Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0003325

Physical Location & Seq

Genomic Coordinates Reverse (-)

72323060 .. 72323419

Gene Structure 360 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG545500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 360 bp

ATGGAAAAAGAAGGTTGTGATCAGACCGTTTATACATACACAATACTCATTGATGGACTATTTAAGGAGCATAGGAATGAAGAGGCATTGAAGCTGTGGGACATGATGATCGATAAAGGCATCACACCAACTGCTGCTTCATTCAGAGCTCTCTCAATTGGGCTTTGTCTCTCAGGCAAAGTAGCCAGGGCCTGCAAGATTTTGGATGACCTAGCACCAATGGGGGTAATTCCTGAGACAGCTTTTGAAGATATGATCAATGTGTTGTGCAAAGCTGGTCGTGTCAAGGAAGCTTGCAAATTGGTTGATGGCATTGTGGATAGAGGTTGGGAAATACCAGGAAGAATCGAACTGTTCTAA

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_1 PPR_2 PPR_3

Protein Analysis

119

Amino Acids

13.22

Weight (kDa)

5.01

Isoelectric Point (pI)

23.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	3 - 101	2.8e-07	Fungal tetratrico peptide repeats
PPR_1	PF12854	5 - 36	2.9e-08	PPR repeat
PPR_2	PF13041	9 - 56	5.4e-12	PPR repeat family
PPR	PF01535	11 - 41	2.8e-07	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: OG0003325)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G03560
fragaria_vesca	FvH4_6g45000
malus_domestica	MD09G1090900.v1.1 MD17G1080900.v1.1
prunus_persica	Prupe.3G234000_v2.0.a1 Prupe.3G234000_v2.0.a1
pyrus_communis	pycom03g08050 pycom09g01610 pycom17g07920
rosa_chinensis	RchiOBHm_Chr2g0162271 RchiOBHm_Chr2g0162281 RchiOBHm_Chr2g0162291 RchiOBHm_Chr4g0446301 RchiOBHm_Chr5g0064621
rosa_laevigata	RLG00000021332
rosa_multiflora	Rmu_sc0002266.1_g000005 Rmu_sc0007544.1_g000003 Rmu_sc0007544.1_g000004
rosa_roxburghii	Rroxscaffold_2G00088200 Rroxscaffold_5G00386740
rosa_rugosa	Rorug02G0496100 Rorug04G0369800 Rorug04G0369900
rosa_samantha	Rh2AG562100 Rh2BG575200 Rh2BG575300 Rh2CG545500 Rh2CG545600 Rh2DG585100 Rh4AG431700 Rh4BG441000 Rh4CG458300 Rh4DG439600 Rh5BG154600
rosa_wichuraiana	Rw2G046560 Rw4G036860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AgsI	TTSAA	2 cut(s)	91, 248
AjnI	CCWGG	2 cut(s)	185, 337
AjuI	GAANNNNNNNTTGG	2 cut(s)	121, 153
AluBI	AGCT	5 cut(s)	94, 149, 242, 275, 293
AluI	AGCT	5 cut(s)	94, 149, 242, 275, 293
Alw21I	GWGCWC	1 cut(s)	151
Alw26I	GTCTC	2 cut(s)	173, 230
AlwNI	CAGNNNCTG	1 cut(s)	192
AoxI	GGCC	1 cut(s)	189
ApeKI	GCWGC	1 cut(s)	134
AspS9I	GGNCC	1 cut(s)	189
BanII	GRGCYC	1 cut(s)	151
Bbv12I	GWGCWC	1 cut(s)	151
BbvI	GCAGC	1 cut(s)	121
BccI	CCATC	2 cut(s)	47, 302
BciT130I	CCWGG	2 cut(s)	187, 339
BclI	TGATCA	2 cut(s)	19, 255
BcoDI	GTCTC	2 cut(s)	173, 230
BfaI	CTAG	1 cut(s)	212
BisI	GCNGC	1 cut(s)	135
BlsI	GCNGC	1 cut(s)	136
Bme1390I	CCNGG	2 cut(s)	187, 339
BmgT120I	GGNCC	1 cut(s)	189
BmrFI	CCNGG	2 cut(s)	187, 339
BmsI	GCATC	1 cut(s)	129
Bsa29I	ATCGAT	1 cut(s)	111
BsaJI	CCNNGG	1 cut(s)	186
BseBI	CCWGG	2 cut(s)	187, 339
BseCI	ATCGAT	1 cut(s)	111
BseDI	CCNNGG	1 cut(s)	186
BseGI	GGATG	1 cut(s)	211
BseMII	CTCAG	2 cut(s)	186, 225
BseXI	GCAGC	1 cut(s)	121
BshFI	GGCC	1 cut(s)	191
BshVI	ATCGAT	1 cut(s)	111
BsiHKAI	GWGCWC	1 cut(s)	151
BslFI	GGGAC	1 cut(s)	113
BsmAI	GTCTC	2 cut(s)	173, 230
BsmFI	GGGAC	1 cut(s)	113
BsnI	GGCC	1 cut(s)	191
Bsp1286I	GDGCHC	1 cut(s)	151
Bsp143I	GATC	3 cut(s)	19, 108, 255
BspANI	GGCC	1 cut(s)	191
BspCNI	CTCAG	2 cut(s)	185, 226
BspDI	ATCGAT	1 cut(s)	111
BssECI	CCNNGG	1 cut(s)	186
BssMI	GATC	3 cut(s)	19, 108, 255
Bst2UI	CCWGG	2 cut(s)	187, 339
Bst4CI	ACNGT	2 cut(s)	28, 354
Bst6I	CTCTTC	1 cut(s)	75
BstC8I	GCNNGC	2 cut(s)	193, 295
BstDEI	CTNAG	2 cut(s)	172, 234
BstF5I	GGATG	1 cut(s)	211
BstKTI	GATC	3 cut(s)	22, 111, 258
BstMAI	GTCTC	2 cut(s)	173, 230
BstMBI	GATC	3 cut(s)	19, 108, 255
BstNI	CCWGG	2 cut(s)	187, 339
BstSCI	CCNGG	2 cut(s)	185, 337
BstV1I	GCAGC	1 cut(s)	121
Bsu15I	ATCGAT	1 cut(s)	111
BsuRI	GGCC	1 cut(s)	191
BsuTUI	ATCGAT	1 cut(s)	111
BtsCI	GGATG	1 cut(s)	211
Cac8I	GCNNGC	2 cut(s)	193, 295
CaiI	CAGNNNCTG	1 cut(s)	192
Cfr13I	GGNCC	1 cut(s)	189
ClaI	ATCGAT	1 cut(s)	111
CviAII	CATG	1 cut(s)	103
CviJI	RGCY	8 cut(s)	94, 149, 163, 185, 191, 242, 275, 293
CviKI_1	RGCY	8 cut(s)	94, 149, 163, 185, 191, 242, 275, 293
DdeI	CTNAG	2 cut(s)	172, 234
DpnI	GATC	3 cut(s)	21, 110, 257
DpnII	GATC	3 cut(s)	19, 108, 255
Eam1104I	CTCTTC	1 cut(s)	75
EarI	CTCTTC	1 cut(s)	75
Ecl136II	GAGCTC	1 cut(s)	149
Eco24I	GRGCYC	1 cut(s)	151
Eco53kI	GAGCTC	1 cut(s)	149
EcoICRI	GAGCTC	1 cut(s)	149
EcoO109I	RGGNCCY	1 cut(s)	189
EcoRII	CCWGG	2 cut(s)	185, 337
EcoT38I	GRGCYC	1 cut(s)	151
FaeI	CATG	1 cut(s)	106
FaiI	YATR	5 cut(s)	33, 37, 72, 104, 254
FaqI	GGGAC	1 cut(s)	113
FatI	CATG	1 cut(s)	102
FbaI	TGATCA	2 cut(s)	19, 255
Fnu4HI	GCNGC	1 cut(s)	135
FokI	GGATG	1 cut(s)	218
FriOI	GRGCYC	1 cut(s)	151
Fsp4HI	GCNGC	1 cut(s)	135
FspBI	CTAG	1 cut(s)	212
GluI	GCNGC	1 cut(s)	135
HaeIII	GGCC	1 cut(s)	191
Hin1II	CATG	1 cut(s)	106
HindIII	AAGCTT	1 cut(s)	291
HinfI	GANTC	1 cut(s)	345
Hpy188I	TCNGA	2 cut(s)	24, 146
Hpy188III	TCNNGA	1 cut(s)	233
HpyAV	CCTTC	1 cut(s)	5
HpyCH4III	ACNGT	2 cut(s)	28, 354
HpyCH4V	TGCA	3 cut(s)	195, 270, 297
HpyF3I	CTNAG	2 cut(s)	172, 234
Hsp92II	CATG	1 cut(s)	106
Ksp22I	TGATCA	2 cut(s)	19, 255
Kzo9I	GATC	3 cut(s)	19, 108, 255
LmnI	GCTCC	1 cut(s)	67
LpnPI	CCDG	8 cut(s)	159, 172, 199, 205, 246, 261, 324, 351
Lsp1109I	GCAGC	1 cut(s)	121
LweI	GCATC	1 cut(s)	129
MaeI	CTAG	1 cut(s)	212
MalI	GATC	3 cut(s)	21, 110, 257
MboI	GATC	3 cut(s)	19, 108, 255
MboII	GAAGA	3 cut(s)	92, 260, 354
MfeI	CAATTG	1 cut(s)	156
MhlI	GDGCHC	1 cut(s)	151
MluCI	AATT	3 cut(s)	156, 228, 299
MnlI	CCTC	2 cut(s)	76, 317
MseI	TTAA	1 cut(s)	63
MslI	CAYNNNNRTG	1 cut(s)	75
MspR9I	CCNGG	2 cut(s)	187, 339
MunI	CAATTG	1 cut(s)	156
MvaI	CCWGG	2 cut(s)	187, 339
NdeII	GATC	3 cut(s)	19, 108, 255
NlaIII	CATG	1 cut(s)	106
PfeI	GAWTC	1 cut(s)	345
PkrI	GCNGC	1 cut(s)	136
Psp124BI	GAGCTC	1 cut(s)	151
Psp6I	CCWGG	2 cut(s)	185, 337
PspGI	CCWGG	2 cut(s)	185, 337
PspPI	GGNCC	1 cut(s)	189
PstNI	CAGNNNCTG	1 cut(s)	192
RseI	CAYNNNNRTG	1 cut(s)	75
SacI	GAGCTC	1 cut(s)	151
SaqAI	TTAA	1 cut(s)	63
SatI	GCNGC	1 cut(s)	135
Sau3AI	GATC	3 cut(s)	19, 108, 255
Sau96I	GGNCC	1 cut(s)	189
ScrFI	CCNGG	2 cut(s)	187, 339
SduI	GDGCHC	1 cut(s)	151
SetI	ASST	8 cut(s)	16, 96, 151, 213, 244, 277, 295, 328
SfaNI	GCATC	1 cut(s)	129
SmiMI	CAYNNNNRTG	1 cut(s)	75
Sse9I	AATT	3 cut(s)	156, 228, 299
SspMI	CTAG	1 cut(s)	212
SstI	GAGCTC	1 cut(s)	151
StyD4I	CCNGG	2 cut(s)	185, 337
TaaI	ACNGT	2 cut(s)	28, 354
TaqI	TCGA	2 cut(s)	111, 348
TasI	AATT	3 cut(s)	156, 228, 299
TfiI	GAWTC	1 cut(s)	345
Tru1I	TTAA	1 cut(s)	63
Tru9I	TTAA	1 cut(s)	63
TseI	GCWGC	1 cut(s)	134
TspDTI	ATGAA	2 cut(s)	93, 129
XspI	CTAG	1 cut(s)	212

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