Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0006520

Physical Location & Seq

Genomic Coordinates Forward (+)

65871372 .. 65875913

Gene Structure 4542 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG477400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGGGACACTCCAAGAGTGATGATGATGATGATGTCACTACTGACTCCTCTGCCACAGAGTCTGACACTTCTGCCACCAAGACCGATTCCGGCATCGAACATGAAAACGACGACGTCTCATCTCCTTCCTCTGATTCATGCCCCTTTGTCGAAGGAGAGAAGGTCCTCGCTTATCACAACACTCACATTTACGACGCCAAGGTGATCAAAACTCAATTTAAGAACGAATGGAGGTTTTTTATTCATTACCTTGGCTGGAACAAAAATTGGGATGAGTGGGTACGCCTGGACCGTTTATTGAAATATACTGAAGAGAATGTGGAGAAACAGAAGCTCGCCAGAATGAAAGACGGAACAGACAAGAATCCAAAGCTATCACGCACATCACAGACTAAACTAAAAAGTTATAATGGGGCAAGAGGCAAGAAGAGAAAGAATGACTCTGTTGTTAAGGGTGCGATACGCTTGGAAGAACTTGTGATTCGAATGCCACATGCTTTAAGGAAACAACTAGTTGATGATTGTGAATCAGTTACTCATCTGGGCAAGCTTGTTAAACTTCCCCGGACTCCAAATGTTGATGACATACTGAAGAAGTATCTAGAATACAGATCAAACAGCGATGATTTGAAAGCTCATTCAGTTGAAGAAATTCTGAAAGGACTATGTTGCTACTTTGACAAAGCATTGCCAGTTATGCTTCTTTACAAAAATGAGCGTCCGCAGTATGAGAAAGCAATTGCAGATAATGTCTCTCCTTCGTCTGTATACGGTGCTGAGCACCTATTACGCCTCTTTGTTAAACTGCCCGAGTTATTGGTTGAGGCTAACATTGAAGAGGAGACTTTGAAAGAGCTGCTGCAAAGATTGGCCGACTTTCTCAAGTTCCTACATAAGAACCAGAGTGCATTCTTCCTCTCTTCCTACCATGTACCAGAAGATACTGAAATCAGCACCAACAAACAAGATGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000123 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006325 GO:0006338 GO:0006342 GO:0006355 GO:0006464 GO:0006473 GO:0006475 GO:0006476 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016043 GO:0016458 GO:0016569 GO:0016570 GO:0016573 GO:0016575 GO:0018193 GO:0018205 GO:0018393 GO:0018394 GO:0019219 GO:0019222 GO:0019538 GO:0031248 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0032991 GO:0035267 GO:0035601 GO:0036211 GO:0040029 GO:0040034 GO:0043170 GO:0043189 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0043543 GO:0043967 GO:0043968 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045814 GO:0045892 GO:0045934 GO:0048506 GO:0048509 GO:0048510 GO:0048519 GO:0048523 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051276 GO:0060255 GO:0065007 GO:0070013 GO:0071704 GO:0071840 GO:0080090 GO:0098732 GO:1901564 GO:1902493 GO:1902494 GO:1902562 GO:1902679 GO:1903506 GO:1903507 GO:1990188 GO:1990234 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MRG Tudor-knot

Protein Analysis

324

Amino Acids

37.32

Weight (kDa)

5.93

Isoelectric Point (pI)

43.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MSL3_chromo-like	PF22732	49 - 111	2.6e-13	MSL3 chromodomain-like
Tudor-knot	PF11717	49 - 100	1.5e-11	RNA binding activity-knot of a chromodomain
MRG	PF05712	154 - 309	2e-47	MRG

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: OG0006520)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G02740
fragaria_vesca	FvH4_2g33880 FvH4_2g33880 FvH4_2g33880 FvH4_2g33880 FvH4_2g33880
malus_domestica	MD08G1091800.v1.1 MD12G1169000.v1.1 MD15G1076200.v1.1
prunus_persica	Prupe.1G429500_v2.0.a1
pyrus_communis	pycom08g07450
rosa_chinensis	RchiOBHm_Chr6g0308521 RchiOBHm_Chr6g0308621
rosa_laevigata	RLG00000010635
rosa_multiflora	Rmu_sc0001161.1_g000019
rosa_roxburghii	Rroxscaffold_7G00160050
rosa_rugosa	Rorug06G0367500 Rorug06G0367600
rosa_samantha	Rh6AG477400 Rh6AG477700 Rh6AG478100 Rh6BG487700 Rh6CG492700 Rh6DG478900
rosa_wichuraiana	Rw6G041660 Rw6G041690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	408
AatII	GACGTC	1 cut(s)	117
AccI	GTMKAC	1 cut(s)	768
AciI	CCGC	1 cut(s)	722
AcoI	YGGCCR	1 cut(s)	870
AcsI	RAATTY	1 cut(s)	651
AcuI	CTGAAG	2 cut(s)	330, 611
AcyI	GRCGYC	2 cut(s)	114, 195
AfaI	GTAC	2 cut(s)	282, 933
AgsI	TTSAA	5 cut(s)	301, 631, 647, 836, 850
AhlI	ACTAGT	1 cut(s)	511
AjnI	CCWGG	1 cut(s)	285
AluBI	AGCT	5 cut(s)	334, 373, 550, 635, 856
AluI	AGCT	5 cut(s)	334, 373, 550, 635, 856
Alw21I	GWGCWC	1 cut(s)	783
Alw26I	GTCTC	3 cut(s)	121, 757, 836
AlwNI	CAGNNNCTG	1 cut(s)	62
Ama87I	CYCGRG	1 cut(s)	809
AoxI	GGCC	1 cut(s)	870
ApeKI	GCWGC	2 cut(s)	856, 859
ApoI	RAATTY	1 cut(s)	651
Asp700I	GAANNNNTTC	1 cut(s)	651
AspS9I	GGNCC	2 cut(s)	163, 289
AsuC2I	CCSGG	1 cut(s)	565
AsuHPI	GGTGA	1 cut(s)	214
AsuII	TTCGAA	1 cut(s)	484
AvaI	CYCGRG	1 cut(s)	809
AvaII	GGWCC	2 cut(s)	163, 289
Bbv12I	GWGCWC	1 cut(s)	783
BbvI	GCAGC	2 cut(s)	843, 846
BciT130I	CCWGG	1 cut(s)	287
BclI	TGATCA	1 cut(s)	204
BcnI	CCSGG	1 cut(s)	565
BcoDI	GTCTC	3 cut(s)	121, 757, 836
BcuI	ACTAGT	1 cut(s)	511
BfaI	CTAG	2 cut(s)	512, 602
BisI	GCNGC	2 cut(s)	857, 860
BlpI	GCTNAGC	1 cut(s)	777
BlsI	GCNGC	2 cut(s)	858, 861
Bme1390I	CCNGG	2 cut(s)	287, 565
Bme18I	GGWCC	2 cut(s)	163, 289
BmeT110I	CYCGRG	1 cut(s)	809
BmgT120I	GGNCC	2 cut(s)	163, 289
BmrFI	CCNGG	2 cut(s)	287, 565
BmsI	GCATC	1 cut(s)	102
Bpu1102I	GCTNAGC	1 cut(s)	777
Bpu14I	TTCGAA	1 cut(s)	484
BpuEI	CTTGAG	1 cut(s)	866
BpuMI	CCSGG	1 cut(s)	565
BsaHI	GRCGYC	2 cut(s)	114, 195
BsaJI	CCNNGG	3 cut(s)	198, 250, 563
BsaXI	ACNNNNNCTCC	2 cut(s)	147, 177
Bse1I	ACTGG	1 cut(s)	692
Bse3DI	GCAATG	1 cut(s)	686
BseBI	CCWGG	1 cut(s)	287
BseDI	CCNNGG	3 cut(s)	198, 250, 563
BseGI	GGATG	1 cut(s)	277
BseMI	GCAATG	1 cut(s)	686
BseMII	CTCAG	1 cut(s)	768
BseNI	ACTGG	1 cut(s)	692
BseRI	GAGGAG	2 cut(s)	37, 854
BseXI	GCAGC	2 cut(s)	843, 846
BshFI	GGCC	1 cut(s)	872
BsiHKAI	GWGCWC	1 cut(s)	783
BsiHKCI	CYCGRG	1 cut(s)	809
BsiSI	CCGG	2 cut(s)	90, 565
BslFI	GGGAC	1 cut(s)	18
BsmAI	GTCTC	3 cut(s)	121, 757, 836
BsmBI	CGTCTC	1 cut(s)	121
BsmFI	GGGAC	1 cut(s)	18
BsmI	GAATGC	2 cut(s)	492, 908
BsnI	GGCC	1 cut(s)	872
BsoBI	CYCGRG	1 cut(s)	809
Bsp119I	TTCGAA	1 cut(s)	484
Bsp1286I	GDGCHC	1 cut(s)	783
Bsp143I	GATC	2 cut(s)	204, 611
Bsp1720I	GCTNAGC	1 cut(s)	777
BspACI	CCGC	1 cut(s)	722
BspANI	GGCC	1 cut(s)	872
BspCNI	CTCAG	1 cut(s)	769
BspT104I	TTCGAA	1 cut(s)	484
BsrDI	GCAATG	1 cut(s)	686
BsrI	ACTGG	1 cut(s)	692
BssECI	CCNNGG	3 cut(s)	198, 250, 563
BssMI	GATC	2 cut(s)	204, 611
BssNAI	GTATAC	1 cut(s)	769
BssNI	GRCGYC	2 cut(s)	114, 195
BssT1I	CCWWGG	2 cut(s)	198, 250
Bst1107I	GTATAC	1 cut(s)	769
Bst2UI	CCWGG	1 cut(s)	287
Bst4CI	ACNGT	2 cut(s)	293, 773
Bst6I	CTCTTC	4 cut(s)	306, 422, 831, 925
BstACI	GRCGYC	2 cut(s)	114, 195
BstBI	TTCGAA	1 cut(s)	484
BstC8I	GCNNGC	2 cut(s)	336, 548
BstDEI	CTNAG	1 cut(s)	777
BstF5I	GGATG	1 cut(s)	277
BstKTI	GATC	2 cut(s)	207, 614
BstMAI	GTCTC	3 cut(s)	121, 757, 836
BstMBI	GATC	2 cut(s)	204, 611
BstMWI	GCNNNNNNNGC	1 cut(s)	697
BstNI	CCWGG	1 cut(s)	287
BstNSI	RCATGY	1 cut(s)	497
BstSCI	CCNGG	2 cut(s)	285, 563
BstV1I	GCAGC	2 cut(s)	843, 846
BstZ17I	GTATAC	1 cut(s)	769
BsuRI	GGCC	1 cut(s)	872
BtgZI	GCGATG	1 cut(s)	636
BtsCI	GGATG	1 cut(s)	277
Cac8I	GCNNGC	2 cut(s)	336, 548
CaiI	CAGNNNCTG	1 cut(s)	62
Cfr13I	GGNCC	2 cut(s)	163, 289
CseI	GACGC	2 cut(s)	203, 707
Csp6I	GTAC	2 cut(s)	281, 932
CviAII	CATG	4 cut(s)	101, 138, 494, 929
CviJI	RGCY	8 cut(s)	255, 334, 373, 550, 635, 827, 856, 872
CviKI_1	RGCY	8 cut(s)	255, 334, 373, 550, 635, 827, 856, 872
CviQI	GTAC	2 cut(s)	281, 932
DdeI	CTNAG	1 cut(s)	777
DpnI	GATC	2 cut(s)	206, 613
DpnII	GATC	2 cut(s)	204, 611
EaeI	YGGCCR	1 cut(s)	870
Eam1104I	CTCTTC	4 cut(s)	306, 422, 831, 925
EarI	CTCTTC	4 cut(s)	306, 422, 831, 925
Eco130I	CCWWGG	2 cut(s)	198, 250
Eco47I	GGWCC	2 cut(s)	163, 289
Eco57I	CTGAAG	2 cut(s)	330, 611
Eco88I	CYCGRG	1 cut(s)	809
EcoO109I	RGGNCCY	1 cut(s)	163
EcoRII	CCWGG	1 cut(s)	285
EcoT14I	CCWWGG	2 cut(s)	198, 250
ErhI	CCWWGG	2 cut(s)	198, 250
Esp3I	CGTCTC	1 cut(s)	121
FaeI	CATG	4 cut(s)	104, 141, 497, 932
FaqI	GGGAC	1 cut(s)	18
FatI	CATG	4 cut(s)	100, 137, 493, 928
FbaI	TGATCA	1 cut(s)	204
FblI	GTMKAC	1 cut(s)	768
Fnu4HI	GCNGC	2 cut(s)	857, 860
FokI	GGATG	1 cut(s)	284
Fsp4HI	GCNGC	2 cut(s)	857, 860
FspBI	CTAG	2 cut(s)	512, 602
GluI	GCNGC	2 cut(s)	857, 860
HaeIII	GGCC	1 cut(s)	872
HapII	CCGG	2 cut(s)	90, 565
HgaI	GACGC	2 cut(s)	203, 707
Hin1I	GRCGYC	2 cut(s)	114, 195
Hin1II	CATG	4 cut(s)	104, 141, 497, 932
HindIII	AAGCTT	1 cut(s)	548
HinfI	GANTC	9 cut(s)	44, 59, 86, 134, 364, 440, 481, 527, 568
HpaII	CCGG	2 cut(s)	90, 565
HphI	GGTGA	1 cut(s)	214
Hpy166II	GTNNAC	1 cut(s)	769
Hpy188I	TCNGA	3 cut(s)	64, 133, 657
Hpy188III	TCNNGA	1 cut(s)	602
Hpy8I	GTNNAC	1 cut(s)	769
Hpy99I	CGWCG	3 cut(s)	113, 116, 197
HpyAV	CCTTC	4 cut(s)	135, 146, 154, 768
HpyCH4III	ACNGT	2 cut(s)	293, 773
HpyCH4IV	ACGT	1 cut(s)	114
HpyCH4V	TGCA	3 cut(s)	743, 862, 908
HpyF10VI	GCNNNNNNNGC	1 cut(s)	697
HpyF3I	CTNAG	1 cut(s)	777
HpySE526I	ACGT	1 cut(s)	114
Hsp92I	GRCGYC	2 cut(s)	114, 195
Hsp92II	CATG	4 cut(s)	104, 141, 497, 932
Ksp22I	TGATCA	1 cut(s)	204
Kzo9I	GATC	2 cut(s)	204, 611
Lsp1109I	GCAGC	2 cut(s)	843, 846
LweI	GCATC	1 cut(s)	102
MaeI	CTAG	2 cut(s)	512, 602
MaeII	ACGT	1 cut(s)	114
MaeIII	GTNAC	2 cut(s)	34, 532
MalI	GATC	2 cut(s)	206, 613
MboI	GATC	2 cut(s)	204, 611
MboII	GAAGA	9 cut(s)	323, 439, 482, 604, 659, 848, 904, 912, 950
MfeI	CAATTG	1 cut(s)	738
MhlI	GDGCHC	1 cut(s)	783
MluCI	AATT	4 cut(s)	215, 265, 651, 738
MlyI	GAGTC	4 cut(s)	38, 68, 434, 562
MnlI	CCTC	9 cut(s)	58, 139, 176, 225, 413, 803, 817, 832, 926
MroXI	GAANNNNTTC	1 cut(s)	651
MseI	TTAA	5 cut(s)	219, 450, 500, 555, 801
MspI	CCGG	2 cut(s)	90, 565
MspR9I	CCNGG	2 cut(s)	287, 565
MunI	CAATTG	1 cut(s)	738
Mva1269I	GAATGC	2 cut(s)	492, 908
MvaI	CCWGG	1 cut(s)	287
MwoI	GCNNNNNNNGC	1 cut(s)	697
NciI	CCSGG	1 cut(s)	565
NdeII	GATC	2 cut(s)	204, 611
NlaIII	CATG	4 cut(s)	104, 141, 497, 932
NmuCI	GTSAC	1 cut(s)	34
NspI	RCATGY	1 cut(s)	497
NspV	TTCGAA	1 cut(s)	484
PcsI	WCGNNNNNNNCGW	1 cut(s)	289
PctI	GAATGC	2 cut(s)	492, 908
PdmI	GAANNNNTTC	1 cut(s)	651
PfeI	GAWTC	5 cut(s)	86, 134, 364, 481, 527
PflFI	GACNNNGTC	1 cut(s)	113
PkrI	GCNGC	2 cut(s)	858, 861
PleI	GAGTC	4 cut(s)	38, 67, 434, 562
PpsI	GAGTC	4 cut(s)	38, 67, 434, 562
PpuMI	RGGWCCY	1 cut(s)	163
PsiI	TTATAA	1 cut(s)	408
Psp5II	RGGWCCY	1 cut(s)	163
Psp6I	CCWGG	1 cut(s)	285
PspGI	CCWGG	1 cut(s)	285
PspPI	GGNCC	2 cut(s)	163, 289
PspPPI	RGGWCCY	1 cut(s)	163
PstNI	CAGNNNCTG	1 cut(s)	62
PsyI	GACNNNGTC	1 cut(s)	113
RsaI	GTAC	2 cut(s)	282, 933
RsaNI	GTAC	2 cut(s)	281, 932
SaqAI	TTAA	5 cut(s)	219, 450, 500, 555, 801
SatI	GCNGC	2 cut(s)	857, 860
Sau3AI	GATC	2 cut(s)	204, 611
Sau96I	GGNCC	2 cut(s)	163, 289
SchI	GAGTC	4 cut(s)	38, 68, 434, 562
ScrFI	CCNGG	2 cut(s)	287, 565
SduI	GDGCHC	1 cut(s)	783
SfaNI	GCATC	1 cut(s)	102
SfuI	TTCGAA	1 cut(s)	484
SinI	GGWCC	2 cut(s)	163, 289
SmlI	CTYRAG	1 cut(s)	881
SmoI	CTYRAG	1 cut(s)	881
SpeI	ACTAGT	1 cut(s)	511
Sse9I	AATT	4 cut(s)	215, 265, 651, 738
SsiI	CCGC	1 cut(s)	722
SspMI	CTAG	2 cut(s)	512, 602
StyD4I	CCNGG	2 cut(s)	285, 563
StyI	CCWWGG	2 cut(s)	198, 250
TaaI	ACNGT	2 cut(s)	293, 773
TaiI	ACGT	1 cut(s)	117
TaqI	TCGA	3 cut(s)	96, 150, 484
TaqII	GACCGA	1 cut(s)	98
TasI	AATT	4 cut(s)	215, 265, 651, 738
TfiI	GAWTC	5 cut(s)	86, 134, 364, 481, 527
Tru1I	TTAA	5 cut(s)	219, 450, 500, 555, 801
Tru9I	TTAA	5 cut(s)	219, 450, 500, 555, 801
TseFI	GTSAC	1 cut(s)	34
TseI	GCWGC	2 cut(s)	856, 859
Tsp45I	GTSAC	1 cut(s)	34
TspDTI	ATGAA	4 cut(s)	117, 126, 233, 359
TspGWI	ACGGA	1 cut(s)	366
Tth111I	GACNNNGTC	1 cut(s)	113
VpaK11BI	GGWCC	2 cut(s)	163, 289
XapI	RAATTY	1 cut(s)	651
XbaI	TCTAGA	1 cut(s)	601
XceI	RCATGY	1 cut(s)	497
XmiI	GTMKAC	1 cut(s)	768
XmnI	GAANNNNTTC	1 cut(s)	651
XspI	CTAG	2 cut(s)	512, 602
ZraI	GACGTC	1 cut(s)	115

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