)	729

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