Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0001472

Physical Location & Seq

Genomic Coordinates Forward (+)

30417673 .. 30419814

Gene Structure 2142 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG314900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGATCAGAGATGGACTTGTATCTAGTGTCTTCTCTTATAACACGGTAATCGATTGCTTTTGCAAAGCCCAAATTATGGACATGGCATCAAAGGCTTTTGGAGACATGCAGCATAAAGGTATTCCTCCTAGCCTTGTAACATTCAATACACTTCTTACCGGATATTGCAAGGCTGGAGAGGTAAGTAAGGCACATGAACTGTTGATAATGCTCCTAGAACATGGTTTCAAACCAGATATATTCACTTTTAGTACAATAATTGACGGACTCTGTCGGGTGCACCAGATTGATGATGCTTTCGATTGTTTTGCTGAGATGGTCAGGTGGGGGATCCCTCCAAATGTCATCACATACAATATATTGTTACACTCTTTGTGTTTCATAGGAGATATTGCTAGAGGAGTGCGACTAATGAAAAGTATGCAGGTAGATGGAATAAAACCAGATGCTTACTCTTTCAGTTATCTTATTCAAAGTCTTTGTAGGATGAACAAGGTTGAGAAAGCAGACAAATTTTTTCTTGCTATGTTGAAATCGGGTTTGAATCCTGACAATTATACACAGTGTTTTTATCAAGGCATTGTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006091 GO:0006119 GO:0006139 GO:0006163 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0006979 GO:0008150 GO:0008152 GO:0009117 GO:0009123 GO:0009126 GO:0009141 GO:0009144 GO:0009150 GO:0009161 GO:0009167 GO:0009199 GO:0009205 GO:0009259 GO:0009451 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0015980 GO:0016070 GO:0016310 GO:0016787 GO:0016788 GO:0017144 GO:0019637 GO:0019693 GO:0022900 GO:0022904 GO:0033993 GO:0034641 GO:0042221 GO:0042773 GO:0042775 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0045333 GO:0046034 GO:0046483 GO:0050896 GO:0055086 GO:0055114 GO:0071704 GO:0072521 GO:0090304 GO:0090305 GO:0097159 GO:0097305 GO:1901135 GO:1901360 GO:1901363 GO:1901564 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

195

Amino Acids

21.95

Weight (kDa)

6.49

Isoelectric Point (pI)

13.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	1 - 55	2e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	9 - 51	1.4e-11	PPR repeat family
TPR_24	PF23276	27 - 140	2.8e-08	Fungal tetratrico peptide repeats
PPR_1	PF12854	39 - 68	2.4e-10	PPR repeat
PPR_2	PF13041	43 - 92	1.4e-16	PPR repeat family
PPR	PF01535	46 - 76	3e-07	PPR repeat
PPR_3	PF13812	74 - 123	7.5e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	75 - 107	1.3e-10	PPR repeat
PPR	PF01535	81 - 111	3.8e-06	PPR repeat
PPR_2	PF13041	85 - 126	3.2e-16	PPR repeat family
PPR_1	PF12854	109 - 141	3.9e-08	PPR repeat
PPR_2	PF13041	113 - 162	7.3e-14	PPR repeat family
PPR_1	PF12854	144 - 173	2e-06	PPR repeat
PPR_2	PF13041	153 - 187	1.1e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0001472)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12615
fragaria_vesca	FvH4_3g40110
malus_domestica	MD04G1014300.v1.1 MD04G1014400.v1.1 MD04G1015100.v1.1 MD04G1015700.v1.1 MD04G1015800.v1.1 MD04G1015900.v1.1 MD04G1016200.v1.1 MD04G1021600.v1.1 MD05G1145400.v1.1 MD07G1093000.v1.1 MD10G1069200.v1.1 MD11G1128800.v1.1
prunus_persica	Prupe.1G160300_v2.0.a1 Prupe.1G162600_v2.0.a1 Prupe.1G166700_v2.0.a1 Prupe.1G167000_v2.0.a1 Prupe.6G346200_v2.0.a1
pyrus_communis	pycom04g01130 pycom04g01150 pycom04g01200 pycom04g01740 pycom04g01770 pycom04g10990
rosa_chinensis	RchiOBHm_Chr4g0414121 RchiOBHm_Chr7g0237341
rosa_laevigata	RLG00000008171 RLG00000008172 RLG00000036265
rosa_multiflora	Rmu_co8044332.1_g000001 Rmu_co8232951.1_g000001 Rmu_sc0003264.1_g000004 Rmu_sc0012180.1_g000010 Rmu_sc0012322.1_g000001 Rmu_sc0029476.1_g000001
rosa_roxburghii	Rroxscaffold_1G00018610 Rroxscaffold_5G00358060 Rroxscaffold_5G00358070 Rroxscaffold_5G00358080
rosa_rugosa	Rorug04G0125800 Rorug04G0125900 Rorug04G0126000
rosa_samantha	Rh1DG083800 Rh3BG179700 Rh3DG195400 Rh4AG184400 Rh4BG183800 Rh4DG179700 Rh7BG314900
rosa_wichuraiana	Rw4G015690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	39
Acc36I	ACCTGC	1 cut(s)	415
AccB7I	CCANNNNNTGG	1 cut(s)	76
AclWI	GGATC	2 cut(s)	325, 338
AcsI	RAATTY	1 cut(s)	512
AfaI	GTAC	1 cut(s)	253
AfiI	CCNNNNNNNGG	1 cut(s)	76
AgsI	TTSAA	5 cut(s)	145, 229, 473, 532, 544
Alw21I	GWGCWC	1 cut(s)	282
Alw26I	GTCTC	1 cut(s)	96
Alw44I	GTGCAC	1 cut(s)	278
AlwI	GGATC	2 cut(s)	325, 338
ApaLI	GTGCAC	1 cut(s)	278
ApeKI	GCWGC	1 cut(s)	109
ApoI	RAATTY	1 cut(s)	512
BaeGI	GKGCMC	1 cut(s)	282
BamHI	GGATCC	1 cut(s)	330
BbsI	GAAGAC	1 cut(s)	22
Bbv12I	GWGCWC	1 cut(s)	282
BbvI	GCAGC	1 cut(s)	121
BccI	CCATC	3 cut(s)	5, 310, 425
BcgI	CGANNNNNNTGC	2 cut(s)	290, 324
BclI	TGATCA	1 cut(s)	3
BcoDI	GTCTC	1 cut(s)	96
BfaI	CTAG	4 cut(s)	24, 129, 215, 396
BfuAI	ACCTGC	1 cut(s)	415
BisI	GCNGC	1 cut(s)	110
BlsI	GCNGC	1 cut(s)	111
BmiI	GGNNCC	1 cut(s)	332
BmsI	GCATC	3 cut(s)	95, 283, 436
BpiI	GAAGAC	1 cut(s)	22
BpmI	CTGGAG	1 cut(s)	195
Bsa29I	ATCGAT	1 cut(s)	51
BsaWI	WCCGGW	1 cut(s)	158
Bsc4I	CCNNNNNNNGG	1 cut(s)	76
BseCI	ATCGAT	1 cut(s)	51
BseGI	GGATG	1 cut(s)	492
BseLI	CCNNNNNNNGG	1 cut(s)	76
BseMII	CTCAG	1 cut(s)	303
BseRI	GAGGAG	1 cut(s)	414
BseSI	GKGCMC	1 cut(s)	282
BseXI	GCAGC	1 cut(s)	121
BshVI	ATCGAT	1 cut(s)	51
BsiHKAI	GWGCWC	1 cut(s)	282
BsiSI	CCGG	1 cut(s)	159
BslI	CCNNNNNNNGG	1 cut(s)	76
BsmAI	GTCTC	1 cut(s)	96
Bsp1286I	GDGCHC	1 cut(s)	282
Bsp143I	GATC	2 cut(s)	3, 330
BspCNI	CTCAG	1 cut(s)	304
BspDI	ATCGAT	1 cut(s)	51
BspLI	GGNNCC	1 cut(s)	332
BspMI	ACCTGC	1 cut(s)	415
BspPI	GGATC	2 cut(s)	325, 338
BssMI	GATC	2 cut(s)	3, 330
Bst4CI	ACNGT	3 cut(s)	46, 201, 564
BstDEI	CTNAG	1 cut(s)	312
BstF5I	GGATG	1 cut(s)	492
BstKTI	GATC	2 cut(s)	6, 333
BstMAI	GTCTC	1 cut(s)	96
BstMBI	GATC	2 cut(s)	3, 330
BstMWI	GCNNNNNNNGC	1 cut(s)	92
BstNSI	RCATGY	1 cut(s)	109
BstSLI	GKGCMC	1 cut(s)	282
BstV1I	GCAGC	1 cut(s)	121
BstV2I	GAAGAC	1 cut(s)	22
BstX2I	RGATCY	1 cut(s)	330
BstYI	RGATCY	1 cut(s)	330
Bsu15I	ATCGAT	1 cut(s)	51
BsuTUI	ATCGAT	1 cut(s)	51
BtsCI	GGATG	1 cut(s)	492
BtsIMutI	CAGTG	1 cut(s)	569
BveI	ACCTGC	1 cut(s)	415
ClaI	ATCGAT	1 cut(s)	51
Csp6I	GTAC	1 cut(s)	252
CviAII	CATG	4 cut(s)	82, 106, 194, 221
CviJI	RGCY	4 cut(s)	68, 95, 132, 173
CviKI_1	RGCY	4 cut(s)	68, 95, 132, 173
CviQI	GTAC	1 cut(s)	252
DdeI	CTNAG	1 cut(s)	312
DpnI	GATC	2 cut(s)	5, 332
DpnII	GATC	2 cut(s)	3, 330
FaeI	CATG	4 cut(s)	85, 109, 197, 224
FatI	CATG	4 cut(s)	81, 105, 193, 220
FbaI	TGATCA	1 cut(s)	3
Fnu4HI	GCNGC	1 cut(s)	110
FokI	GGATG	1 cut(s)	499
Fsp4HI	GCNGC	1 cut(s)	110
FspBI	CTAG	4 cut(s)	24, 129, 215, 396
GluI	GCNGC	1 cut(s)	110
GsuI	CTGGAG	1 cut(s)	195
HapII	CCGG	1 cut(s)	159
Hin1II	CATG	4 cut(s)	85, 109, 197, 224
HinfI	GANTC	2 cut(s)	267, 544
HpaII	CCGG	1 cut(s)	159
Hpy166II	GTNNAC	1 cut(s)	280
Hpy188I	TCNGA	1 cut(s)	8
Hpy188III	TCNNGA	1 cut(s)	548
Hpy8I	GTNNAC	1 cut(s)	280
HpyCH4III	ACNGT	3 cut(s)	46, 201, 564
HpyCH4V	TGCA	5 cut(s)	63, 109, 168, 280, 424
HpyF10VI	GCNNNNNNNGC	1 cut(s)	92
HpyF3I	CTNAG	1 cut(s)	312
Hsp92II	CATG	4 cut(s)	85, 109, 197, 224
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	2 cut(s)	3, 330
LmnI	GCTCC	1 cut(s)	216
LpnPI	CCDG	8 cut(s)	159, 172, 246, 296, 307, 410, 456, 561
Lsp1109I	GCAGC	1 cut(s)	121
LweI	GCATC	3 cut(s)	95, 283, 436
MaeI	CTAG	4 cut(s)	24, 129, 215, 396
MaeIII	GTNAC	2 cut(s)	136, 363
MalI	GATC	2 cut(s)	5, 332
MboI	GATC	2 cut(s)	3, 330
MboII	GAAGA	1 cut(s)	22
MflI	RGATCY	1 cut(s)	330
MhlI	GDGCHC	1 cut(s)	282
MluCI	AATT	4 cut(s)	72, 258, 512, 553
MlyI	GAGTC	1 cut(s)	261
MnlI	CCTC	4 cut(s)	135, 172, 345, 392
MspI	CCGG	1 cut(s)	159
MwoI	GCNNNNNNNGC	1 cut(s)	92
NdeII	GATC	2 cut(s)	3, 330
NlaIII	CATG	4 cut(s)	85, 109, 197, 224
NlaIV	GGNNCC	1 cut(s)	332
NspI	RCATGY	1 cut(s)	109
PfeI	GAWTC	1 cut(s)	544
PflFI	GACNNNGTC	1 cut(s)	270
PflMI	CCANNNNNTGG	1 cut(s)	76
PkrI	GCNGC	1 cut(s)	111
PleI	GAGTC	1 cut(s)	261
PpsI	GAGTC	1 cut(s)	261
PsiI	TTATAA	1 cut(s)	39
PspN4I	GGNNCC	1 cut(s)	332
PsuI	RGATCY	1 cut(s)	330
PsyI	GACNNNGTC	1 cut(s)	270
RsaI	GTAC	1 cut(s)	253
RsaNI	GTAC	1 cut(s)	252
SatI	GCNGC	1 cut(s)	110
Sau3AI	GATC	2 cut(s)	3, 330
SchI	GAGTC	1 cut(s)	261
SduI	GDGCHC	1 cut(s)	282
SetI	ASST	5 cut(s)	121, 183, 326, 429, 498
SfaNI	GCATC	3 cut(s)	95, 283, 436
Sse9I	AATT	4 cut(s)	72, 258, 512, 553
SspMI	CTAG	4 cut(s)	24, 129, 215, 396
TaaI	ACNGT	3 cut(s)	46, 201, 564
TaqI	TCGA	2 cut(s)	51, 300
TasI	AATT	4 cut(s)	72, 258, 512, 553
TatI	WGTACW	1 cut(s)	251
TfiI	GAWTC	1 cut(s)	544
TscAI	CASTG	1 cut(s)	569
TseI	GCWGC	1 cut(s)	109
TspDTI	ATGAA	4 cut(s)	210, 370, 428, 503
TspGWI	ACGGA	1 cut(s)	279
TspRI	CASTG	1 cut(s)	569
Tth111I	GACNNNGTC	1 cut(s)	270
Van91I	CCANNNNNTGG	1 cut(s)	76
VneI	GTGCAC	1 cut(s)	278
XapI	RAATTY	1 cut(s)	512
XceI	RCATGY	1 cut(s)	109
XspI	CTAG	4 cut(s)	24, 129, 215, 396

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