Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001126

Physical Location & Seq

Genomic Coordinates Forward (+)

41927353 .. 41928015

Gene Structure 663 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG322500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGCGACATTGGGACTTAAAGGAGAACGGCGTCGTTTTTGTTGTGTTGAATAATCAGGACTTAAAGGAGCTGCCTTCTTCGTTGCCCATGAGCTCCGAGGCTCAGTTTTACCCGGAGGCACATGGCCCACAGCTGCCAGGGTTGAACTTTGACCAGCCCTACATGCAACGCGGAACCCAGAAGACGACGTTTGATATGAAGCTTGGTTCTTGGTGGGCACCCATAGGAAGCACTGTAGCATTTGAGACCCTATGCCAAGACCATTCTGCTTCTTTTCCCCCTCACAAATTCACATTTCCTCCTATTCTCAAAGCCTGTGCCAAGCTCCTATCAGCCCCTCAAGTCCAAATAGTCCACACCCATCTCCTGAAAACCGGGTTCTTCTCCGACATCTACACTATCACCGCTCTCATGGACTCTTCCATGAAGCTCAACCTCATGGATGATGCACTCAAGGTCTCAAGGTGTTCAACGAAATGCCTCACCGAAACTTGGCTCCTGTAA

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:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

167

Amino Acids

18.83

Weight (kDa)

6.57

Isoelectric Point (pI)

39.43

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001126)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G02750
fragaria_vesca	FvH4_4g31750 FvH4_4g31750 FvH4_4g31750
malus_domestica	MD16G1077500.v1.1
prunus_persica	Prupe.1G269600_v2.0.a1
pyrus_communis	pycom16g06680
rosa_chinensis	RchiOBHm_Chr3g0480041 RchiOBHm_Chr4g0440351 RchiOBHm_Chr5g0020671 RchiOBHm_Chr5g0027821 RchiOBHm_Chr5g0045351 RchiOBHm_Chr5g0062441 RchiOBHm_Chr6g0278731
rosa_laevigata	RLG00000006189 RLG00000009789 RLG00000009916 RLG00000013392 RLG00000013526 RLG00000013972 RLG00000020257 RLG00000031746 RLG00000031753 RLG00000033045 RLG00000033161
rosa_multiflora	Rmu_co8052728.1_g000001 Rmu_sc0001159.1_g000033 Rmu_sc0001685.1_g000045 Rmu_sc0003684.1_g000002 Rmu_sc0004520.1_g000016 Rmu_sc0012764.1_g000009 Rmu_sc0017399.1_g000002
rosa_roxburghii	Rroxscaffold_5G00343960 Rroxscaffold_5G00381230
rosa_rugosa	Rorug02G0009200 Rorug04G0056800 Rorug04G0056900 Rorug04G0325800 Rorug04G0335700
rosa_samantha	Rh2BG469200 Rh3CG261100 Rh3DG257000 Rh4AG376800 Rh4BG090100 Rh4BG389800 Rh4CG404600 Rh4DG383500 Rh5AG303800 Rh5AG409600 Rh5BG076900 Rh5BG193800 Rh5BG193900 Rh5BG199300 Rh5CG163100 Rh5CG214100 Rh5DG322500 Rh7BG133700
rosa_wichuraiana	Rw4G032260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	217
AccBSI	CCGCTC	1 cut(s)	407
AccII	CGCG	1 cut(s)	171
AciI	CCGC	2 cut(s)	171, 405
AcsI	RAATTY	1 cut(s)	287
AcyI	GRCGYC	1 cut(s)	30
AfiI	CCNNNNNNNGG	1 cut(s)	492
AgsI	TTSAA	3 cut(s)	49, 145, 471
AjnI	CCWGG	1 cut(s)	136
AluBI	AGCT	6 cut(s)	70, 93, 133, 202, 325, 430
AluI	AGCT	6 cut(s)	70, 93, 133, 202, 325, 430
Alw21I	GWGCWC	1 cut(s)	95
Alw26I	GTCTC	2 cut(s)	239, 463
AoxI	GGCC	1 cut(s)	124
ApeKI	GCWGC	2 cut(s)	70, 133
ApoI	RAATTY	1 cut(s)	287
AspS9I	GGNCC	1 cut(s)	125
AsuC2I	CCSGG	2 cut(s)	113, 376
AsuHPI	GGTGA	2 cut(s)	394, 475
BaeGI	GKGCMC	1 cut(s)	220
BanI	GGYRCC	1 cut(s)	217
BanII	GRGCYC	1 cut(s)	95
BbsI	GAAGAC	1 cut(s)	188
Bbv12I	GWGCWC	1 cut(s)	95
BbvI	GCAGC	2 cut(s)	57, 120
BccI	CCATC	1 cut(s)	369
BceAI	ACGGC	1 cut(s)	43
BciT130I	CCWGG	1 cut(s)	138
BcnI	CCSGG	2 cut(s)	113, 376
BcoDI	GTCTC	2 cut(s)	239, 463
BfmI	CTRYAG	1 cut(s)	234
BisI	GCNGC	2 cut(s)	71, 134
BlsI	GCNGC	2 cut(s)	72, 135
Bme1390I	CCNGG	3 cut(s)	113, 138, 376
BmgT120I	GGNCC	1 cut(s)	125
BmiI	GGNNCC	3 cut(s)	175, 219, 497
BmrFI	CCNGG	3 cut(s)	113, 138, 376
BmsI	GCATC	1 cut(s)	436
BpiI	GAAGAC	1 cut(s)	188
BpuEI	CTTGAG	3 cut(s)	324, 437, 445
BpuMI	CCSGG	2 cut(s)	113, 376
BsaHI	GRCGYC	1 cut(s)	30
BsaI	GGTCTC	2 cut(s)	239, 463
BsaJI	CCNNGG	2 cut(s)	96, 137
BsaXI	ACNNNNNCTCC	2 cut(s)	283, 313
Bsc4I	CCNNNNNNNGG	1 cut(s)	492
BseBI	CCWGG	1 cut(s)	138
BseDI	CCNNGG	2 cut(s)	96, 137
BseGI	GGATG	1 cut(s)	448
BseLI	CCNNNNNNNGG	1 cut(s)	492
BseMII	CTCAG	1 cut(s)	116
BseSI	GKGCMC	1 cut(s)	220
BseXI	GCAGC	2 cut(s)	57, 120
Bsh1236I	CGCG	1 cut(s)	171
BshFI	GGCC	1 cut(s)	126
BshNI	GGYRCC	1 cut(s)	217
BsiHKAI	GWGCWC	1 cut(s)	95
BsiSI	CCGG	2 cut(s)	113, 375
BslFI	GGGAC	1 cut(s)	26
BslI	CCNNNNNNNGG	1 cut(s)	492
BsmAI	GTCTC	2 cut(s)	239, 463
BsmFI	GGGAC	1 cut(s)	26
BsnI	GGCC	1 cut(s)	126
Bso31I	GGTCTC	2 cut(s)	239, 463
Bsp1286I	GDGCHC	2 cut(s)	95, 220
BspACI	CCGC	2 cut(s)	171, 405
BspANI	GGCC	1 cut(s)	126
BspCNI	CTCAG	1 cut(s)	115
BspFNI	CGCG	1 cut(s)	171
BspLI	GGNNCC	3 cut(s)	175, 219, 497
BspT107I	GGYRCC	1 cut(s)	217
BspTNI	GGTCTC	2 cut(s)	239, 463
BsrBI	CCGCTC	1 cut(s)	407
BssECI	CCNNGG	2 cut(s)	96, 137
BssNI	GRCGYC	1 cut(s)	30
Bst2UI	CCWGG	1 cut(s)	138
Bst4CI	ACNGT	1 cut(s)	235
Bst6I	CTCTTC	1 cut(s)	424
BstACI	GRCGYC	1 cut(s)	30
BstDEI	CTNAG	1 cut(s)	102
BstF5I	GGATG	1 cut(s)	448
BstFNI	CGCG	1 cut(s)	171
BstMAI	GTCTC	2 cut(s)	239, 463
BstMWI	GCNNNNNNNGC	1 cut(s)	163
BstNI	CCWGG	1 cut(s)	138
BstNSI	RCATGY	1 cut(s)	166
BstSCI	CCNGG	3 cut(s)	111, 136, 374
BstSFI	CTRYAG	1 cut(s)	234
BstSLI	GKGCMC	1 cut(s)	220
BstUI	CGCG	1 cut(s)	171
BstV1I	GCAGC	2 cut(s)	57, 120
BstV2I	GAAGAC	1 cut(s)	188
BsuRI	GGCC	1 cut(s)	126
BtsCI	GGATG	1 cut(s)	448
BtsIMutI	CAGTG	1 cut(s)	231
Cfr13I	GGNCC	1 cut(s)	125
CseI	GACGC	1 cut(s)	19
CviAII	CATG	6 cut(s)	88, 122, 163, 412, 424, 439
DdeI	CTNAG	1 cut(s)	102
Eam1104I	CTCTTC	1 cut(s)	424
EarI	CTCTTC	1 cut(s)	424
Ecl136II	GAGCTC	1 cut(s)	93
Eco24I	GRGCYC	1 cut(s)	95
Eco31I	GGTCTC	2 cut(s)	239, 463
Eco53kI	GAGCTC	1 cut(s)	93
EcoICRI	GAGCTC	1 cut(s)	93
EcoRII	CCWGG	1 cut(s)	136
EcoT38I	GRGCYC	1 cut(s)	95
FaeI	CATG	6 cut(s)	91, 125, 166, 415, 427, 442
FaiI	YATR	9 cut(s)	89, 123, 164, 197, 224, 253, 413, 425, 440
FaqI	GGGAC	1 cut(s)	26
FatI	CATG	6 cut(s)	87, 121, 162, 411, 423, 438
Fnu4HI	GCNGC	2 cut(s)	71, 134
FokI	GGATG	1 cut(s)	455
FriOI	GRGCYC	1 cut(s)	95
Fsp4HI	GCNGC	2 cut(s)	71, 134
GluI	GCNGC	2 cut(s)	71, 134
HaeIII	GGCC	1 cut(s)	126
HapII	CCGG	2 cut(s)	113, 375
HgaI	GACGC	1 cut(s)	19
Hin1I	GRCGYC	1 cut(s)	30
Hin1II	CATG	6 cut(s)	91, 125, 166, 415, 427, 442
HindIII	AAGCTT	1 cut(s)	200
HinfI	GANTC	1 cut(s)	416
HpaII	CCGG	2 cut(s)	113, 375
HphI	GGTGA	2 cut(s)	394, 475
Hpy166II	GTNNAC	1 cut(s)	355
Hpy188I	TCNGA	2 cut(s)	97, 388
Hpy188III	TCNNGA	2 cut(s)	56, 367
Hpy8I	GTNNAC	1 cut(s)	355
Hpy99I	CGWCG	2 cut(s)	35, 190
HpyAV	CCTTC	1 cut(s)	84
HpyCH4III	ACNGT	1 cut(s)	235
HpyCH4IV	ACGT	1 cut(s)	188
HpyCH4V	TGCA	2 cut(s)	166, 449
HpyF10VI	GCNNNNNNNGC	1 cut(s)	163
HpyF3I	CTNAG	1 cut(s)	102
HpySE526I	ACGT	1 cut(s)	188
Hsp92I	GRCGYC	1 cut(s)	30
Hsp92II	CATG	6 cut(s)	91, 125, 166, 415, 427, 442
LmnI	GCTCC	4 cut(s)	67, 98, 330, 501
LpnPI	CCDG	9 cut(s)	41, 123, 126, 150, 167, 191, 328, 380, 388
Lsp1109I	GCAGC	2 cut(s)	57, 120
LweI	GCATC	1 cut(s)	436
MaeII	ACGT	1 cut(s)	188
MbiI	CCGCTC	1 cut(s)	407
MboII	GAAGA	4 cut(s)	69, 193, 373, 411
MhlI	GDGCHC	2 cut(s)	95, 220
MluCI	AATT	1 cut(s)	287
MlyI	GAGTC	1 cut(s)	410
MmeI	TCCRAC	1 cut(s)	411
MnlI	CCTC	7 cut(s)	91, 109, 291, 309, 348, 446, 491
MseI	TTAA	2 cut(s)	17, 62
MspA1I	CMGCKG	1 cut(s)	133
MspI	CCGG	2 cut(s)	113, 375
MspR9I	CCNGG	3 cut(s)	113, 138, 376
MvaI	CCWGG	1 cut(s)	138
MvnI	CGCG	1 cut(s)	171
MwoI	GCNNNNNNNGC	1 cut(s)	163
NciI	CCSGG	2 cut(s)	113, 376
NlaIII	CATG	6 cut(s)	91, 125, 166, 415, 427, 442
NlaIV	GGNNCC	3 cut(s)	175, 219, 497
NspI	RCATGY	1 cut(s)	166
PkrI	GCNGC	2 cut(s)	72, 135
PleI	GAGTC	1 cut(s)	410
PpsI	GAGTC	1 cut(s)	410
Psp124BI	GAGCTC	1 cut(s)	95
Psp6I	CCWGG	1 cut(s)	136
PspGI	CCWGG	1 cut(s)	136
PspN4I	GGNNCC	3 cut(s)	175, 219, 497
PspPI	GGNCC	1 cut(s)	125
PvuII	CAGCTG	1 cut(s)	133
SacI	GAGCTC	1 cut(s)	95
SaqAI	TTAA	2 cut(s)	17, 62
SatI	GCNGC	2 cut(s)	71, 134
Sau96I	GGNCC	1 cut(s)	125
SchI	GAGTC	1 cut(s)	410
ScrFI	CCNGG	3 cut(s)	113, 138, 376
SduI	GDGCHC	2 cut(s)	95, 220
SfaNI	GCATC	1 cut(s)	436
SfcI	CTRYAG	1 cut(s)	234
SmlI	CTYRAG	3 cut(s)	339, 452, 460
SmoI	CTYRAG	3 cut(s)	339, 452, 460
Sse9I	AATT	1 cut(s)	287
SsiI	CCGC	2 cut(s)	171, 405
SstI	GAGCTC	1 cut(s)	95
StyD4I	CCNGG	3 cut(s)	111, 136, 374
TaaI	ACNGT	1 cut(s)	235
TaiI	ACGT	1 cut(s)	191
TasI	AATT	1 cut(s)	287
Tru1I	TTAA	2 cut(s)	17, 62
Tru9I	TTAA	2 cut(s)	17, 62
TscAI	CASTG	1 cut(s)	238
TseI	GCWGC	2 cut(s)	70, 133
TspDTI	ATGAA	2 cut(s)	212, 440
TspRI	CASTG	1 cut(s)	238
XapI	RAATTY	1 cut(s)	287
XceI	RCATGY	1 cut(s)	166

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