Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004844

Physical Location & Seq

Genomic Coordinates Reverse (-)

51340082 .. 51341989

Gene Structure 1908 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG312100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGTCATGTTCAAAAGGCAAGCTTTCATCTTTATTCACGAACCCAGAAAGACCCACTTCTTCAAATTCAACCAAGCTTTCATCTTTATTCTTCGCAAACCAAGTTACAGCTAGACCCACTTCTTCGTATCCCACAACCTCAACAGAAACACCAATTCCCAGTGTTCCAATCCAAACCCCACTTGAAAATTTCCTCCACACAAACTGCAAGTCAGGTAATTTCACTCTCAATGAAGCACTCCACTATTTTGACCGCATGATTCTTATGCAACCTGTTCCTCCAATGGCCTCGTTCAATCGTTTATTAGGTGGACTTGCCAAGAAAAATAGCAGCAGCTGTGAACTTAGTGTAGAAATTTTTAATTCACTTATTAATGGGTATTGTAAGGCACGGAAGCTCGAAATTGCTTGGGACCTATATCACAAAATGTCAAAAAAAGGCCTGGTACCAGATGTTATAACATATAGCATGATGATTCATGGGCTCTGTATAGAAGGGCAACTCGAAAAGGCAAATGGTTTGTTTTTGGAAATGGAAGGAAAGGGTTGTGCTCCAAACATCGTCACTTATAATACCCTTATGCGTGGTTTCTGCCAAAATAATAACTTGGAAAAGGTTGTTGAACTTCTTCATAAGATGTCGGAAAGAAATCTGTCACCAGATAACTCTACAACCTCCATTGTCATAGACTTGCTCTCAAAGGATGAAAGCTATCGGAAATGTTTGGACTGGCTTCCAACATTTCCTGCCAGTAGCCAATTGAAAGCTGAGGTGACAAATTTCAAGTCACTTGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0000966 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004016 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009791 GO:0009845 GO:0009975 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0016829 GO:0016849 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048856 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0090351 GO:0090615 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

265

Amino Acids

29.51

Weight (kDa)

8.56

Isoelectric Point (pI)

37.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	110 - 228	9.1e-09	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	113 - 144	3.1e-07	PPR repeat
PPR_3	PF13812	113 - 159	1.2e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	117 - 163	3.5e-19	PPR repeat family
PPR	PF01535	119 - 148	5.7e-08	PPR repeat
PPR_3	PF13812	139 - 196	1.2e-12	Pentatricopeptide repeat domain
PPR_1	PF12854	146 - 179	6.1e-11	PPR repeat
PPR	PF01535	153 - 183	7.8e-08	PPR repeat
PPR_2	PF13041	158 - 199	2.5e-14	PPR repeat family
PPR_3	PF13812	174 - 228	2.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	181 - 214	1.2e-11	PPR repeat
PPR_2	PF13041	185 - 233	7.5e-16	PPR repeat family
PPR	PF01535	188 - 217	1.1e-08	PPR repeat

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)

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Publication-ready

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Orthologous Genes (Group: OG0004844)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g22260
malus_domestica	MD05G1203800.v1.1
prunus_persica	Prupe.8G230100_v2.0.a1
pyrus_communis	pycom05g19020
rosa_chinensis	RchiOBHm_Chr6g0289191 RchiOBHm_Chr6g0289221
rosa_laevigata	RLG00000009132 RLG00000009134 RLG00000012320 RLG00000012323 RLG00000012325
rosa_multiflora	Rmu_co8489247.1_g000002 Rmu_sc0001527.1_g000006 Rmu_sc0001527.1_g000010 Rmu_sc0001527.1_g000011
rosa_roxburghii	Rroxscaffold_7G00179440 Rroxscaffold_7G00179500
rosa_rugosa	Rorug06G0201500 Rorug06G0201800 Rorug06G0201900 Rorug06G0202000
rosa_samantha	Rh6AG312700 Rh6AG312900 Rh6BG319700 Rh6BG320300 Rh6BG320400 Rh6CG326100 Rh6CG326400 Rh6DG312100
rosa_wichuraiana	Rw6G027020 Rw6G027040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	458, 570
Acc65I	GGTACC	1 cut(s)	445
AccB1I	GGYRCC	1 cut(s)	445
AciI	CCGC	1 cut(s)	253
AcsI	RAATTY	4 cut(s)	64, 187, 354, 778
AfaI	GTAC	1 cut(s)	447
AgsI	TTSAA	8 cut(s)	12, 63, 69, 185, 295, 623, 763, 784
AjnI	CCWGG	1 cut(s)	441
AluBI	AGCT	7 cut(s)	22, 76, 110, 336, 397, 711, 767
AluI	AGCT	7 cut(s)	22, 76, 110, 336, 397, 711, 767
Alw21I	GWGCWC	1 cut(s)	553
AlwNI	CAGNNNCTG	1 cut(s)	336
AoxI	GGCC	2 cut(s)	285, 439
ApeKI	GCWGC	2 cut(s)	330, 333
ApoI	RAATTY	4 cut(s)	64, 187, 354, 778
ArsI	GACNNNNNNTTYG	3 cut(s)	194, 226, 770
AseI	ATTAAT	1 cut(s)	372
Asp700I	GAANNNNTTC	1 cut(s)	627
Asp718I	GGTACC	1 cut(s)	445
AspS9I	GGNCC	1 cut(s)	412
AsuHPI	GGTGA	2 cut(s)	648, 784
AvaII	GGWCC	1 cut(s)	412
BanI	GGYRCC	1 cut(s)	445
BanII	GRGCYC	1 cut(s)	486
Bbv12I	GWGCWC	1 cut(s)	553
BbvCI	CCTCAGC	1 cut(s)	768
BbvI	GCAGC	2 cut(s)	342, 345
BciT130I	CCWGG	1 cut(s)	443
BciVI	GTATCC	1 cut(s)	138
BfaI	CTAG	1 cut(s)	111
BfuI	GTATCC	1 cut(s)	138
BisI	GCNGC	2 cut(s)	331, 334
BlsI	GCNGC	2 cut(s)	332, 335
Bme1390I	CCNGG	1 cut(s)	443
Bme18I	GGWCC	1 cut(s)	412
BmgT120I	GGNCC	1 cut(s)	412
BmiI	GGNNCC	2 cut(s)	413, 447
BmrFI	CCNGG	1 cut(s)	443
BmrI	ACTGGG	1 cut(s)	153
BmuI	ACTGGG	1 cut(s)	153
Bpu10I	CCTNAGC	1 cut(s)	768
Bse1I	ACTGG	3 cut(s)	159, 734, 750
BseBI	CCWGG	1 cut(s)	443
BseGI	GGATG	1 cut(s)	709
BseMII	CTCAG	1 cut(s)	759
BseNI	ACTGG	3 cut(s)	159, 734, 750
BseXI	GCAGC	2 cut(s)	342, 345
BshFI	GGCC	2 cut(s)	287, 441
BshNI	GGYRCC	1 cut(s)	445
BsiHKAI	GWGCWC	1 cut(s)	553
BslFI	GGGAC	1 cut(s)	425
BsmFI	GGGAC	1 cut(s)	425
BsnI	GGCC	2 cut(s)	287, 441
Bsp1286I	GDGCHC	2 cut(s)	486, 553
BspACI	CCGC	1 cut(s)	253
BspANI	GGCC	2 cut(s)	287, 441
BspCNI	CTCAG	1 cut(s)	760
BspLI	GGNNCC	2 cut(s)	413, 447
BspT107I	GGYRCC	1 cut(s)	445
BsrI	ACTGG	3 cut(s)	159, 734, 750
Bst2UI	CCWGG	1 cut(s)	443
BstC8I	GCNNGC	1 cut(s)	20
BstDEI	CTNAG	2 cut(s)	344, 768
BstF5I	GGATG	1 cut(s)	709
BstNI	CCWGG	1 cut(s)	443
BstSCI	CCNGG	1 cut(s)	441
BstV1I	GCAGC	2 cut(s)	342, 345
BsuI	GTATCC	1 cut(s)	138
BsuRI	GGCC	2 cut(s)	287, 441
BtsCI	GGATG	1 cut(s)	709
BtsIMutI	CAGTG	1 cut(s)	166
Cac8I	GCNNGC	1 cut(s)	20
CaiI	CAGNNNCTG	1 cut(s)	336
Cfr13I	GGNCC	1 cut(s)	412
Csp6I	GTAC	1 cut(s)	446
CviAII	CATG	5 cut(s)	6, 256, 469, 479, 795
CviQI	GTAC	1 cut(s)	446
DdeI	CTNAG	2 cut(s)	344, 768
Eco147I	AGGCCT	1 cut(s)	441
Eco24I	GRGCYC	1 cut(s)	486
Eco47I	GGWCC	1 cut(s)	412
EcoO109I	RGGNCCY	1 cut(s)	412
EcoRII	CCWGG	1 cut(s)	441
EcoT38I	GRGCYC	1 cut(s)	486
FaeI	CATG	5 cut(s)	9, 259, 472, 482, 798
FalI	AAGNNNNNCTT	3 cut(s)	38, 40, 72
FaqI	GGGAC	1 cut(s)	425
FatI	CATG	5 cut(s)	5, 255, 468, 478, 794
Fnu4HI	GCNGC	2 cut(s)	331, 334
FokI	GGATG	1 cut(s)	716
FriOI	GRGCYC	1 cut(s)	486
Fsp4HI	GCNGC	2 cut(s)	331, 334
FspBI	CTAG	1 cut(s)	111
GluI	GCNGC	2 cut(s)	331, 334
HaeIII	GGCC	2 cut(s)	287, 441
Hin1II	CATG	5 cut(s)	9, 259, 472, 482, 798
HindIII	AAGCTT	2 cut(s)	20, 74
HinfI	GANTC	2 cut(s)	259, 475
HphI	GGTGA	2 cut(s)	648, 784
Hpy166II	GTNNAC	2 cut(s)	311, 341
Hpy188I	TCNGA	2 cut(s)	643, 717
Hpy188III	TCNNGA	1 cut(s)	37
Hpy8I	GTNNAC	2 cut(s)	311, 341
HpyAV	CCTTC	2 cut(s)	488, 530
HpyCH4V	TGCA	3 cut(s)	207, 268, 794
HpyF3I	CTNAG	2 cut(s)	344, 768
Hsp92II	CATG	5 cut(s)	9, 259, 472, 482, 798
KpnI	GGTACC	1 cut(s)	449
LmnI	GCTCC	1 cut(s)	556
Lsp1109I	GCAGC	2 cut(s)	342, 345
MaeI	CTAG	1 cut(s)	111
MaeIII	GTNAC	5 cut(s)	103, 562, 654, 772, 786
MboII	GAAGA	4 cut(s)	51, 82, 114, 620
MfeI	CAATTG	1 cut(s)	758
MhlI	GDGCHC	2 cut(s)	486, 553
MluCI	AATT	9 cut(s)	64, 153, 187, 217, 354, 361, 402, 758, 778
MmeI	TCCRAC	2 cut(s)	621, 761
MnlI	CCTC	6 cut(s)	148, 203, 288, 298, 685, 763
MroXI	GAANNNNTTC	1 cut(s)	627
MseI	TTAA	2 cut(s)	360, 372
MslI	CAYNNNNRTG	1 cut(s)	793
MspA1I	CMGCKG	1 cut(s)	336
MspR9I	CCNGG	1 cut(s)	443
MunI	CAATTG	1 cut(s)	758
MvaI	CCWGG	1 cut(s)	443
NlaIII	CATG	5 cut(s)	9, 259, 472, 482, 798
NlaIV	GGNNCC	2 cut(s)	413, 447
NmuCI	GTSAC	4 cut(s)	562, 654, 772, 786
PceI	AGGCCT	1 cut(s)	441
PdmI	GAANNNNTTC	1 cut(s)	627
PfeI	GAWTC	2 cut(s)	259, 475
PkrI	GCNGC	2 cut(s)	332, 335
PpuMI	RGGWCCY	1 cut(s)	412
PshBI	ATTAAT	1 cut(s)	372
PsiI	TTATAA	2 cut(s)	458, 570
Psp5II	RGGWCCY	1 cut(s)	412
Psp6I	CCWGG	1 cut(s)	441
PspGI	CCWGG	1 cut(s)	441
PspN4I	GGNNCC	2 cut(s)	413, 447
PspPI	GGNCC	1 cut(s)	412
PspPPI	RGGWCCY	1 cut(s)	412
PstNI	CAGNNNCTG	1 cut(s)	336
PvuII	CAGCTG	1 cut(s)	336
RsaI	GTAC	1 cut(s)	447
RsaNI	GTAC	1 cut(s)	446
RseI	CAYNNNNRTG	1 cut(s)	793
SaqAI	TTAA	2 cut(s)	360, 372
SatI	GCNGC	2 cut(s)	331, 334
Sau96I	GGNCC	1 cut(s)	412
ScrFI	CCNGG	1 cut(s)	443
SduI	GDGCHC	2 cut(s)	486, 553
SinI	GGWCC	1 cut(s)	412
SmiMI	CAYNNNNRTG	1 cut(s)	793
Sse9I	AATT	9 cut(s)	64, 153, 187, 217, 354, 361, 402, 758, 778
SseBI	AGGCCT	1 cut(s)	441
SsiI	CCGC	1 cut(s)	253
SspMI	CTAG	1 cut(s)	111
StuI	AGGCCT	1 cut(s)	441
StyD4I	CCNGG	1 cut(s)	441
TaqI	TCGA	2 cut(s)	399, 504
TasI	AATT	9 cut(s)	64, 153, 187, 217, 354, 361, 402, 758, 778
TfiI	GAWTC	2 cut(s)	259, 475
Tru1I	TTAA	2 cut(s)	360, 372
Tru9I	TTAA	2 cut(s)	360, 372
TscAI	CASTG	1 cut(s)	166
TseFI	GTSAC	4 cut(s)	562, 654, 772, 786
TseI	GCWGC	2 cut(s)	330, 333
Tsp45I	GTSAC	4 cut(s)	562, 654, 772, 786
TspDTI	ATGAA	6 cut(s)	15, 69, 246, 467, 620, 720
TspGWI	ACGGA	1 cut(s)	406
TspRI	CASTG	1 cut(s)	166
VpaK11BI	GGWCC	1 cut(s)	412
VspI	ATTAAT	1 cut(s)	372
XapI	RAATTY	4 cut(s)	64, 187, 354, 778
XmnI	GAANNNNTTC	1 cut(s)	627
XspI	CTAG	1 cut(s)	111

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