Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0003882.1

Orthogroup ID

OG0001407

Physical Location & Seq

Genomic Coordinates Reverse (-)

84841 .. 86144

Gene Structure 1304 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rmu_sc0003882.1_g000025.1.cds

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1050 bp

atgggagagtttctcaaggttcaaacttctactaatgtggagaccaagcaaagcatatcttcactagttcaagggtatcaaactctacaacaaggcatggctagactagaggtacaagtgggccaaatggccaccaacacgagtgagagaccagaaggagccttaccttcacaaccggagccaaatccaagaggccaaatcagtgaatgcaatgtcattaccactctacgttcgggaaaggtatatgataatcaagtttacatgcccacatcttctagtttccatacaaatcctttatttgatgatgatattgacttgcattcatatggggccaagagggaagaaaatgtacctctttgtcatgttattgatgatcaattgcatatatatcatgattctatttatctcaaggaggatgggatcggaagggaagaaaatgtaccttccgaagctattcttggcaaaagttatggtttcttatcctttgcgaatgatgtgagaaaatatggtttgattgatagtggcaaggaaagagctttattgaaaaagaacacttctagggatgaggatgcttcggcccctaaattagatggtgaggccatgaaggctagggacccatctaaggccaatgacacctctaagaagaaccctagtgggaccgtgactgcccttaggggcatcaccggaagcctcacctttgatccacctcttgatttgaatacatcggagccaccacttccttatcctaatgccgcaagaagagaaaattcaaagaggggtaagaagaagagtgggttgatgagggagatacaagaaatatttaagaaagtggatgtcaatatcccattgatggacctcattcatcaagtgccggtgtatgctcaatttctcaagagcttgtgcatgaacaaaaagaaattcaaagccaatgagacatttgagttgaaggaggaagtaagtgcaaatatccaacgaaggctaccaccaaagatgcaagatatggggagctttactatagggtgtactataggagagaaagtgtttgaatga

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

349

Amino Acids

38.93

Weight (kDa)

6.63

Isoelectric Point (pI)

47.26

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)
AciI	CCGC	1 cut(s)	753
AclWI	GGATC	2 cut(s)	428, 695
AcoI	YGGCCR	1 cut(s)	129
AcsI	RAATTY	2 cut(s)	766, 917
AfaI	GTAC	4 cut(s)	114, 351, 441, 1024
AfiI	CCNNNNNNNGG	2 cut(s)	622, 850
AgsI	TTSAA	8 cut(s)	23, 71, 544, 718, 771, 922, 946, 1046
AhlI	ACTAGT	1 cut(s)	64
AjuI	GAANNNNNNNTTGG	2 cut(s)	441, 473
AluBI	AGCT	4 cut(s)	452, 536, 897, 1008
AluI	AGCT	4 cut(s)	452, 536, 897, 1008
Alw26I	GTCTC	3 cut(s)	35, 142, 926
AlwI	GGATC	2 cut(s)	428, 695
AoxI	GGCC	7 cut(s)	121, 129, 193, 330, 576, 597, 624
ApoI	RAATTY	2 cut(s)	766, 917
Asp700I	GAANNNNTTC	1 cut(s)	453
AspS9I	GGNCC	6 cut(s)	121, 330, 577, 613, 657, 853
AsuHPI	GGTGA	3 cut(s)	605, 673, 685
AvaII	GGWCC	3 cut(s)	613, 657, 853
AxyI	CCTNAGG	1 cut(s)	671
BalI	TGGCCA	1 cut(s)	131
BarI	GAAGNNNNNNTAC	6 cut(s)	147, 179, 333, 365, 423, 455
BauI	CACGAG	1 cut(s)	139
BccI	CCATC	4 cut(s)	410, 584, 625, 844
BclI	TGATCA	1 cut(s)	373
BcoDI	GTCTC	3 cut(s)	35, 142, 926
BcuI	ACTAGT	1 cut(s)	64
BfaI	CTAG	7 cut(s)	65, 102, 107, 276, 558, 609, 651
BfmI	CTRYAG	2 cut(s)	1014, 1026
BglI	GCCNNNNNGGC	1 cut(s)	605
BisI	GCNGC	1 cut(s)	753
BlsI	GCNGC	1 cut(s)	754
Bme18I	GGWCC	3 cut(s)	613, 657, 853
BmgT120I	GGNCC	6 cut(s)	121, 330, 577, 613, 657, 853
BmiI	GGNNCC	8 cut(s)	160, 180, 331, 579, 614, 615, 658, 729
BmsI	GCATC	3 cut(s)	559, 687, 981
BplI	GAGNNNNNCTC	1 cut(s)	29
BpuEI	CTTGAG	2 cut(s)	392, 875
BsaI	GGTCTC	2 cut(s)	35, 142
BsaWI	WCCGGW	2 cut(s)	175, 683
BsaXI	ACNNNNNCTCC	1 cut(s)	1023
Bsc4I	CCNNNNNNNGG	2 cut(s)	622, 850
Bse118I	RCCGGY	1 cut(s)	871
Bse21I	CCTNAGG	1 cut(s)	671
Bse3DI	GCAATG	1 cut(s)	217
BseGI	GGATG	4 cut(s)	421, 568, 574, 838
BseLI	CCNNNNNNNGG	2 cut(s)	622, 850
BseMI	GCAATG	1 cut(s)	217
BshFI	GGCC	7 cut(s)	123, 131, 195, 332, 578, 599, 626
BsiSI	CCGG	3 cut(s)	176, 684, 872
BslFI	GGGAC	2 cut(s)	626, 670
BslI	CCNNNNNNNGG	2 cut(s)	622, 850
BsmAI	GTCTC	3 cut(s)	35, 142, 926
BsmFI	GGGAC	2 cut(s)	626, 670
BsmI	GAATGC	2 cut(s)	212, 319
BsnI	GGCC	7 cut(s)	123, 131, 195, 332, 578, 599, 626
Bso31I	GGTCTC	2 cut(s)	35, 142
Bsp143I	GATC	3 cut(s)	373, 420, 700
BspACI	CCGC	1 cut(s)	753
BspANI	GGCC	7 cut(s)	123, 131, 195, 332, 578, 599, 626
BspHI	TCATGA	1 cut(s)	391
BspLI	GGNNCC	8 cut(s)	160, 180, 331, 579, 614, 615, 658, 729
BspPI	GGATC	2 cut(s)	428, 695
BspTNI	GGTCTC	2 cut(s)	35, 142
BsrDI	GCAATG	1 cut(s)	217
BsrFI	RCCGGY	1 cut(s)	871
BssAI	RCCGGY	1 cut(s)	871
BssMI	GATC	3 cut(s)	373, 420, 700
BssSI	CACGAG	1 cut(s)	139
Bst2BI	CACGAG	1 cut(s)	139
Bst4CI	ACNGT	1 cut(s)	661
Bst6I	CTCTTC	2 cut(s)	754, 782
BstDEI	CTNAG	3 cut(s)	621, 639, 671
BstF5I	GGATG	4 cut(s)	421, 568, 574, 838
BstKTI	GATC	3 cut(s)	376, 423, 703
BstMAI	GTCTC	3 cut(s)	35, 142, 926
BstMBI	GATC	3 cut(s)	373, 420, 700
BstMWI	GCNNNNNNNGC	1 cut(s)	605
BstNSI	RCATGY	1 cut(s)	265
BstSFI	CTRYAG	2 cut(s)	1014, 1026
Bsu36I	CCTNAGG	1 cut(s)	671
BsuRI	GGCC	7 cut(s)	123, 131, 195, 332, 578, 599, 626
BtsCI	GGATG	4 cut(s)	421, 568, 574, 838
BtsIMutI	CAGTG	1 cut(s)	208
CciI	TCATGA	1 cut(s)	391
Cfr10I	RCCGGY	1 cut(s)	871
Cfr13I	GGNCC	6 cut(s)	121, 330, 577, 613, 657, 853
Csp6I	GTAC	4 cut(s)	113, 350, 440, 1023
CviAII	CATG	6 cut(s)	97, 262, 362, 392, 601, 904
CviQI	GTAC	4 cut(s)	113, 350, 440, 1023
DdeI	CTNAG	3 cut(s)	621, 639, 671
DpnI	GATC	3 cut(s)	375, 422, 702
DpnII	GATC	3 cut(s)	373, 420, 700
EaeI	YGGCCR	1 cut(s)	129
Eam1104I	CTCTTC	2 cut(s)	754, 782
EarI	CTCTTC	2 cut(s)	754, 782
Eco31I	GGTCTC	2 cut(s)	35, 142
Eco47I	GGWCC	3 cut(s)	613, 657, 853
Eco81I	CCTNAGG	1 cut(s)	671
EcoO109I	RGGNCCY	1 cut(s)	613
FaeI	CATG	6 cut(s)	100, 265, 365, 395, 604, 907
FalI	AAGNNNNNCTT	4 cut(s)	43, 75, 441, 473
FaqI	GGGAC	2 cut(s)	626, 670
FatI	CATG	6 cut(s)	96, 261, 361, 391, 600, 903
FauNDI	CATATG	1 cut(s)	325
FbaI	TGATCA	1 cut(s)	373
Fnu4HI	GCNGC	1 cut(s)	753
FokI	GGATG	4 cut(s)	428, 575, 581, 845
Fsp4HI	GCNGC	1 cut(s)	753
FspBI	CTAG	7 cut(s)	65, 102, 107, 276, 558, 609, 651
GluI	GCNGC	1 cut(s)	753
HaeIII	GGCC	7 cut(s)	123, 131, 195, 332, 578, 599, 626
HapII	CCGG	3 cut(s)	176, 684, 872
Hin1II	CATG	6 cut(s)	100, 265, 365, 395, 604, 907
HinfI	GANTC	1 cut(s)	395
HpaII	CCGG	3 cut(s)	176, 684, 872
HphI	GGTGA	3 cut(s)	605, 673, 685
Hpy166II	GTNNAC	2 cut(s)	259, 1023
Hpy188I	TCNGA	3 cut(s)	425, 448, 727
Hpy188III	TCNNGA	4 cut(s)	234, 392, 710, 892
Hpy8I	GTNNAC	2 cut(s)	259, 1023
HpyAV	CCTTC	7 cut(s)	149, 177, 420, 453, 598, 940, 969
HpyCH4III	ACNGT	1 cut(s)	661
HpyCH4IV	ACGT	1 cut(s)	229
HpyCH4V	TGCA	6 cut(s)	210, 319, 382, 903, 962, 994
HpyF10VI	GCNNNNNNNGC	1 cut(s)	605
HpyF3I	CTNAG	3 cut(s)	621, 639, 671
HpySE526I	ACGT	1 cut(s)	229
Hsp92II	CATG	6 cut(s)	100, 265, 365, 395, 604, 907
KflI	GGGWCCC	1 cut(s)	613
Ksp22I	TGATCA	1 cut(s)	373
Kzo9I	GATC	3 cut(s)	373, 420, 700
LmnI	GCTCC	4 cut(s)	158, 178, 727, 1005
LpnPI	CCDG	4 cut(s)	165, 189, 697, 885
LweI	GCATC	3 cut(s)	559, 687, 981
MaeI	CTAG	7 cut(s)	65, 102, 107, 276, 558, 609, 651
MaeII	ACGT	1 cut(s)	229
MaeIII	GTNAC	1 cut(s)	661
MalI	GATC	3 cut(s)	375, 422, 702
MboI	GATC	3 cut(s)	373, 420, 700
MboII	GAAGA	8 cut(s)	51, 264, 353, 443, 655, 771, 796, 799
MfeI	CAATTG	1 cut(s)	377
MlsI	TGGCCA	1 cut(s)	131
MluCI	AATT	5 cut(s)	377, 584, 766, 884, 917
MluNI	TGGCCA	1 cut(s)	131
MmeI	TCCRAC	1 cut(s)	994
Mox20I	TGGCCA	1 cut(s)	131
MroXI	GAANNNNTTC	1 cut(s)	453
MscI	TGGCCA	1 cut(s)	131
MseI	TTAA	1 cut(s)	822
MslI	CAYNNNNRTG	1 cut(s)	324
Msp20I	TGGCCA	1 cut(s)	131
MspI	CCGG	3 cut(s)	176, 684, 872
MunI	CAATTG	1 cut(s)	377
Mva1269I	GAATGC	2 cut(s)	212, 319
MwoI	GCNNNNNNNGC	1 cut(s)	605
NdeI	CATATG	1 cut(s)	325
NdeII	GATC	3 cut(s)	373, 420, 700
NlaIII	CATG	6 cut(s)	100, 265, 365, 395, 604, 907
NlaIV	GGNNCC	8 cut(s)	160, 180, 331, 579, 614, 615, 658, 729
NmuCI	GTSAC	1 cut(s)	661
NspI	RCATGY	1 cut(s)	265
PagI	TCATGA	1 cut(s)	391
PctI	GAATGC	2 cut(s)	212, 319
PdmI	GAANNNNTTC	1 cut(s)	453
PfeI	GAWTC	1 cut(s)	395
PkrI	GCNGC	1 cut(s)	754
PpuMI	RGGWCCY	1 cut(s)	613
Psp5II	RGGWCCY	1 cut(s)	613
PspN4I	GGNNCC	8 cut(s)	160, 180, 331, 579, 614, 615, 658, 729
PspPI	GGNCC	6 cut(s)	121, 330, 577, 613, 657, 853
PspPPI	RGGWCCY	1 cut(s)	613
RsaI	GTAC	4 cut(s)	114, 351, 441, 1024
RsaNI	GTAC	4 cut(s)	113, 350, 440, 1023
RseI	CAYNNNNRTG	1 cut(s)	324
SaqAI	TTAA	1 cut(s)	822
SatI	GCNGC	1 cut(s)	753
Sau3AI	GATC	3 cut(s)	373, 420, 700
Sau96I	GGNCC	6 cut(s)	121, 330, 577, 613, 657, 853
SfaNI	GCATC	3 cut(s)	559, 687, 981
SfcI	CTRYAG	2 cut(s)	1014, 1026
SinI	GGWCC	3 cut(s)	613, 657, 853
SmiMI	CAYNNNNRTG	1 cut(s)	324
SmlI	CTYRAG	3 cut(s)	14, 407, 890
SmoI	CTYRAG	3 cut(s)	14, 407, 890
SpeI	ACTAGT	1 cut(s)	64
Sse9I	AATT	5 cut(s)	377, 584, 766, 884, 917
SsiI	CCGC	1 cut(s)	753
SspI	AATATT	1 cut(s)	819
SspMI	CTAG	7 cut(s)	65, 102, 107, 276, 558, 609, 651
TaaI	ACNGT	1 cut(s)	661
TaiI	ACGT	1 cut(s)	232
TasI	AATT	5 cut(s)	377, 584, 766, 884, 917
TatI	WGTACW	1 cut(s)	1022
TauI	GCSGC	1 cut(s)	755
TfiI	GAWTC	1 cut(s)	395
Tru1I	TTAA	1 cut(s)	822
Tru9I	TTAA	1 cut(s)	822
TscAI	CASTG	1 cut(s)	208
TseFI	GTSAC	1 cut(s)	661
Tsp45I	GTSAC	1 cut(s)	661
TspDTI	ATGAA	4 cut(s)	312, 617, 851, 920
TspRI	CASTG	1 cut(s)	208
VpaK11BI	GGWCC	3 cut(s)	613, 657, 853
XapI	RAATTY	2 cut(s)	766, 917
XceI	RCATGY	1 cut(s)	265
XmnI	GAANNNNTTC	1 cut(s)	453
XspI	CTAG	7 cut(s)	65, 102, 107, 276, 558, 609, 651

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