Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Forward (+)

72071222 .. 72071563

Gene Structure 342 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG541900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 342 bp

ATGATTGTTTTGTGGAGCTGCTCAATTTCACCAAGCAAGTACTGGAACCAACCGAGCATGACAGTAATAAACAGACTTCTCTTTGCATTTGGTCAATGCAAAGAGACCGATAATGCAATTTGGATCTTTGCCCAGGTGAAAGATCGAAACTTTGCACTGGATTTGTACACATACAACACTGTTTTTGAGATATTGGGCCGGGCGGGTCGTACCGGTGAAATGCTGGGGCTGTTTGGGGAAATGAAGGAAGCTGGGATTGACCCGGATTTGGTTTCTTACAATACAGTGATAAACCATGTGAGGAAGTTTGGGGAAGTTGATATGTGCTTGTTCTGTTTCTAG

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 PPR_3

Protein Analysis

113

Amino Acids

12.96

Weight (kDa)

5.26

Isoelectric Point (pI)

17.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	42 - 99	4.1e-10	Pentatricopeptide repeat domain
PPR	PF01535	56 - 86	2e-06	PPR repeat
PPR_2	PF13041	57 - 99	2.4e-10	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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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	203
AclWI	GGATC	1 cut(s)	131
AfaI	GTAC	3 cut(s)	41, 167, 211
AfiI	CCNNNNNNNGG	1 cut(s)	268
AgeI	ACCGGT	1 cut(s)	212
AjnI	CCWGG	1 cut(s)	132
AluBI	AGCT	2 cut(s)	18, 251
AluI	AGCT	2 cut(s)	18, 251
Alw26I	GTCTC	1 cut(s)	98
AlwI	GGATC	1 cut(s)	131
AoxI	GGCC	1 cut(s)	196
ApeKI	GCWGC	1 cut(s)	18
AsiGI	ACCGGT	1 cut(s)	212
AspS9I	GGNCC	1 cut(s)	196
AsuC2I	CCSGG	2 cut(s)	200, 263
AsuHPI	GGTGA	3 cut(s)	21, 148, 227
BbvI	GCAGC	1 cut(s)	5
BciT130I	CCWGG	1 cut(s)	134
BcnI	CCSGG	2 cut(s)	200, 263
BcoDI	GTCTC	1 cut(s)	98
BfaI	CTAG	1 cut(s)	340
BisI	GCNGC	1 cut(s)	19
BlsI	GCNGC	1 cut(s)	20
BmcAI	AGTACT	1 cut(s)	41
Bme1390I	CCNGG	3 cut(s)	134, 200, 263
BmgT120I	GGNCC	1 cut(s)	196
BmiI	GGNNCC	1 cut(s)	47
BmrFI	CCNGG	3 cut(s)	134, 200, 263
BpuMI	CCSGG	2 cut(s)	200, 263
BsaI	GGTCTC	1 cut(s)	98
BsaJI	CCNNGG	1 cut(s)	132
BsaWI	WCCGGW	1 cut(s)	212
Bsc4I	CCNNNNNNNGG	1 cut(s)	268
Bse118I	RCCGGY	1 cut(s)	212
Bse1I	ACTGG	2 cut(s)	47, 162
BseBI	CCWGG	1 cut(s)	134
BseDI	CCNNGG	1 cut(s)	132
BseLI	CCNNNNNNNGG	1 cut(s)	268
BseNI	ACTGG	2 cut(s)	47, 162
BseXI	GCAGC	1 cut(s)	5
BseYI	CCCAGC	2 cut(s)	223, 251
BshFI	GGCC	1 cut(s)	198
BshTI	ACCGGT	1 cut(s)	212
BsiSI	CCGG	3 cut(s)	199, 213, 263
BslI	CCNNNNNNNGG	1 cut(s)	268
BsmAI	GTCTC	1 cut(s)	98
BsnI	GGCC	1 cut(s)	198
Bso31I	GGTCTC	1 cut(s)	98
Bsp1407I	TGTACA	1 cut(s)	165
Bsp143I	GATC	2 cut(s)	123, 142
BspACI	CCGC	1 cut(s)	203
BspANI	GGCC	1 cut(s)	198
BspLI	GGNNCC	1 cut(s)	47
BspPI	GGATC	1 cut(s)	131
BspTNI	GGTCTC	1 cut(s)	98
BsrFI	RCCGGY	1 cut(s)	212
BsrGI	TGTACA	1 cut(s)	165
BsrI	ACTGG	2 cut(s)	47, 162
BssAI	RCCGGY	1 cut(s)	212
BssECI	CCNNGG	1 cut(s)	132
BssMI	GATC	2 cut(s)	123, 142
Bst2UI	CCWGG	1 cut(s)	134
Bst4CI	ACNGT	3 cut(s)	64, 181, 286
BstAUI	TGTACA	1 cut(s)	165
BstKTI	GATC	2 cut(s)	126, 145
BstMAI	GTCTC	1 cut(s)	98
BstMBI	GATC	2 cut(s)	123, 142
BstNI	CCWGG	1 cut(s)	134
BstSCI	CCNGG	3 cut(s)	132, 198, 261
BstV1I	GCAGC	1 cut(s)	5
BstX2I	RGATCY	1 cut(s)	123
BstYI	RGATCY	1 cut(s)	123
BsuRI	GGCC	1 cut(s)	198
BtsIMutI	CAGTG	3 cut(s)	155, 177, 291
Cfr10I	RCCGGY	1 cut(s)	212
Cfr13I	GGNCC	1 cut(s)	196
Csp6I	GTAC	3 cut(s)	40, 166, 210
CspAI	ACCGGT	1 cut(s)	212
CviAII	CATG	2 cut(s)	58, 296
CviJI	RGCY	4 cut(s)	18, 198, 229, 251
CviKI_1	RGCY	4 cut(s)	18, 198, 229, 251
CviQI	GTAC	3 cut(s)	40, 166, 210
DpnI	GATC	2 cut(s)	125, 144
DpnII	GATC	2 cut(s)	123, 142
Eco31I	GGTCTC	1 cut(s)	98
EcoRII	CCWGG	1 cut(s)	132
FaeI	CATG	2 cut(s)	61, 299
FaiI	YATR	4 cut(s)	59, 172, 297, 323
FatI	CATG	2 cut(s)	57, 295
FauI	CCCGC	1 cut(s)	196
Fnu4HI	GCNGC	1 cut(s)	19
Fsp4HI	GCNGC	1 cut(s)	19
FspBI	CTAG	1 cut(s)	340
GluI	GCNGC	1 cut(s)	19
GsaI	CCCAGC	2 cut(s)	227, 255
HaeIII	GGCC	1 cut(s)	198
HapII	CCGG	3 cut(s)	199, 213, 263
Hin1II	CATG	2 cut(s)	61, 299
HpaII	CCGG	3 cut(s)	199, 213, 263
HphI	GGTGA	3 cut(s)	21, 148, 227
Hpy166II	GTNNAC	1 cut(s)	168
Hpy8I	GTNNAC	1 cut(s)	168
HpyAV	CCTTC	1 cut(s)	238
HpyCH4III	ACNGT	3 cut(s)	64, 181, 286
HpyCH4V	TGCA	4 cut(s)	86, 99, 116, 155
Hsp92II	CATG	2 cut(s)	61, 299
Kzo9I	GATC	2 cut(s)	123, 142
LmnI	GCTCC	1 cut(s)	15
LpnPI	CCDG	9 cut(s)	28, 119, 143, 146, 209, 212, 226, 237, 276
Lsp1109I	GCAGC	1 cut(s)	5
MaeI	CTAG	1 cut(s)	340
MalI	GATC	2 cut(s)	125, 144
MboI	GATC	2 cut(s)	123, 142
MflI	RGATCY	1 cut(s)	123
MluCI	AATT	2 cut(s)	24, 117
MnlI	CCTC	1 cut(s)	294
MspI	CCGG	3 cut(s)	199, 213, 263
MspR9I	CCNGG	3 cut(s)	134, 200, 263
MvaI	CCWGG	1 cut(s)	134
NciI	CCSGG	2 cut(s)	200, 263
NdeII	GATC	2 cut(s)	123, 142
NlaIII	CATG	2 cut(s)	61, 299
NlaIV	GGNNCC	1 cut(s)	47
PinAI	ACCGGT	1 cut(s)	212
PkrI	GCNGC	1 cut(s)	20
Psp6I	CCWGG	1 cut(s)	132
PspFI	CCCAGC	2 cut(s)	223, 251
PspGI	CCWGG	1 cut(s)	132
PspN4I	GGNNCC	1 cut(s)	47
PspPI	GGNCC	1 cut(s)	196
PsuI	RGATCY	1 cut(s)	123
RsaI	GTAC	3 cut(s)	41, 167, 211
RsaNI	GTAC	3 cut(s)	40, 166, 210
SatI	GCNGC	1 cut(s)	19
Sau3AI	GATC	2 cut(s)	123, 142
Sau96I	GGNCC	1 cut(s)	196
ScaI	AGTACT	1 cut(s)	41
ScrFI	CCNGG	3 cut(s)	134, 200, 263
SetI	ASST	3 cut(s)	20, 138, 253
Sse9I	AATT	2 cut(s)	24, 117
SsiI	CCGC	1 cut(s)	203
SspMI	CTAG	1 cut(s)	340
StyD4I	CCNGG	3 cut(s)	132, 198, 261
TaaI	ACNGT	3 cut(s)	64, 181, 286
TaqI	TCGA	1 cut(s)	145
TaqII	GACCGA	1 cut(s)	122
TasI	AATT	2 cut(s)	24, 117
TatI	WGTACW	2 cut(s)	39, 165
TscAI	CASTG	3 cut(s)	162, 184, 291
TseI	GCWGC	1 cut(s)	18
TspDTI	ATGAA	1 cut(s)	257
TspRI	CASTG	3 cut(s)	162, 184, 291
XcmI	CCANNNNNNNNNTGG	1 cut(s)	39
XspI	CTAG	1 cut(s)	340
ZrmI	AGTACT	1 cut(s)	41

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