Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0011657

Physical Location & Seq

Genomic Coordinates Forward (+)

12858964 .. 12901903

Gene Structure 42940 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG150300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1086 bp

ATGGCGGCAGATCACTCTCAATCAGGCACCACCCAGTTGCGGCTGAACTCGCGGCGGAGCTACGTGGTCCACCCCGTTGACATTGAGACGCCACCTCTAACTTCCCCGGCTCCCGCCACGCCCGCCGTGTTCCGGGAAATCAAGCATTTCAAGAAATGGGCTGTCTGGTTGATACCTACTTTTGTAATCATCAATACCATCATGTTTATCATCACTATGTATGTCAACAACTGCCCCAAGAACTCGGTCTCTTGCATTGCCACGTTCTTGGGGAGGTTCTCGTTCCAGCCTTTTAAGGAGAACCCTCTTCTTGGGCCATCATCGTCTACGTTACAGAAGATGGGTGCTTTAGATGTGAAAAAGGTGGTTGATGATCACCAGGGGTGGCTTCTCATCACTTGCAATTGGCTACATGGTGGAGTTTTCCATTTGTTGGCGAATATGCTGAGTCTTTTGGTTATTGGGTACCGGCTAGAGCAAGAATTTGGTTTTGTGCGGATTGGTTTGCTATATGTCATCTCTGGACTTGGTGGGAGTTTGATGTCTTCACTTTTCATCCAGTCAAATATCTCTGTTGGTGCTTCCGGTGCACTTTTTGGATTGCTGGGAGCCATGCTTTCTGAACTTATCACTAACTGGACGATATATGCTAGTAAGTTTGGAGCGCTTTTCACCCTCCTGATCATCATAGCAATCAATTTGGCAGTGGGAATTCTCCCACATGTGGATAACTTTGCTCACATTGGAGGATTCCTTTCGGGTTTCTTTCTGGGGTTCGTATTTCTTATCCGCCCTCAGTTCGGATGGGTTAACCAAAGATATGCTCCTCCAGAGTACAGATCATCTGAAGTTAAATCTAAGTTCAAGACCTATCAGTGCATTTTTTGGATCCTTTCGCTGGTTATTTTAATCGTTGGTGTTCGGTGCGGTCGCCTCCTCGAGCATTTGCCTTTTCAAATCTACTCACACATTGACCATAGTCTAGGAACGAAAGGTAACAATGACCATGATAACATCAATAAAAGGTCACAGATTGACCATGATATCATTAACAAAAGGTCACACATTGACCATTTAAATGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0002791 GO:0002792 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0005794 GO:0005886 GO:0005911 GO:0006928 GO:0008150 GO:0008283 GO:0009506 GO:0009894 GO:0009966 GO:0009987 GO:0010646 GO:0012505 GO:0016020 GO:0016477 GO:0019222 GO:0023051 GO:0030054 GO:0030162 GO:0031090 GO:0031323 GO:0031329 GO:0031984 GO:0032268 GO:0032879 GO:0032880 GO:0040011 GO:0042058 GO:0042175 GO:0042176 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0048519 GO:0048523 GO:0048583 GO:0048870 GO:0050708 GO:0050709 GO:0050789 GO:0050794 GO:0051046 GO:0051048 GO:0051049 GO:0051051 GO:0051171 GO:0051179 GO:0051223 GO:0051224 GO:0051246 GO:0051674 GO:0055044 GO:0060255 GO:0061136 GO:0065007 GO:0070201 GO:0071944 GO:0080090 GO:0090087 GO:0098588 GO:0098791 GO:0098827 GO:1901184 GO:1903050 GO:1903362 GO:1903530 GO:1903531 GO:1904950

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rhomboid

Protein Analysis

361

Amino Acids

40.4

Weight (kDa)

9.27

Isoelectric Point (pI)

45.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rhomboid	PF01694	126 - 262	1.6e-40	Rhomboid domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011657)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53780 AT3G53780 AT3G53780
fragaria_vesca	FvH4_6g13560
malus_domestica	MD04G1130000.v1.1 MD12G1143100.v1.1
prunus_persica	Prupe.6G256700_v2.0.a1
pyrus_communis	pycom04g11830 pycom12g13780
rosa_chinensis	RchiOBHm_Chr3g0466421
rosa_laevigata	RLG00000024575
rosa_multiflora	Rmu_co8379997.1_g000002 Rmu_sc0003332.1_g000027 Rmu_sc0003480.1_g000001
rosa_roxburghii	Rroxscaffold_6G00414480
rosa_samantha	Rh3AG128300 Rh3BG149600 Rh3DG150300
rosa_wichuraiana	Rw3G012120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	465
AccB1I	GGYRCC	2 cut(s)	26, 465
AccB7I	CCANNNNNTGG	1 cut(s)	433
AccI	GTMKAC	1 cut(s)	326
AccII	CGCG	1 cut(s)	52
AciI	CCGC	9 cut(s)	5, 40, 52, 55, 114, 123, 496, 790, 927
AclWI	GGATC	2 cut(s)	883, 896
AcsI	RAATTY	2 cut(s)	482, 711
AcuI	CTGAAG	1 cut(s)	867
AcyI	GRCGYC	1 cut(s)	89
AfaI	GTAC	2 cut(s)	467, 836
AfeI	AGCGCT	1 cut(s)	666
AfiI	CCNNNNNNNGG	7 cut(s)	39, 132, 311, 433, 724, 800, 898
AflIII	ACRYGT	1 cut(s)	721
AgsI	TTSAA	3 cut(s)	151, 865, 956
AjnI	CCWGG	1 cut(s)	378
AluBI	AGCT	1 cut(s)	60
AluI	AGCT	1 cut(s)	60
Alw21I	GWGCWC	1 cut(s)	592
Alw26I	GTCTC	2 cut(s)	80, 253
Alw44I	GTGCAC	1 cut(s)	588
AlwI	GGATC	2 cut(s)	883, 896
Ama87I	CYCGRG	1 cut(s)	938
Aor51HI	AGCGCT	1 cut(s)	666
AoxI	GGCC	1 cut(s)	314
ApaLI	GTGCAC	1 cut(s)	588
ApoI	RAATTY	2 cut(s)	482, 711
Asp718I	GGTACC	1 cut(s)	465
AspLEI	GCGC	1 cut(s)	667
AspS9I	GGNCC	2 cut(s)	67, 314
AsuC2I	CCSGG	2 cut(s)	107, 134
AsuHPI	GGTGA	2 cut(s)	368, 664
AvaI	CYCGRG	1 cut(s)	938
AvaII	GGWCC	1 cut(s)	67
BaeGI	GKGCMC	1 cut(s)	592
BamHI	GGATCC	1 cut(s)	888
BanI	GGYRCC	2 cut(s)	26, 465
BbsI	GAAGAC	1 cut(s)	537
Bbv12I	GWGCWC	1 cut(s)	592
BccI	CCATC	4 cut(s)	206, 325, 334, 798
BceAI	ACGGC	1 cut(s)	110
BciT130I	CCWGG	1 cut(s)	380
BclI	TGATCA	2 cut(s)	373, 681
BcnI	CCSGG	2 cut(s)	107, 134
BcoDI	GTCTC	2 cut(s)	80, 253
BfaI	CTAG	3 cut(s)	473, 651, 983
BfoI	RGCGCY	1 cut(s)	668
BisI	GCNGC	3 cut(s)	6, 41, 53
BlsI	GCNGC	3 cut(s)	7, 42, 54
Bme1390I	CCNGG	3 cut(s)	107, 134, 380
Bme18I	GGWCC	1 cut(s)	67
BmeT110I	CYCGRG	1 cut(s)	938
BmgT120I	GGNCC	2 cut(s)	67, 314
BmiI	GGNNCC	5 cut(s)	28, 111, 467, 610, 890
BmrFI	CCNGG	3 cut(s)	107, 134, 380
BmrI	ACTGGG	1 cut(s)	28
BmuI	ACTGGG	1 cut(s)	28
BoxI	GACNNNNGTC	1 cut(s)	978
BpiI	GAAGAC	1 cut(s)	537
BpmI	CTGGAG	1 cut(s)	813
BpuMI	CCSGG	2 cut(s)	107, 134
BsaAI	YACGTR	1 cut(s)	64
BsaHI	GRCGYC	1 cut(s)	89
BsaI	GGTCTC	1 cut(s)	253
BsaJI	CCNNGG	2 cut(s)	105, 379
BsaWI	WCCGGW	1 cut(s)	584
Bsc4I	CCNNNNNNNGG	7 cut(s)	39, 132, 311, 433, 724, 800, 898
Bse118I	RCCGGY	1 cut(s)	468
Bse1I	ACTGG	3 cut(s)	34, 559, 641
Bse3DI	GCAATG	1 cut(s)	255
BseBI	CCWGG	1 cut(s)	380
BseDI	CCNNGG	2 cut(s)	105, 379
BseGI	GGATG	2 cut(s)	555, 809
BseLI	CCNNNNNNNGG	7 cut(s)	39, 132, 311, 433, 724, 800, 898
BseMI	GCAATG	1 cut(s)	255
BseMII	CTCAG	2 cut(s)	437, 809
BseNI	ACTGG	3 cut(s)	34, 559, 641
BseRI	GAGGAG	2 cut(s)	816, 926
BseSI	GKGCMC	1 cut(s)	592
BseYI	CCCAGC	1 cut(s)	604
Bsh1236I	CGCG	1 cut(s)	52
Bsh1285I	CGRYCG	1 cut(s)	931
BshFI	GGCC	1 cut(s)	316
BshNI	GGYRCC	2 cut(s)	26, 465
BsiEI	CGRYCG	1 cut(s)	931
BsiHKAI	GWGCWC	1 cut(s)	592
BsiHKCI	CYCGRG	1 cut(s)	938
BsiSI	CCGG	4 cut(s)	107, 133, 469, 585
BslI	CCNNNNNNNGG	7 cut(s)	39, 132, 311, 433, 724, 800, 898
BsmAI	GTCTC	2 cut(s)	80, 253
BsmBI	CGTCTC	1 cut(s)	80
BsnI	GGCC	1 cut(s)	316
Bso31I	GGTCTC	1 cut(s)	253
BsoBI	CYCGRG	1 cut(s)	938
Bsp1286I	GDGCHC	1 cut(s)	592
Bsp143I	GATC	5 cut(s)	10, 373, 681, 839, 888
BspACI	CCGC	9 cut(s)	5, 40, 52, 55, 114, 123, 496, 790, 927
BspANI	GGCC	1 cut(s)	316
BspCNI	CTCAG	2 cut(s)	438, 808
BspFNI	CGCG	1 cut(s)	52
BspLI	GGNNCC	5 cut(s)	28, 111, 467, 610, 890
BspPI	GGATC	2 cut(s)	883, 896
BspT107I	GGYRCC	2 cut(s)	26, 465
BspTNI	GGTCTC	1 cut(s)	253
BsrDI	GCAATG	1 cut(s)	255
BsrFI	RCCGGY	1 cut(s)	468
BsrI	ACTGG	3 cut(s)	34, 559, 641
BssAI	RCCGGY	1 cut(s)	468
BssECI	CCNNGG	2 cut(s)	105, 379
BssMI	GATC	5 cut(s)	10, 373, 681, 839, 888
BssNI	GRCGYC	1 cut(s)	89
Bst2UI	CCWGG	1 cut(s)	380
Bst6I	CTCTTC	1 cut(s)	312
BstACI	GRCGYC	1 cut(s)	89
BstBAI	YACGTR	1 cut(s)	64
BstC8I	GCNNGC	1 cut(s)	123
BstDEI	CTNAG	3 cut(s)	446, 795, 858
BstF5I	GGATG	2 cut(s)	555, 809
BstFNI	CGCG	1 cut(s)	52
BstH2I	RGCGCY	1 cut(s)	668
BstHHI	GCGC	1 cut(s)	667
BstKTI	GATC	5 cut(s)	13, 376, 684, 842, 891
BstMAI	GTCTC	2 cut(s)	80, 253
BstMBI	GATC	5 cut(s)	10, 373, 681, 839, 888
BstMCI	CGRYCG	1 cut(s)	931
BstMWI	GCNNNNNNNGC	3 cut(s)	49, 122, 587
BstNI	CCWGG	1 cut(s)	380
BstNSI	RCATGY	1 cut(s)	725
BstPAI	GACNNNNGTC	1 cut(s)	978
BstSCI	CCNGG	3 cut(s)	105, 132, 378
BstSLI	GKGCMC	1 cut(s)	592
BstUI	CGCG	1 cut(s)	52
BstV2I	GAAGAC	1 cut(s)	537
BstX2I	RGATCY	1 cut(s)	888
BstXI	CCANNNNNNTGG	1 cut(s)	268
BstYI	RGATCY	1 cut(s)	888
BsuRI	GGCC	1 cut(s)	316
BtsCI	GGATG	2 cut(s)	555, 809
BtsI	GCAGTG	1 cut(s)	711
BtsIMutI	CAGTG	2 cut(s)	711, 881
Cac8I	GCNNGC	1 cut(s)	123
CfoI	GCGC	1 cut(s)	667
Cfr10I	RCCGGY	1 cut(s)	468
Cfr13I	GGNCC	2 cut(s)	67, 314
CseI	GACGC	1 cut(s)	97
Csp6I	GTAC	2 cut(s)	466, 835
CviAII	CATG	6 cut(s)	202, 413, 613, 722, 1007, 1040
CviQI	GTAC	2 cut(s)	466, 835
DdeI	CTNAG	3 cut(s)	446, 795, 858
DpnI	GATC	5 cut(s)	12, 375, 683, 841, 890
DpnII	GATC	5 cut(s)	10, 373, 681, 839, 888
DraI	TTTAAA	1 cut(s)	1077
Eam1104I	CTCTTC	1 cut(s)	312
EarI	CTCTTC	1 cut(s)	312
EciI	GGCGGA	2 cut(s)	70, 779
Eco31I	GGTCTC	1 cut(s)	253
Eco32I	GATATC	1 cut(s)	1045
Eco47I	GGWCC	1 cut(s)	67
Eco47III	AGCGCT	1 cut(s)	666
Eco57I	CTGAAG	1 cut(s)	867
Eco88I	CYCGRG	1 cut(s)	938
EcoRI	GAATTC	1 cut(s)	711
EcoRII	CCWGG	1 cut(s)	378
EcoRV	GATATC	1 cut(s)	1045
Esp3I	CGTCTC	1 cut(s)	80
FaeI	CATG	6 cut(s)	205, 416, 616, 725, 1010, 1043
FatI	CATG	6 cut(s)	201, 412, 612, 721, 1006, 1039
FauI	CCCGC	2 cut(s)	121, 130
FbaI	TGATCA	2 cut(s)	373, 681
FblI	GTMKAC	1 cut(s)	326
Fnu4HI	GCNGC	3 cut(s)	6, 41, 53
FokI	GGATG	2 cut(s)	542, 816
Fsp4HI	GCNGC	3 cut(s)	6, 41, 53
FspBI	CTAG	3 cut(s)	473, 651, 983
GlaI	GCGC	1 cut(s)	666
GluI	GCNGC	3 cut(s)	6, 41, 53
GsaI	CCCAGC	1 cut(s)	608
GsuI	CTGGAG	1 cut(s)	813
HaeII	RGCGCY	1 cut(s)	668
HaeIII	GGCC	1 cut(s)	316
HapII	CCGG	4 cut(s)	107, 133, 469, 585
HgaI	GACGC	1 cut(s)	97
HhaI	GCGC	1 cut(s)	667
Hin1I	GRCGYC	1 cut(s)	89
Hin1II	CATG	6 cut(s)	205, 416, 616, 725, 1010, 1043
Hin6I	GCGC	1 cut(s)	665
HinP1I	GCGC	1 cut(s)	665
HincII	GTYRAC	3 cut(s)	79, 226, 811
HindII	GTYRAC	3 cut(s)	79, 226, 811
HinfI	GANTC	2 cut(s)	448, 750
HpaI	GTTAAC	1 cut(s)	811
HpaII	CCGG	4 cut(s)	107, 133, 469, 585
HphI	GGTGA	2 cut(s)	368, 664
Hpy166II	GTNNAC	6 cut(s)	70, 79, 226, 327, 590, 811
Hpy188I	TCNGA	3 cut(s)	622, 803, 847
Hpy188III	TCNNGA	5 cut(s)	151, 522, 679, 830, 865
Hpy8I	GTNNAC	6 cut(s)	70, 79, 226, 327, 590, 811
HpyCH4IV	ACGT	3 cut(s)	63, 263, 329
HpyCH4V	TGCA	4 cut(s)	255, 402, 590, 879
HpyF10VI	GCNNNNNNNGC	3 cut(s)	49, 122, 587
HpyF3I	CTNAG	3 cut(s)	446, 795, 858
HpySE526I	ACGT	3 cut(s)	63, 263, 329
Hsp92I	GRCGYC	1 cut(s)	89
Hsp92II	CATG	6 cut(s)	205, 416, 616, 725, 1010, 1043
HspAI	GCGC	1 cut(s)	665
KpnI	GGTACC	1 cut(s)	469
Ksp22I	TGATCA	2 cut(s)	373, 681
KspAI	GTTAAC	1 cut(s)	811
Kzo9I	GATC	5 cut(s)	10, 373, 681, 839, 888
LmnI	GCTCC	5 cut(s)	57, 115, 608, 662, 829
MaeI	CTAG	3 cut(s)	473, 651, 983
MaeII	ACGT	3 cut(s)	63, 263, 329
MaeIII	GTNAC	4 cut(s)	330, 995, 1026, 1059
MalI	GATC	5 cut(s)	12, 375, 683, 841, 890
MboI	GATC	5 cut(s)	10, 373, 681, 839, 888
MboII	GAAGA	3 cut(s)	299, 349, 537
MfeI	CAATTG	1 cut(s)	403
MflI	RGATCY	1 cut(s)	888
MhlI	GDGCHC	1 cut(s)	592
MluCI	AATT	4 cut(s)	403, 482, 697, 711
MlyI	GAGTC	1 cut(s)	457
MnlI	CCTC	9 cut(s)	105, 267, 315, 686, 740, 804, 837, 944, 947
MseI	TTAA	7 cut(s)	294, 810, 852, 908, 1050, 1076, 1084
MslI	CAYNNNNRTG	2 cut(s)	215, 1077
MspI	CCGG	4 cut(s)	107, 133, 469, 585
MspR9I	CCNGG	3 cut(s)	107, 134, 380
MunI	CAATTG	1 cut(s)	403
MvaI	CCWGG	1 cut(s)	380
MvnI	CGCG	1 cut(s)	52
MwoI	GCNNNNNNNGC	3 cut(s)	49, 122, 587
NciI	CCSGG	2 cut(s)	107, 134
NdeII	GATC	5 cut(s)	10, 373, 681, 839, 888
NlaIII	CATG	6 cut(s)	205, 416, 616, 725, 1010, 1043
NlaIV	GGNNCC	5 cut(s)	28, 111, 467, 610, 890
NmuCI	GTSAC	2 cut(s)	1026, 1059
NspI	RCATGY	1 cut(s)	725
PaeR7I	CTCGAG	1 cut(s)	938
PciI	ACATGT	1 cut(s)	721
PfeI	GAWTC	1 cut(s)	750
PflMI	CCANNNNNTGG	1 cut(s)	433
PfoI	TCCNGGA	1 cut(s)	132
PkrI	GCNGC	3 cut(s)	7, 42, 54
PleI	GAGTC	1 cut(s)	456
PpsI	GAGTC	1 cut(s)	456
Ppu21I	YACGTR	1 cut(s)	64
PscI	ACATGT	1 cut(s)	721
PshAI	GACNNNNGTC	1 cut(s)	978
Psp6I	CCWGG	1 cut(s)	378
PspFI	CCCAGC	1 cut(s)	604
PspGI	CCWGG	1 cut(s)	378
PspN4I	GGNNCC	5 cut(s)	28, 111, 467, 610, 890
PspPI	GGNCC	2 cut(s)	67, 314
PspXI	VCTCGAGB	1 cut(s)	938
PsuI	RGATCY	1 cut(s)	888
RsaI	GTAC	2 cut(s)	467, 836
RsaNI	GTAC	2 cut(s)	466, 835
RseI	CAYNNNNRTG	2 cut(s)	215, 1077
SaqAI	TTAA	7 cut(s)	294, 810, 852, 908, 1050, 1076, 1084
SatI	GCNGC	3 cut(s)	6, 41, 53
Sau3AI	GATC	5 cut(s)	10, 373, 681, 839, 888
Sau96I	GGNCC	2 cut(s)	67, 314
SchI	GAGTC	1 cut(s)	457
ScrFI	CCNGG	3 cut(s)	107, 134, 380
SduI	GDGCHC	1 cut(s)	592
Sfr274I	CTCGAG	1 cut(s)	938
SinI	GGWCC	1 cut(s)	67
SlaI	CTCGAG	1 cut(s)	938
SmiI	ATTTAAAT	1 cut(s)	1077
SmiMI	CAYNNNNRTG	2 cut(s)	215, 1077
SmlI	CTYRAG	1 cut(s)	938
SmoI	CTYRAG	1 cut(s)	938
Sse9I	AATT	4 cut(s)	403, 482, 697, 711
SsiI	CCGC	9 cut(s)	5, 40, 52, 55, 114, 123, 496, 790, 927
SspMI	CTAG	3 cut(s)	473, 651, 983
StyD4I	CCNGG	3 cut(s)	105, 132, 378
SwaI	ATTTAAAT	1 cut(s)	1077
TaiI	ACGT	3 cut(s)	66, 266, 332
TaqI	TCGA	1 cut(s)	939
TaqII	GACCGA	1 cut(s)	235
TasI	AATT	4 cut(s)	403, 482, 697, 711
TatI	WGTACW	1 cut(s)	834
TauI	GCSGC	3 cut(s)	8, 43, 55
TfiI	GAWTC	1 cut(s)	750
Tru1I	TTAA	7 cut(s)	294, 810, 852, 908, 1050, 1076, 1084
Tru9I	TTAA	7 cut(s)	294, 810, 852, 908, 1050, 1076, 1084
TscAI	CASTG	2 cut(s)	711, 881
TseFI	GTSAC	2 cut(s)	1026, 1059
Tsp45I	GTSAC	2 cut(s)	1026, 1059
TspDTI	ATGAA	1 cut(s)	544
TspRI	CASTG	2 cut(s)	711, 881
Van91I	CCANNNNNTGG	1 cut(s)	433
VneI	GTGCAC	1 cut(s)	588
VpaK11BI	GGWCC	1 cut(s)	67
XapI	RAATTY	2 cut(s)	482, 711
XceI	RCATGY	1 cut(s)	725
XhoI	CTCGAG	1 cut(s)	938
XmiI	GTMKAC	1 cut(s)	326
XspI	CTAG	3 cut(s)	473, 651, 983

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