Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0004343.1

Orthogroup ID

OG0003287

Physical Location & Seq

Genomic Coordinates Reverse (-)

90726 .. 92705

Gene Structure 1980 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0004343.1_g000026.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

atggacaaccacactaccaaaagctgcagggcacacctcaagtgtacgtattgtggcctcaaaggctatacgtatgactactgctgcaagagaaacaaaacattggtaggagaagaagggaactcgaaagcaaactttgtgggaatgtctaatgaaggcaatgaagaccttactggtcttcctttatcacagagtgaatacaagcagatgatgggatttttgagcaagattaaggccgcagctagcaagaccaatgacggtcatcagttgctagagatgttgaacactacacagccatcctctacaaattttgtcggtaacgttcctaattttgaagagatgtcaggtaatgcatttgctctcacacaacacaataaagatgtgatttggatattagacagtggagctggtgaccatattgaccttcaattgggaaggatgattgggacgggagctgaaagtgagggactctactgcctcaatatgcccaagaaaggaacgtgtaatgtggtgaagaccaaaactcaagacttgtggcatcaacgactcgatcctaactttccaaatcttttaggatcacaatctgattccaatcctaactctccaaatcttccaggatcacaatctgattccaatcctaactctcccatttcttcctcaaccgtatcacctaccactcattctccaatcatctcaaactcttccacttcccaagaagtcactccacaaccacgacagtccacaagagacaccagaaggctgaccacattgcaaggctttcacattaaggcagcccttccttcccaccctataccgtcatcctccgcgagtgaagtttag

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_3 Retrotrans_gag

Protein Analysis

279

Amino Acids

30.28

Weight (kDa)

6.74

Isoelectric Point (pI)

56.9

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: OG0003287)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11591
fragaria_vesca	FvH4_2g20411 FvH4_2g29931 FvH4_3g14181 FvH4_4g00781 FvH4_4g12541 FvH4_5g22143 FvH4_7g24581
pyrus_communis	pycom04g03170 pycom05g18080 pycom12g05030 pycom13g18540
rosa_chinensis	RchiOBHm_Chr1g0313681 RchiOBHm_Chr1g0344501 RchiOBHm_Chr2g0157511
rosa_laevigata	RLG00000008144 RLG00000008360
rosa_multiflora	Rmu_sc0003765.1_g000035 Rmu_sc0004343.1_g000026 Rmu_sc0006087.1_g000011
rosa_roxburghii	Rroxscaffold_1G00038680 Rroxscaffold_3G00247490 Rroxscaffold_4G00315330 Rroxscaffold_5G00355970 Rroxscaffold_7G00214090
rosa_rugosa	Rorug04G0109300 Rorug04G0109400
rosa_samantha	Rh1AG403200 Rh4AG167500 Rh4BG164600 Rh4CG179400 Rh4DG162300
rosa_wichuraiana	Rw4G013620 Rw4G013850 Rw4G013950 Rw6G038170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	827
AciI	CCGC	2 cut(s)	237, 825
AclI	AACGTT	1 cut(s)	321
AclWI	GGATC	3 cut(s)	545, 583, 625
AcsI	RAATTY	1 cut(s)	307
AdeI	CACNNNGTG	1 cut(s)	194
AfaI	GTAC	1 cut(s)	46
AfiI	CCNNNNNNNGG	2 cut(s)	430, 494
AflIII	ACRYGT	1 cut(s)	500
AgsI	TTSAA	3 cut(s)	283, 335, 428
AjnI	CCWGG	1 cut(s)	613
AluBI	AGCT	4 cut(s)	24, 242, 407, 455
AluI	AGCT	4 cut(s)	24, 242, 407, 455
Alw26I	GTCTC	1 cut(s)	741
AlwI	GGATC	3 cut(s)	545, 583, 625
AoxI	GGCC	2 cut(s)	55, 234
ApeKI	GCWGC	4 cut(s)	24, 84, 239, 791
ApoI	RAATTY	1 cut(s)	307
AsuHPI	GGTGA	3 cut(s)	422, 523, 660
AsuNHI	GCTAGC	1 cut(s)	242
BaeGI	GKGCMC	1 cut(s)	34
BbsI	GAAGAC	3 cut(s)	170, 171, 521
BbvI	GCAGC	4 cut(s)	11, 71, 251, 803
BccI	CCATC	2 cut(s)	205, 304
BciT130I	CCWGG	1 cut(s)	615
BcoDI	GTCTC	1 cut(s)	741
BfaI	CTAG	2 cut(s)	243, 272
BfmI	CTRYAG	1 cut(s)	25
BglI	GCCNNNNNGGC	1 cut(s)	63
BisI	GCNGC	5 cut(s)	25, 85, 237, 240, 792
BlsI	GCNGC	5 cut(s)	26, 86, 238, 241, 793
Bme1390I	CCNGG	1 cut(s)	615
BmrFI	CCNGG	1 cut(s)	615
BmsI	GCATC	1 cut(s)	547
BmtI	GCTAGC	1 cut(s)	246
BpiI	GAAGAC	3 cut(s)	170, 171, 521
BpuEI	CTTGAG	2 cut(s)	23, 510
BsaAI	YACGTR	2 cut(s)	48, 72
BsaBI	GATNNNNATC	4 cut(s)	580, 591, 622, 633
BsaXI	ACNNNNNCTCC	2 cut(s)	667, 697
Bsc4I	CCNNNNNNNGG	2 cut(s)	430, 494
Bse1I	ACTGG	1 cut(s)	178
Bse3DI	GCAATG	2 cut(s)	166, 767
Bse8I	GATNNNNATC	4 cut(s)	580, 591, 622, 633
BseBI	CCWGG	1 cut(s)	615
BseGI	GGATG	3 cut(s)	296, 444, 818
BseJI	GATNNNNATC	4 cut(s)	580, 591, 622, 633
BseLI	CCNNNNNNNGG	2 cut(s)	430, 494
BseMI	GCAATG	2 cut(s)	166, 767
BseNI	ACTGG	1 cut(s)	178
BseSI	GKGCMC	1 cut(s)	34
BseXI	GCAGC	4 cut(s)	11, 71, 251, 803
Bsh1236I	CGCG	1 cut(s)	827
BshFI	GGCC	2 cut(s)	57, 236
BslFI	GGGAC	2 cut(s)	460, 480
BslI	CCNNNNNNNGG	2 cut(s)	430, 494
BsmAI	GTCTC	1 cut(s)	741
BsmFI	GGGAC	2 cut(s)	460, 480
BsnI	GGCC	2 cut(s)	57, 236
Bsp1286I	GDGCHC	1 cut(s)	34
Bsp143I	GATC	3 cut(s)	550, 575, 617
BspACI	CCGC	2 cut(s)	237, 825
BspANI	GGCC	2 cut(s)	57, 236
BspFNI	CGCG	1 cut(s)	827
BspMAI	CTGCAG	1 cut(s)	29
BspOI	GCTAGC	1 cut(s)	246
BspPI	GGATC	3 cut(s)	545, 583, 625
BsrDI	GCAATG	2 cut(s)	166, 767
BsrI	ACTGG	1 cut(s)	178
BssMI	GATC	3 cut(s)	550, 575, 617
Bst2UI	CCWGG	1 cut(s)	615
Bst4CI	ACNGT	5 cut(s)	260, 401, 664, 738, 816
Bst6I	CTCTTC	2 cut(s)	330, 706
BstBAI	YACGTR	2 cut(s)	48, 72
BstC8I	GCNNGC	1 cut(s)	244
BstEII	GGTNACC	1 cut(s)	410
BstF5I	GGATG	3 cut(s)	296, 444, 818
BstFNI	CGCG	1 cut(s)	827
BstKTI	GATC	3 cut(s)	553, 578, 620
BstMAI	GTCTC	1 cut(s)	741
BstMBI	GATC	3 cut(s)	550, 575, 617
BstMWI	GCNNNNNNNGC	1 cut(s)	63
BstNI	CCWGG	1 cut(s)	615
BstPI	GGTNACC	1 cut(s)	410
BstSCI	CCNGG	1 cut(s)	613
BstSFI	CTRYAG	1 cut(s)	25
BstSLI	GKGCMC	1 cut(s)	34
BstSNI	TACGTA	2 cut(s)	48, 72
BstUI	CGCG	1 cut(s)	827
BstV1I	GCAGC	4 cut(s)	11, 71, 251, 803
BstV2I	GAAGAC	3 cut(s)	170, 171, 521
BsuRI	GGCC	2 cut(s)	57, 236
BtsCI	GGATG	3 cut(s)	296, 444, 818
BtsIMutI	CAGTG	1 cut(s)	406
Cac8I	GCNNGC	1 cut(s)	244
Csp6I	GTAC	1 cut(s)	45
CspCI	CAANNNNNGTGG	4 cut(s)	120, 155, 515, 550
CviQI	GTAC	1 cut(s)	45
DpnI	GATC	3 cut(s)	552, 577, 619
DpnII	GATC	3 cut(s)	550, 575, 617
DraIII	CACNNNGTG	1 cut(s)	194
Eam1104I	CTCTTC	2 cut(s)	330, 706
EarI	CTCTTC	2 cut(s)	330, 706
Eco105I	TACGTA	2 cut(s)	48, 72
Eco91I	GGTNACC	1 cut(s)	410
EcoO65I	GGTNACC	1 cut(s)	410
EcoRII	CCWGG	1 cut(s)	613
EcoT22I	ATGCAT	1 cut(s)	355
FaiI	YATR	5 cut(s)	69, 75, 417, 485, 812
FaqI	GGGAC	2 cut(s)	460, 480
Fnu4HI	GCNGC	5 cut(s)	25, 85, 237, 240, 792
FokI	GGATG	3 cut(s)	283, 451, 805
Fsp4HI	GCNGC	5 cut(s)	25, 85, 237, 240, 792
FspBI	CTAG	2 cut(s)	243, 272
GluI	GCNGC	5 cut(s)	25, 85, 237, 240, 792
HaeIII	GGCC	2 cut(s)	57, 236
HinfI	GANTC	4 cut(s)	468, 546, 587, 629
HphI	GGTGA	3 cut(s)	422, 523, 660
Hpy166II	GTNNAC	2 cut(s)	45, 741
Hpy188I	TCNGA	2 cut(s)	586, 628
Hpy188III	TCNNGA	1 cut(s)	527
Hpy8I	GTNNAC	2 cut(s)	45, 741
HpyAV	CCTTC	7 cut(s)	110, 149, 429, 434, 750, 806, 810
HpyCH4III	ACNGT	5 cut(s)	260, 401, 664, 738, 816
HpyCH4IV	ACGT	4 cut(s)	47, 71, 321, 500
HpyCH4V	TGCA	4 cut(s)	27, 87, 353, 772
HpyF10VI	GCNNNNNNNGC	1 cut(s)	63
HpySE526I	ACGT	4 cut(s)	47, 71, 321, 500
Kzo9I	GATC	3 cut(s)	550, 575, 617
LmnI	GCTCC	2 cut(s)	404, 452
LpnPI	CCDG	7 cut(s)	13, 159, 330, 393, 600, 627, 766
Lsp1109I	GCAGC	4 cut(s)	11, 71, 251, 803
LweI	GCATC	1 cut(s)	547
MaeI	CTAG	2 cut(s)	243, 272
MaeII	ACGT	4 cut(s)	47, 71, 321, 500
MaeIII	GTNAC	3 cut(s)	317, 410, 718
MalI	GATC	3 cut(s)	552, 577, 619
MboI	GATC	3 cut(s)	550, 575, 617
MboII	GAAGA	8 cut(s)	125, 170, 176, 347, 526, 602, 645, 693
MfeI	CAATTG	1 cut(s)	428
MhlI	GDGCHC	1 cut(s)	34
MluCI	AATT	3 cut(s)	307, 328, 428
MlyI	GAGTC	2 cut(s)	462, 540
MnlI	CCTC	7 cut(s)	47, 68, 310, 457, 488, 667, 832
Mph1103I	ATGCAT	1 cut(s)	355
MseI	TTAA	2 cut(s)	231, 786
MspR9I	CCNGG	1 cut(s)	615
MunI	CAATTG	1 cut(s)	428
MvaI	CCWGG	1 cut(s)	615
MvnI	CGCG	1 cut(s)	827
MwoI	GCNNNNNNNGC	1 cut(s)	63
NdeII	GATC	3 cut(s)	550, 575, 617
NheI	GCTAGC	1 cut(s)	242
NmuCI	GTSAC	2 cut(s)	410, 718
NsiI	ATGCAT	1 cut(s)	355
PfeI	GAWTC	2 cut(s)	587, 629
PfoI	TCCNGGA	1 cut(s)	613
PkrI	GCNGC	5 cut(s)	26, 86, 238, 241, 793
PleI	GAGTC	2 cut(s)	462, 540
PpsI	GAGTC	2 cut(s)	462, 540
Ppu21I	YACGTR	2 cut(s)	48, 72
Psp1406I	AACGTT	1 cut(s)	321
Psp6I	CCWGG	1 cut(s)	613
PspEI	GGTNACC	1 cut(s)	410
PspGI	CCWGG	1 cut(s)	613
PstI	CTGCAG	1 cut(s)	29
RsaI	GTAC	1 cut(s)	46
RsaNI	GTAC	1 cut(s)	45
SaqAI	TTAA	2 cut(s)	231, 786
SatI	GCNGC	5 cut(s)	25, 85, 237, 240, 792
Sau3AI	GATC	3 cut(s)	550, 575, 617
SchI	GAGTC	2 cut(s)	462, 540
ScrFI	CCNGG	1 cut(s)	615
SduI	GDGCHC	1 cut(s)	34
SfaNI	GCATC	1 cut(s)	547
SfcI	CTRYAG	1 cut(s)	25
SmlI	CTYRAG	2 cut(s)	38, 525
SmoI	CTYRAG	2 cut(s)	38, 525
SnaBI	TACGTA	2 cut(s)	48, 72
Sse9I	AATT	3 cut(s)	307, 328, 428
SsiI	CCGC	2 cut(s)	237, 825
SspMI	CTAG	2 cut(s)	243, 272
StyD4I	CCNGG	1 cut(s)	613
TaaI	ACNGT	5 cut(s)	260, 401, 664, 738, 816
TaiI	ACGT	4 cut(s)	50, 74, 324, 503
TaqI	TCGA	2 cut(s)	125, 549
TasI	AATT	3 cut(s)	307, 328, 428
TauI	GCSGC	1 cut(s)	239
TfiI	GAWTC	2 cut(s)	587, 629
Tru1I	TTAA	2 cut(s)	231, 786
Tru9I	TTAA	2 cut(s)	231, 786
TscAI	CASTG	1 cut(s)	406
TseFI	GTSAC	2 cut(s)	410, 718
TseI	GCWGC	4 cut(s)	24, 84, 239, 791
Tsp45I	GTSAC	2 cut(s)	410, 718
TspDTI	ATGAA	2 cut(s)	168, 177
TspRI	CASTG	1 cut(s)	406
XapI	RAATTY	1 cut(s)	307
XspI	CTAG	2 cut(s)	243, 272
Zsp2I	ATGCAT	1 cut(s)	355

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