Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_ssc0000079.1

Orthogroup ID

OG0001340

Physical Location & Seq

Genomic Coordinates Forward (+)

28325 .. 29578

Gene Structure 1254 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_ssc0000079.1_g000006.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

atgctcaaaagccttggtttagagggatacattgatggttcatattcttgtccgcctcaactcttggtgactgatggtagcgcagatgctagagttacaagggagtttcaagaatgggaaaggaatgataaagcattgatgactcttatcactaccactttgtctagtgaagcattatcatttgtgctccaagcaaacctgtacacaattcagaaaggtaatgacactatagacaagtattttcagcgtatcaaggacattactgatcaattagctgctgttggcggcattcattttcttgatgaagagattattatcgttgctgttaatggcctcccctctgagtacgtgactatcaaaattgtgatcaaagctcagatcacaactatgtcaatgaacaaactgcgttctcttttacttgatgaggaatctgctatggatcaatctacaaagtctatgcaagttcctcattcaactgcaattgttaaagggaatgattattatcacaataacaatgctgccatgcctatacaggttccttacacagttgcaatggttcctataactccatacttggcttctggtataacacagcagcatggttgtcttcaatcacaagtcaatactggacttgctacctctaatcgtgaagtgcagtatagtaagaggttctctcaacctaacaatggctttcattctgagcttcttaatggtttacctcaaagaggtggacagagagataagttcaatttaggtggtggcaggtactctcatagaagttctccgggttttggtacctatggtaactttggtatttttgctccatatcagtaccatcataactatgcataccagaattcaaacactagttatgtgaaatctagaagatttattaatcggcatagatgcagtggtcataatttacacaattttatcgttgatggtggatttcaacgcaacaatagtactcttgacaattctagaaatggttgcagtggtcaattaggacaagctggtggattttgcgacttcaataacatattcactcaaagtgtttcatcttcttgtgaagttttccaaatacgctcacaacttggacatctcgctagaagttgtccacaaaggtctgctcctaggcaagttgttgcaattggcttttctttacaatgttag

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

390

Amino Acids

43.27

Weight (kDa)

8.69

Isoelectric Point (pI)

43.67

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: 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)
Acc36I	ACCTGC	1 cut(s)	753
Acc65I	GGTACC	1 cut(s)	794
AccB1I	GGYRCC	1 cut(s)	794
AciI	CCGC	2 cut(s)	53, 285
AclWI	GGATC	1 cut(s)	447
AcsI	RAATTY	1 cut(s)	856
AfaI	GTAC	6 cut(s)	203, 347, 767, 796, 833, 967
AfiI	CCNNNNNNNGG	3 cut(s)	686, 725, 791
AgsI	TTSAA	7 cut(s)	110, 474, 611, 748, 861, 953, 1033
AhlI	ACTAGT	1 cut(s)	866
AluBI	AGCT	4 cut(s)	275, 374, 703, 1013
AluI	AGCT	4 cut(s)	275, 374, 703, 1013
Alw21I	GWGCWC	1 cut(s)	189
AlwI	GGATC	1 cut(s)	447
AoxI	GGCC	1 cut(s)	331
ApeKI	GCWGC	3 cut(s)	275, 518, 595
ApoI	RAATTY	1 cut(s)	856
AseI	ATTAAT	1 cut(s)	894
Asp718I	GGTACC	1 cut(s)	794
AspA2I	CCTAGG	1 cut(s)	1133
AspLEI	GCGC	1 cut(s)	83
AsuC2I	CCSGG	1 cut(s)	786
AsuHPI	GGTGA	1 cut(s)	79
AvrII	CCTAGG	1 cut(s)	1133
BanI	GGYRCC	1 cut(s)	794
BbsI	GAAGAC	1 cut(s)	599
Bbv12I	GWGCWC	1 cut(s)	189
BbvI	GCAGC	3 cut(s)	262, 505, 607
BccI	CCATC	4 cut(s)	29, 68, 843, 935
BciVI	GTATCC	1 cut(s)	20
BclI	TGATCA	2 cut(s)	265, 366
BcnI	CCSGG	1 cut(s)	786
BcuI	ACTAGT	1 cut(s)	866
BfaI	CTAG	7 cut(s)	90, 165, 867, 882, 981, 1107, 1134
BfmI	CTRYAG	1 cut(s)	228
BfuAI	ACCTGC	1 cut(s)	753
BfuI	GTATCC	1 cut(s)	20
BisI	GCNGC	4 cut(s)	276, 286, 519, 596
BlnI	CCTAGG	1 cut(s)	1133
BlsI	GCNGC	4 cut(s)	277, 287, 520, 597
BmcAI	AGTACT	1 cut(s)	967
Bme1390I	CCNGG	1 cut(s)	786
BmiI	GGNNCC	3 cut(s)	537, 558, 796
BmrFI	CCNGG	1 cut(s)	786
BmsI	GCATC	2 cut(s)	76, 896
BpiI	GAAGAC	1 cut(s)	599
BplI	GAGNNNNNCTC	2 cut(s)	658, 690
BpuMI	CCSGG	1 cut(s)	786
BsaAI	YACGTR	1 cut(s)	349
BsaBI	GATNNNNATC	2 cut(s)	314, 501
BsaJI	CCNNGG	2 cut(s)	13, 1133
Bsc4I	CCNNNNNNNGG	3 cut(s)	686, 725, 791
Bse1I	ACTGG	1 cut(s)	631
Bse3DI	GCAATG	1 cut(s)	558
Bse8I	GATNNNNATC	2 cut(s)	314, 501
BseDI	CCNNGG	2 cut(s)	13, 1133
BseJI	GATNNNNATC	2 cut(s)	314, 501
BseLI	CCNNNNNNNGG	3 cut(s)	686, 725, 791
BseMI	GCAATG	1 cut(s)	558
BseMII	CTCAG	3 cut(s)	333, 389, 690
BseNI	ACTGG	1 cut(s)	631
BseXI	GCAGC	3 cut(s)	262, 505, 607
BsgI	GTGCAG	1 cut(s)	674
BshFI	GGCC	1 cut(s)	333
BshNI	GGYRCC	1 cut(s)	794
BsiHKAI	GWGCWC	1 cut(s)	189
BsiSI	CCGG	1 cut(s)	785
BslI	CCNNNNNNNGG	3 cut(s)	686, 725, 791
BsmI	GAATGC	1 cut(s)	288
BsnI	GGCC	1 cut(s)	333
Bsp1286I	GDGCHC	1 cut(s)	189
Bsp1407I	TGTACA	1 cut(s)	201
Bsp143I	GATC	4 cut(s)	265, 366, 378, 439
BspACI	CCGC	2 cut(s)	53, 285
BspANI	GGCC	1 cut(s)	333
BspCNI	CTCAG	3 cut(s)	334, 388, 691
BspLI	GGNNCC	3 cut(s)	537, 558, 796
BspMI	ACCTGC	1 cut(s)	753
BspPI	GGATC	1 cut(s)	447
BspT107I	GGYRCC	1 cut(s)	794
BsrDI	GCAATG	1 cut(s)	558
BsrGI	TGTACA	1 cut(s)	201
BsrI	ACTGG	1 cut(s)	631
BssECI	CCNNGG	2 cut(s)	13, 1133
BssMI	GATC	4 cut(s)	265, 366, 378, 439
BssT1I	CCWWGG	2 cut(s)	13, 1133
Bst4CI	ACNGT	1 cut(s)	547
Bst6I	CTCTTC	1 cut(s)	300
BstAUI	TGTACA	1 cut(s)	201
BstBAI	YACGTR	1 cut(s)	349
BstDEI	CTNAG	3 cut(s)	342, 375, 699
BstENI	CCTNNNNNAGG	1 cut(s)	723
BstHHI	GCGC	1 cut(s)	83
BstKTI	GATC	4 cut(s)	268, 369, 381, 442
BstMBI	GATC	4 cut(s)	265, 366, 378, 439
BstSCI	CCNGG	1 cut(s)	784
BstSFI	CTRYAG	1 cut(s)	228
BstV1I	GCAGC	3 cut(s)	262, 505, 607
BstV2I	GAAGAC	1 cut(s)	599
BsuI	GTATCC	1 cut(s)	20
BsuRI	GGCC	1 cut(s)	333
BtsI	GCAGTG	2 cut(s)	916, 1000
BtsIMutI	CAGTG	2 cut(s)	916, 1000
BveI	ACCTGC	1 cut(s)	753
CfoI	GCGC	1 cut(s)	83
Csp6I	GTAC	6 cut(s)	202, 346, 766, 795, 832, 966
CspCI	CAANNNNNGTGG	2 cut(s)	736, 771
CviAII	CATG	2 cut(s)	523, 599
CviJI	RGCY	9 cut(s)	12, 275, 333, 374, 578, 690, 703, 1013, 1155
CviKI_1	RGCY	9 cut(s)	12, 275, 333, 374, 578, 690, 703, 1013, 1155
CviQI	GTAC	6 cut(s)	202, 346, 766, 795, 832, 966
DdeI	CTNAG	3 cut(s)	342, 375, 699
DpnI	GATC	4 cut(s)	267, 368, 380, 441
DpnII	GATC	4 cut(s)	265, 366, 378, 439
Eam1104I	CTCTTC	1 cut(s)	300
EarI	CTCTTC	1 cut(s)	300
EciI	GGCGGA	1 cut(s)	42
Eco130I	CCWWGG	2 cut(s)	13, 1133
EcoNI	CCTNNNNNAGG	1 cut(s)	723
EcoRI	GAATTC	1 cut(s)	856
EcoT14I	CCWWGG	2 cut(s)	13, 1133
EcoT22I	ATGCAT	1 cut(s)	850
ErhI	CCWWGG	2 cut(s)	13, 1133
FaeI	CATG	2 cut(s)	526, 602
FatI	CATG	2 cut(s)	522, 598
FbaI	TGATCA	2 cut(s)	265, 366
Fnu4HI	GCNGC	4 cut(s)	276, 286, 519, 596
Fsp4HI	GCNGC	4 cut(s)	276, 286, 519, 596
FspBI	CTAG	7 cut(s)	90, 165, 867, 882, 981, 1107, 1134
GlaI	GCGC	1 cut(s)	82
GluI	GCNGC	4 cut(s)	276, 286, 519, 596
HaeIII	GGCC	1 cut(s)	333
HapII	CCGG	1 cut(s)	785
HhaI	GCGC	1 cut(s)	83
Hin1II	CATG	2 cut(s)	526, 602
Hin6I	GCGC	1 cut(s)	81
HinP1I	GCGC	1 cut(s)	81
HinfI	GANTC	2 cut(s)	142, 428
HpaII	CCGG	1 cut(s)	785
HphI	GGTGA	1 cut(s)	79
Hpy166II	GTNNAC	4 cut(s)	204, 716, 731, 1118
Hpy188I	TCNGA	4 cut(s)	213, 343, 378, 700
Hpy188III	TCNNGA	6 cut(s)	110, 299, 647, 882, 971, 981
Hpy8I	GTNNAC	4 cut(s)	204, 716, 731, 1118
HpyCH4III	ACNGT	1 cut(s)	547
HpyCH4IV	ACGT	1 cut(s)	348
HpyCH4V	TGCA	8 cut(s)	460, 479, 551, 655, 848, 909, 993, 1148
HpyF3I	CTNAG	3 cut(s)	342, 375, 699
HpySE526I	ACGT	1 cut(s)	348
Hsp92II	CATG	2 cut(s)	526, 602
HspAI	GCGC	1 cut(s)	81
KpnI	GGTACC	1 cut(s)	798
Ksp22I	TGATCA	2 cut(s)	265, 366
Kzo9I	GATC	4 cut(s)	265, 366, 378, 439
LmnI	GCTCC	3 cut(s)	192, 826, 1135
LpnPI	CCDG	8 cut(s)	212, 518, 567, 612, 748, 798, 866, 999
Lsp1109I	GCAGC	3 cut(s)	262, 505, 607
LweI	GCATC	2 cut(s)	76, 896
MaeI	CTAG	7 cut(s)	90, 165, 867, 882, 981, 1107, 1134
MaeII	ACGT	1 cut(s)	348
MaeIII	GTNAC	4 cut(s)	67, 94, 349, 803
MalI	GATC	4 cut(s)	267, 368, 380, 441
MboI	GATC	4 cut(s)	265, 366, 378, 439
MboII	GAAGA	4 cut(s)	317, 599, 897, 1053
MfeI	CAATTG	2 cut(s)	480, 1149
MhlI	GDGCHC	1 cut(s)	189
MlyI	GAGTC	1 cut(s)	136
Mph1103I	ATGCAT	1 cut(s)	850
MseI	TTAA	4 cut(s)	327, 486, 708, 894
MslI	CAYNNNNRTG	2 cut(s)	386, 843
MspI	CCGG	1 cut(s)	785
MspR9I	CCNGG	1 cut(s)	786
MunI	CAATTG	2 cut(s)	480, 1149
Mva1269I	GAATGC	1 cut(s)	288
NciI	CCSGG	1 cut(s)	786
NdeII	GATC	4 cut(s)	265, 366, 378, 439
NlaIII	CATG	2 cut(s)	526, 602
NlaIV	GGNNCC	3 cut(s)	537, 558, 796
NmuCI	GTSAC	2 cut(s)	67, 349
NsiI	ATGCAT	1 cut(s)	850
PctI	GAATGC	1 cut(s)	288
PfeI	GAWTC	1 cut(s)	428
PkrI	GCNGC	4 cut(s)	277, 287, 520, 597
PleI	GAGTC	1 cut(s)	136
PpsI	GAGTC	1 cut(s)	136
Ppu21I	YACGTR	1 cut(s)	349
PshBI	ATTAAT	1 cut(s)	894
PspN4I	GGNNCC	3 cut(s)	537, 558, 796
RsaI	GTAC	6 cut(s)	203, 347, 767, 796, 833, 967
RsaNI	GTAC	6 cut(s)	202, 346, 766, 795, 832, 966
RseI	CAYNNNNRTG	2 cut(s)	386, 843
SaqAI	TTAA	4 cut(s)	327, 486, 708, 894
SatI	GCNGC	4 cut(s)	276, 286, 519, 596
Sau3AI	GATC	4 cut(s)	265, 366, 378, 439
ScaI	AGTACT	1 cut(s)	967
SchI	GAGTC	1 cut(s)	136
ScrFI	CCNGG	1 cut(s)	786
SduI	GDGCHC	1 cut(s)	189
SfaNI	GCATC	2 cut(s)	76, 896
SfcI	CTRYAG	1 cut(s)	228
SmiMI	CAYNNNNRTG	2 cut(s)	386, 843
SpeI	ACTAGT	1 cut(s)	866
SsiI	CCGC	2 cut(s)	53, 285
SspMI	CTAG	7 cut(s)	90, 165, 867, 882, 981, 1107, 1134
StyD4I	CCNGG	1 cut(s)	784
StyI	CCWWGG	2 cut(s)	13, 1133
TaaI	ACNGT	1 cut(s)	547
TaiI	ACGT	1 cut(s)	351
TatI	WGTACW	2 cut(s)	201, 965
TauI	GCSGC	1 cut(s)	288
TfiI	GAWTC	1 cut(s)	428
Tru1I	TTAA	4 cut(s)	327, 486, 708, 894
Tru9I	TTAA	4 cut(s)	327, 486, 708, 894
TscAI	CASTG	2 cut(s)	916, 1000
TseFI	GTSAC	2 cut(s)	67, 349
TseI	GCWGC	3 cut(s)	275, 518, 595
Tsp45I	GTSAC	2 cut(s)	67, 349
TspDTI	ATGAA	6 cut(s)	30, 281, 318, 410, 683, 1047
TspRI	CASTG	2 cut(s)	916, 1000
VspI	ATTAAT	1 cut(s)	894
XagI	CCTNNNNNAGG	1 cut(s)	723
XapI	RAATTY	1 cut(s)	856
XbaI	TCTAGA	2 cut(s)	881, 980
XmaJI	CCTAGG	1 cut(s)	1133
XspI	CTAG	7 cut(s)	90, 165, 867, 882, 981, 1107, 1134
ZrmI	AGTACT	1 cut(s)	967
Zsp2I	ATGCAT	1 cut(s)	850

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