Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0005665

Physical Location & Seq

Genomic Coordinates Reverse (-)

46954319 .. 46998612

Gene Structure 44294 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG276100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1092 bp

ATGGAAAATCATCACATCTCGTCGGAGTCGGAGGAAGAGGAATTCTCCGACCGCTTCGTCTGCTGCATGTGTCTGGAACTTCTGTACAAGCCTATAGTGCTCTCCTGTGGGCACGTTTCGTGTTTCTGGTGCGTGCATCGATCCATGAGTGGTGAAAAGCAATCTCATTGCCCGCTTTGTAGGCATCCCTATAATCACTTTCCGACTATATGTCAATTGCTTCATTGTTTACTGCTCAACTCGTATCCTGTTGCTTATAAGAAGAGGGAATTGCAAATTCTAGAAGAAGAGAAGAAAACTGGCTACTTCTCACCACAGCTTGATGTTCAGGCTTGGAGCTCACAAGCTAATCAAGACTCAAATATTCCGGGCGACTCTGTAAGCAAAGAGTTGAGTGCAAGTATGCAGGAAACAGTTTTCGATTCATATAATCTAAACAATGCCATAGCGGTTTCTAGGCCTGCTGATGGTGGAGACTATGAGGGAATGGAGAATGTTACTGAGCAAGTAAAGTATCCCCTGTTATCTCAGCAGCAGAGCGGAAGTCCCAAGCAGATTTCAGTTGCAGATGTGCTTTGTGCTGCTTGCAAACAACTGCTGTTTCGTCCTGTGGTTCTTAACTGTGGCCATGTATATTGTGAAAGTTGTATCGTCAAACAAGATGAAGAGAAGATTAGATGTCAAGTTTGTCAAAGTTTCCATCCAGCCAGATATCCAAAAGTTTGTTTGGATCTGCAAAACTTTTTGATAGAACAGTTTCCTAAAGAACTTGCACATAGAAGAGATGGTGTACAGCGTAACCATGTTAATCCAACTACATGTGAAGGCAAAAGCAGTAAAGAAGCAGAGAAGTCATCATCGGGTTCATATCACAGAGGAGTTGGCTGTGATTATTGTGGGATGTATCCGATAATTGGGGATAGATACCGGTGCAAAGATTGTGTGGAGAAAATCGGATTTGACCTTTGCAATGATTGTTATAATACTAGTTCCAAGCTTCCAGGTCGATTTAATCAGCAACATACAGCAGAACACCAGTTTGAGCTTATACGCAGCGACATTATTCGTGGGTCAGTTAAGGATAATGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009605 GO:0009607 GO:0009620 GO:0009987 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0032446 GO:0036211 GO:0043161 GO:0043170 GO:0043207 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0050832 GO:0050896 GO:0051603 GO:0051704 GO:0051707 GO:0061630 GO:0061659 GO:0070647 GO:0071596 GO:0071704 GO:0098542 GO:0140096 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ZZ zf-C3HC4_3 zf-C3HC4_4 zf-RING_UBOX

Protein Analysis

363

Amino Acids

41.26

Weight (kDa)

5.93

Isoelectric Point (pI)

56.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	20 - 65	1.6e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	193 - 227	8.3e-07	RING-type zinc-finger
ZZ	PF00569	291 - 331	2.5e-07	Zinc finger, ZZ type

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005665)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G24800
fragaria_vesca	FvH4_2g19100 FvH4_2g19100 FvH4_2g19100 FvH4_6g51520
malus_domestica	MD10G1165000.v1.1
prunus_persica	Prupe.8G203400_v2.0.a1 Prupe.8G203400_v2.0.a1 Prupe.8G203400_v2.0.a1
pyrus_communis	pycom10g14220
rosa_chinensis	RchiOBHm_Chr6g0284931
rosa_laevigata	RLG00000012700 RLG00000012701
rosa_multiflora	Rmu_sc0004961.1_g000001 Rmu_sc0004961.1_g000002
rosa_roxburghii	Rroxscaffold_7G00183950 Rroxscaffold_7G00183960 Rroxscaffold_7G00184220
rosa_rugosa	Rorug06G0168600 Rorug06G0168700
rosa_samantha	Rh6AG280700 Rh6BG281000 Rh6BG281100 Rh6BG281200 Rh6BG281300 Rh6CG283000 Rh6DG276100
rosa_wichuraiana	Rw6G024120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	258, 981
AasI	GACNNNNNNGTC	1 cut(s)	56
AccBSI	CCGCTC	1 cut(s)	540
AciI	CCGC	4 cut(s)	52, 173, 449, 540
AclWI	GGATC	2 cut(s)	135, 738
AcoI	YGGCCR	1 cut(s)	625
AcsI	RAATTY	2 cut(s)	41, 276
AfaI	GTAC	2 cut(s)	86, 792
AfiI	CCNNNNNNNGG	2 cut(s)	467, 914
AflIII	ACRYGT	1 cut(s)	818
AgeI	ACCGGT	1 cut(s)	927
AhdI	GACNNNNNGTC	1 cut(s)	210
AhlI	ACTAGT	1 cut(s)	986
AjnI	CCWGG	1 cut(s)	1000
AluBI	AGCT	5 cut(s)	319, 339, 347, 997, 1045
AluI	AGCT	5 cut(s)	319, 339, 347, 997, 1045
Alw21I	GWGCWC	2 cut(s)	102, 341
Alw26I	GTCTC	1 cut(s)	468
AlwI	GGATC	2 cut(s)	135, 738
AoxI	GGCC	2 cut(s)	458, 625
ApeKI	GCWGC	4 cut(s)	63, 532, 581, 1053
ApoI	RAATTY	2 cut(s)	41, 276
AsiGI	ACCGGT	1 cut(s)	927
Asp700I	GAANNNNTTC	1 cut(s)	756
AsuC2I	CCSGG	1 cut(s)	369
AsuHPI	GGTGA	2 cut(s)	164, 303
BaeGI	GKGCMC	1 cut(s)	114
BalI	TGGCCA	1 cut(s)	627
BanII	GRGCYC	1 cut(s)	341
Bbv12I	GWGCWC	2 cut(s)	102, 341
BbvI	GCAGC	4 cut(s)	50, 544, 568, 1065
BccI	CCATC	3 cut(s)	461, 708, 779
BciT130I	CCWGG	1 cut(s)	1002
BciVI	GTATCC	3 cut(s)	255, 525, 915
BcnI	CCSGG	1 cut(s)	369
BcoDI	GTCTC	1 cut(s)	468
BcuI	ACTAGT	1 cut(s)	986
BfaI	CTAG	3 cut(s)	281, 456, 987
BfmI	CTRYAG	1 cut(s)	93
BfuI	GTATCC	3 cut(s)	255, 525, 915
BisI	GCNGC	4 cut(s)	64, 533, 582, 1054
BlsI	GCNGC	4 cut(s)	65, 534, 583, 1055
Bme1390I	CCNGG	2 cut(s)	369, 1002
BmeRI	GACNNNNNGTC	1 cut(s)	210
BmrFI	CCNGG	2 cut(s)	369, 1002
BmsI	GCATC	2 cut(s)	145, 193
BplI	GAGNNNNNCTC	2 cut(s)	29, 61
BpuMI	CCSGG	1 cut(s)	369
Bsa29I	ATCGAT	1 cut(s)	139
BsaWI	WCCGGW	1 cut(s)	927
Bsc4I	CCNNNNNNNGG	2 cut(s)	467, 914
Bse118I	RCCGGY	1 cut(s)	927
Bse1I	ACTGG	2 cut(s)	304, 1036
Bse3DI	GCAATG	2 cut(s)	166, 976
BseBI	CCWGG	1 cut(s)	1002
BseCI	ATCGAT	1 cut(s)	139
BseGI	GGATG	3 cut(s)	184, 700, 906
BseLI	CCNNNNNNNGG	2 cut(s)	467, 914
BseMI	GCAATG	2 cut(s)	166, 976
BseMII	CTCAG	2 cut(s)	492, 542
BseNI	ACTGG	2 cut(s)	304, 1036
BseRI	GAGGAG	1 cut(s)	891
BseSI	GKGCMC	1 cut(s)	114
BseXI	GCAGC	4 cut(s)	50, 544, 568, 1065
Bsh1285I	CGRYCG	1 cut(s)	52
BshFI	GGCC	2 cut(s)	460, 627
BshTI	ACCGGT	1 cut(s)	927
BshVI	ATCGAT	1 cut(s)	139
BsiEI	CGRYCG	1 cut(s)	52
BsiHKAI	GWGCWC	2 cut(s)	102, 341
BsiSI	CCGG	2 cut(s)	368, 928
BslFI	GGGAC	1 cut(s)	531
BslI	CCNNNNNNNGG	2 cut(s)	467, 914
BsmAI	GTCTC	1 cut(s)	468
BsmFI	GGGAC	1 cut(s)	531
BsnI	GGCC	2 cut(s)	460, 627
Bsp1286I	GDGCHC	3 cut(s)	102, 114, 341
Bsp1407I	TGTACA	2 cut(s)	84, 790
Bsp143I	GATC	2 cut(s)	140, 730
BspACI	CCGC	4 cut(s)	52, 173, 449, 540
BspANI	GGCC	2 cut(s)	460, 627
BspCNI	CTCAG	2 cut(s)	493, 541
BspDI	ATCGAT	1 cut(s)	139
BspPI	GGATC	2 cut(s)	135, 738
BsrBI	CCGCTC	1 cut(s)	540
BsrDI	GCAATG	2 cut(s)	166, 976
BsrFI	RCCGGY	1 cut(s)	927
BsrGI	TGTACA	2 cut(s)	84, 790
BsrI	ACTGG	2 cut(s)	304, 1036
BssAI	RCCGGY	1 cut(s)	927
BssMI	GATC	2 cut(s)	140, 730
Bst2UI	CCWGG	1 cut(s)	1002
Bst4CI	ACNGT	3 cut(s)	415, 623, 756
Bst6I	CTCTTC	5 cut(s)	30, 257, 282, 660, 775
BstAUI	TGTACA	2 cut(s)	84, 790
BstC8I	GCNNGC	4 cut(s)	134, 173, 462, 586
BstDEI	CTNAG	2 cut(s)	501, 528
BstF5I	GGATG	3 cut(s)	184, 700, 906
BstKTI	GATC	2 cut(s)	143, 733
BstMAI	GTCTC	1 cut(s)	468
BstMBI	GATC	2 cut(s)	140, 730
BstMCI	CGRYCG	1 cut(s)	52
BstMWI	GCNNNNNNNGC	3 cut(s)	60, 97, 181
BstNI	CCWGG	1 cut(s)	1002
BstNSI	RCATGY	2 cut(s)	70, 822
BstSCI	CCNGG	2 cut(s)	367, 1000
BstSFI	CTRYAG	1 cut(s)	93
BstSLI	GKGCMC	1 cut(s)	114
BstV1I	GCAGC	4 cut(s)	50, 544, 568, 1065
BstX2I	RGATCY	1 cut(s)	730
BstYI	RGATCY	1 cut(s)	730
Bsu15I	ATCGAT	1 cut(s)	139
BsuI	GTATCC	3 cut(s)	255, 525, 915
BsuRI	GGCC	2 cut(s)	460, 627
BsuTUI	ATCGAT	1 cut(s)	139
BtsCI	GGATG	3 cut(s)	184, 700, 906
Cac8I	GCNNGC	4 cut(s)	134, 173, 462, 586
Cfr10I	RCCGGY	1 cut(s)	927
ClaI	ATCGAT	1 cut(s)	139
Csp6I	GTAC	2 cut(s)	85, 791
CspAI	ACCGGT	1 cut(s)	927
CviAII	CATG	5 cut(s)	67, 145, 629, 803, 819
CviQI	GTAC	2 cut(s)	85, 791
DdeI	CTNAG	2 cut(s)	501, 528
DpnI	GATC	2 cut(s)	142, 732
DpnII	GATC	2 cut(s)	140, 730
DrdI	GACNNNNNNGTC	1 cut(s)	56
DriI	GACNNNNNGTC	1 cut(s)	210
DseDI	GACNNNNNNGTC	1 cut(s)	56
EaeI	YGGCCR	1 cut(s)	625
Eam1104I	CTCTTC	5 cut(s)	30, 257, 282, 660, 775
Eam1105I	GACNNNNNGTC	1 cut(s)	210
EarI	CTCTTC	5 cut(s)	30, 257, 282, 660, 775
Ecl136II	GAGCTC	1 cut(s)	339
Eco147I	AGGCCT	1 cut(s)	460
Eco24I	GRGCYC	1 cut(s)	341
Eco32I	GATATC	1 cut(s)	713
Eco53kI	GAGCTC	1 cut(s)	339
EcoICRI	GAGCTC	1 cut(s)	339
EcoRI	GAATTC	1 cut(s)	41
EcoRII	CCWGG	1 cut(s)	1000
EcoRV	GATATC	1 cut(s)	713
EcoT38I	GRGCYC	1 cut(s)	341
FaeI	CATG	5 cut(s)	70, 148, 632, 806, 822
FaqI	GGGAC	1 cut(s)	531
FatI	CATG	5 cut(s)	66, 144, 628, 802, 818
FauI	CCCGC	1 cut(s)	180
Fnu4HI	GCNGC	4 cut(s)	64, 533, 582, 1054
FokI	GGATG	3 cut(s)	171, 687, 913
FriOI	GRGCYC	1 cut(s)	341
Fsp4HI	GCNGC	4 cut(s)	64, 533, 582, 1054
FspBI	CTAG	3 cut(s)	281, 456, 987
GluI	GCNGC	4 cut(s)	64, 533, 582, 1054
HaeIII	GGCC	2 cut(s)	460, 627
HapII	CCGG	2 cut(s)	368, 928
Hin1II	CATG	5 cut(s)	70, 148, 632, 806, 822
HindIII	AAGCTT	1 cut(s)	995
HinfI	GANTC	4 cut(s)	26, 356, 374, 422
HpaII	CCGG	2 cut(s)	368, 928
HphI	GGTGA	2 cut(s)	164, 303
Hpy166II	GTNNAC	2 cut(s)	230, 791
Hpy188I	TCNGA	6 cut(s)	25, 31, 49, 204, 909, 956
Hpy188III	TCNNGA	3 cut(s)	74, 281, 353
Hpy8I	GTNNAC	2 cut(s)	230, 791
Hpy99I	CGWCG	1 cut(s)	25
HpyAV	CCTTC	1 cut(s)	818
HpyCH4III	ACNGT	3 cut(s)	415, 623, 756
HpyCH4IV	ACGT	1 cut(s)	114
HpyF10VI	GCNNNNNNNGC	3 cut(s)	60, 97, 181
HpyF3I	CTNAG	2 cut(s)	501, 528
HpySE526I	ACGT	1 cut(s)	114
Hsp92II	CATG	5 cut(s)	70, 148, 632, 806, 822
Kzo9I	GATC	2 cut(s)	140, 730
LmnI	GCTCC	1 cut(s)	336
Lsp1109I	GCAGC	4 cut(s)	50, 544, 568, 1065
LweI	GCATC	2 cut(s)	145, 193
MaeI	CTAG	3 cut(s)	281, 456, 987
MaeII	ACGT	1 cut(s)	114
MaeIII	GTNAC	2 cut(s)	496, 797
MalI	GATC	2 cut(s)	142, 732
MbiI	CCGCTC	1 cut(s)	540
MboI	GATC	2 cut(s)	140, 730
MboII	GAAGA	8 cut(s)	47, 274, 296, 299, 304, 677, 682, 792
MfeI	CAATTG	1 cut(s)	215
MflI	RGATCY	1 cut(s)	730
MhlI	GDGCHC	3 cut(s)	102, 114, 341
MlsI	TGGCCA	1 cut(s)	627
MluCI	AATT	5 cut(s)	41, 215, 269, 276, 912
MluNI	TGGCCA	1 cut(s)	627
MlyI	GAGTC	3 cut(s)	35, 350, 368
MmeI	TCCRAC	4 cut(s)	9, 72, 227, 836
MnlI	CCTC	5 cut(s)	25, 31, 258, 475, 869
Mox20I	TGGCCA	1 cut(s)	627
MroXI	GAANNNNTTC	1 cut(s)	756
MscI	TGGCCA	1 cut(s)	627
MseI	TTAA	4 cut(s)	618, 807, 1011, 1077
Msp20I	TGGCCA	1 cut(s)	627
MspI	CCGG	2 cut(s)	368, 928
MspR9I	CCNGG	2 cut(s)	369, 1002
MunI	CAATTG	1 cut(s)	215
MvaI	CCWGG	1 cut(s)	1002
MwoI	GCNNNNNNNGC	3 cut(s)	60, 97, 181
NciI	CCSGG	1 cut(s)	369
NdeII	GATC	2 cut(s)	140, 730
NlaIII	CATG	5 cut(s)	70, 148, 632, 806, 822
NspI	RCATGY	2 cut(s)	70, 822
PceI	AGGCCT	1 cut(s)	460
PciI	ACATGT	1 cut(s)	818
PdmI	GAANNNNTTC	1 cut(s)	756
PfeI	GAWTC	1 cut(s)	422
PinAI	ACCGGT	1 cut(s)	927
PkrI	GCNGC	4 cut(s)	65, 534, 583, 1055
PleI	GAGTC	3 cut(s)	34, 350, 368
PpsI	GAGTC	3 cut(s)	34, 350, 368
PscI	ACATGT	1 cut(s)	818
PsiI	TTATAA	2 cut(s)	258, 981
Psp124BI	GAGCTC	1 cut(s)	341
Psp6I	CCWGG	1 cut(s)	1000
PspGI	CCWGG	1 cut(s)	1000
PsuI	RGATCY	1 cut(s)	730
RsaI	GTAC	2 cut(s)	86, 792
RsaNI	GTAC	2 cut(s)	85, 791
SacI	GAGCTC	1 cut(s)	341
SaqAI	TTAA	4 cut(s)	618, 807, 1011, 1077
SatI	GCNGC	4 cut(s)	64, 533, 582, 1054
Sau3AI	GATC	2 cut(s)	140, 730
SchI	GAGTC	3 cut(s)	35, 350, 368
ScrFI	CCNGG	2 cut(s)	369, 1002
SduI	GDGCHC	3 cut(s)	102, 114, 341
SetI	ASST	8 cut(s)	117, 321, 341, 349, 966, 999, 1006, 1047
SfaNI	GCATC	2 cut(s)	145, 193
SfcI	CTRYAG	1 cut(s)	93
SpeI	ACTAGT	1 cut(s)	986
Sse9I	AATT	5 cut(s)	41, 215, 269, 276, 912
SseBI	AGGCCT	1 cut(s)	460
SsiI	CCGC	4 cut(s)	52, 173, 449, 540
SspI	AATATT	1 cut(s)	364
SspMI	CTAG	3 cut(s)	281, 456, 987
SstI	GAGCTC	1 cut(s)	341
StuI	AGGCCT	1 cut(s)	460
StyD4I	CCNGG	2 cut(s)	367, 1000
TaaI	ACNGT	3 cut(s)	415, 623, 756
TaiI	ACGT	1 cut(s)	117
TaqI	TCGA	3 cut(s)	139, 420, 1006
TasI	AATT	5 cut(s)	41, 215, 269, 276, 912
TatI	WGTACW	2 cut(s)	84, 790
TfiI	GAWTC	1 cut(s)	422
Tru1I	TTAA	4 cut(s)	618, 807, 1011, 1077
Tru9I	TTAA	4 cut(s)	618, 807, 1011, 1077
TseI	GCWGC	4 cut(s)	63, 532, 581, 1053
TspDTI	ATGAA	4 cut(s)	212, 414, 678, 855
XapI	RAATTY	2 cut(s)	41, 276
XbaI	TCTAGA	1 cut(s)	280
XceI	RCATGY	2 cut(s)	70, 822
XmnI	GAANNNNTTC	1 cut(s)	756
XspI	CTAG	3 cut(s)	281, 456, 987

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