Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0006434

Physical Location & Seq

Genomic Coordinates Reverse (-)

49466858 .. 49471241

Gene Structure 4384 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG339800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 432 bp

ATGGGCGCATGTAGCAATGCCAAAAATTGGCAAAAAGCATTGGAGCTCTATGAGGATCTTAAGTCAGCTAAAATTGAGCAGACTGTTTCAACTGTCAATGCTTTGATTACTGCCCTATGTGATGGGGATCAACTACAGAAGGCTATGGAAGTTCTGTTGGAAATGAAGAGTATAGGACTGCGTCCAAACAGTATAACATACTCCATACTTGTAGTGGCAAGTGAAAAGAAGGATGATCTAGAAGCTGGCCTGCTGCTCCTTTCTCAAGCTGAAAAGGATAAAGTTGTTCCAAACCTTGTCATGTGTAGATGCATTATAGGCATGTGCTTATGGAGATTTGAGAAGGCATATGTAGCTGTCATTTGCAATTCTGGAACACAGAAAGTTGTTAAGAACTGGTCCCTATCCCATTGTTGTGCAGCCTTGAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009987 GO:0010468 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0016070 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043487 GO:0043488 GO:0043489 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045934 GO:0046483 GO:0048255 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1902369 GO:1902373 GO:1903311 GO:1903312

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

143

Amino Acids

15.75

Weight (kDa)

8.09

Isoelectric Point (pI)

26.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 41	3.9e-06	PPR repeat family
PPR_long	PF17177	3 - 99	6.4e-06	Pentacotripeptide-repeat region of PRORP
TPR_24	PF23276	13 - 100	7.2e-06	Fungal tetratrico peptide repeats
PPR_3	PF13812	16 - 71	6.3e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	28 - 71	1.6e-11	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: OG0006434)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000010047 RLG00000020064 RLG00000028774
rosa_multiflora	Rmu_sc0001306.1_g000022 Rmu_sc0001438.1_g000035
rosa_roxburghii	Rroxscaffold_2G00101450 Rroxscaffold_7G00192090
rosa_rugosa	Rorug05G0119200 Rorug05G0119300 Rorug05G0119400 Rorug05G0119500 Rorug05G0119600 Rorug05G0119600 Rorug05G0119700 Rorug05G0119800 Rorug05G0119900 Rorug05G0120000
rosa_samantha	Rh2AG339800 Rh2AG437400 Rh2CG423700 Rh2DG357000 Rh2DG455400 Rh3CG365400 Rh6BG318500 Rh6CG026900 Rh7AG270000 Rh7CG289200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	27
AclWI	GGATC	2 cut(s)	63, 135
AfiI	CCNNNNNNNGG	1 cut(s)	27
AflII	CTTAAG	1 cut(s)	59
AgsI	TTSAA	2 cut(s)	90, 427
AluBI	AGCT	5 cut(s)	46, 68, 245, 269, 356
AluI	AGCT	5 cut(s)	46, 68, 245, 269, 356
Alw21I	GWGCWC	1 cut(s)	48
AlwI	GGATC	2 cut(s)	63, 135
AoxI	GGCC	1 cut(s)	247
ApeKI	GCWGC	2 cut(s)	253, 419
AspLEI	GCGC	1 cut(s)	8
AspS9I	GGNCC	1 cut(s)	399
AvaII	GGWCC	1 cut(s)	399
BanII	GRGCYC	1 cut(s)	48
Bbv12I	GWGCWC	1 cut(s)	48
BbvI	GCAGC	1 cut(s)	240
BccI	CCATC	1 cut(s)	116
BfaI	CTAG	1 cut(s)	239
BfmI	CTRYAG	1 cut(s)	134
BfrI	CTTAAG	1 cut(s)	59
BisI	GCNGC	2 cut(s)	254, 420
BlsI	GCNGC	2 cut(s)	255, 421
Bme18I	GGWCC	1 cut(s)	399
BmgT120I	GGNCC	1 cut(s)	399
BmiI	GGNNCC	1 cut(s)	401
BmsI	GCATC	1 cut(s)	299
BpuEI	CTTGAG	1 cut(s)	249
BsaBI	GATNNNNATC	1 cut(s)	126
Bsc4I	CCNNNNNNNGG	1 cut(s)	27
Bse1I	ACTGG	1 cut(s)	401
Bse3DI	GCAATG	1 cut(s)	22
Bse8I	GATNNNNATC	1 cut(s)	126
BseGI	GGATG	1 cut(s)	238
BseJI	GATNNNNATC	1 cut(s)	126
BseLI	CCNNNNNNNGG	1 cut(s)	27
BseMI	GCAATG	1 cut(s)	22
BseNI	ACTGG	1 cut(s)	401
BseXI	GCAGC	1 cut(s)	240
BshFI	GGCC	1 cut(s)	249
BsiHKAI	GWGCWC	1 cut(s)	48
BslFI	GGGAC	1 cut(s)	385
BslI	CCNNNNNNNGG	1 cut(s)	27
BsmFI	GGGAC	1 cut(s)	385
BsnI	GGCC	1 cut(s)	249
Bsp1286I	GDGCHC	1 cut(s)	48
Bsp143I	GATC	3 cut(s)	55, 127, 235
BspANI	GGCC	1 cut(s)	249
BspLI	GGNNCC	1 cut(s)	401
BspPI	GGATC	2 cut(s)	63, 135
BspTI	CTTAAG	1 cut(s)	59
BsrDI	GCAATG	1 cut(s)	22
BsrI	ACTGG	1 cut(s)	401
BssMI	GATC	3 cut(s)	55, 127, 235
Bst4CI	ACNGT	3 cut(s)	85, 94, 191
Bst6I	CTCTTC	1 cut(s)	161
BstAFI	CTTAAG	1 cut(s)	59
BstC8I	GCNNGC	2 cut(s)	247, 251
BstF5I	GGATG	1 cut(s)	238
BstHHI	GCGC	1 cut(s)	8
BstKTI	GATC	3 cut(s)	58, 130, 238
BstMBI	GATC	3 cut(s)	55, 127, 235
BstMWI	GCNNNNNNNGC	3 cut(s)	12, 318, 353
BstNSI	RCATGY	2 cut(s)	12, 325
BstSFI	CTRYAG	1 cut(s)	134
BstV1I	GCAGC	1 cut(s)	240
BstX2I	RGATCY	1 cut(s)	55
BstYI	RGATCY	1 cut(s)	55
BsuRI	GGCC	1 cut(s)	249
BtsCI	GGATG	1 cut(s)	238
Cac8I	GCNNGC	2 cut(s)	247, 251
CfoI	GCGC	1 cut(s)	8
Cfr13I	GGNCC	1 cut(s)	399
CseI	GACGC	1 cut(s)	170
CviAII	CATG	3 cut(s)	9, 301, 322
CviJI	RGCY	8 cut(s)	46, 68, 143, 245, 249, 269, 356, 422
CviKI_1	RGCY	8 cut(s)	46, 68, 143, 245, 249, 269, 356, 422
DpnI	GATC	3 cut(s)	57, 129, 237
DpnII	GATC	3 cut(s)	55, 127, 235
Eam1104I	CTCTTC	1 cut(s)	161
EarI	CTCTTC	1 cut(s)	161
Ecl136II	GAGCTC	1 cut(s)	46
Eco24I	GRGCYC	1 cut(s)	48
Eco47I	GGWCC	1 cut(s)	399
Eco53kI	GAGCTC	1 cut(s)	46
EcoICRI	GAGCTC	1 cut(s)	46
EcoT22I	ATGCAT	1 cut(s)	314
EcoT38I	GRGCYC	1 cut(s)	48
FaeI	CATG	3 cut(s)	12, 304, 325
FaqI	GGGAC	1 cut(s)	385
FatI	CATG	3 cut(s)	8, 300, 321
FauNDI	CATATG	1 cut(s)	349
Fnu4HI	GCNGC	2 cut(s)	254, 420
FokI	GGATG	1 cut(s)	245
FriOI	GRGCYC	1 cut(s)	48
Fsp4HI	GCNGC	2 cut(s)	254, 420
FspBI	CTAG	1 cut(s)	239
GlaI	GCGC	1 cut(s)	7
GluI	GCNGC	2 cut(s)	254, 420
HaeIII	GGCC	1 cut(s)	249
HgaI	GACGC	1 cut(s)	170
HhaI	GCGC	1 cut(s)	8
Hin1II	CATG	3 cut(s)	12, 304, 325
Hin6I	GCGC	1 cut(s)	6
HinP1I	GCGC	1 cut(s)	6
Hpy188III	TCNNGA	2 cut(s)	239, 372
HpyAV	CCTTC	3 cut(s)	133, 223, 337
HpyCH4III	ACNGT	3 cut(s)	85, 94, 191
HpyCH4V	TGCA	3 cut(s)	312, 366, 419
HpyF10VI	GCNNNNNNNGC	3 cut(s)	12, 318, 353
Hsp92II	CATG	3 cut(s)	12, 304, 325
HspAI	GCGC	1 cut(s)	6
Kzo9I	GATC	3 cut(s)	55, 127, 235
LmnI	GCTCC	2 cut(s)	43, 261
LpnPI	CCDG	4 cut(s)	231, 263, 357, 382
Lsp1109I	GCAGC	1 cut(s)	240
LweI	GCATC	1 cut(s)	299
MaeI	CTAG	1 cut(s)	239
MalI	GATC	3 cut(s)	57, 129, 237
MboI	GATC	3 cut(s)	55, 127, 235
MboII	GAAGA	1 cut(s)	178
MflI	RGATCY	1 cut(s)	55
MhlI	GDGCHC	1 cut(s)	48
MluCI	AATT	3 cut(s)	25, 72, 367
MmeI	TCCRAC	1 cut(s)	138
MnlI	CCTC	1 cut(s)	46
Mph1103I	ATGCAT	1 cut(s)	314
MseI	TTAA	2 cut(s)	60, 390
MslI	CAYNNNNRTG	1 cut(s)	414
MspCI	CTTAAG	1 cut(s)	59
MwoI	GCNNNNNNNGC	3 cut(s)	12, 318, 353
NdeI	CATATG	1 cut(s)	349
NdeII	GATC	3 cut(s)	55, 127, 235
NlaIII	CATG	3 cut(s)	12, 304, 325
NlaIV	GGNNCC	1 cut(s)	401
NsiI	ATGCAT	1 cut(s)	314
NspI	RCATGY	2 cut(s)	12, 325
PflFI	GACNNNGTC	1 cut(s)	180
PflMI	CCANNNNNTGG	1 cut(s)	27
PkrI	GCNGC	2 cut(s)	255, 421
Psp124BI	GAGCTC	1 cut(s)	48
PspN4I	GGNNCC	1 cut(s)	401
PspPI	GGNCC	1 cut(s)	399
PsuI	RGATCY	1 cut(s)	55
PsyI	GACNNNGTC	1 cut(s)	180
RseI	CAYNNNNRTG	1 cut(s)	414
SacI	GAGCTC	1 cut(s)	48
SaqAI	TTAA	2 cut(s)	60, 390
SatI	GCNGC	2 cut(s)	254, 420
Sau3AI	GATC	3 cut(s)	55, 127, 235
Sau96I	GGNCC	1 cut(s)	399
SduI	GDGCHC	1 cut(s)	48
SetI	ASST	6 cut(s)	48, 70, 247, 271, 297, 358
SfaNI	GCATC	1 cut(s)	299
SfcI	CTRYAG	1 cut(s)	134
SinI	GGWCC	1 cut(s)	399
SmiMI	CAYNNNNRTG	1 cut(s)	414
SmlI	CTYRAG	2 cut(s)	59, 264
SmoI	CTYRAG	2 cut(s)	59, 264
Sse9I	AATT	3 cut(s)	25, 72, 367
SspMI	CTAG	1 cut(s)	239
SstI	GAGCTC	1 cut(s)	48
TaaI	ACNGT	3 cut(s)	85, 94, 191
TasI	AATT	3 cut(s)	25, 72, 367
Tru1I	TTAA	2 cut(s)	60, 390
Tru9I	TTAA	2 cut(s)	60, 390
TseI	GCWGC	2 cut(s)	253, 419
TspDTI	ATGAA	1 cut(s)	179
Tth111I	GACNNNGTC	1 cut(s)	180
Van91I	CCANNNNNTGG	1 cut(s)	27
Vha464I	CTTAAG	1 cut(s)	59
VpaK11BI	GGWCC	1 cut(s)	399
XbaI	TCTAGA	1 cut(s)	238
XceI	RCATGY	2 cut(s)	12, 325
XcmI	CCANNNNNNNNNTGG	1 cut(s)	211
XspI	CTAG	1 cut(s)	239
Zsp2I	ATGCAT	1 cut(s)	314

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