Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0005824

Physical Location & Seq

Genomic Coordinates Forward (+)

38847022 .. 38847729

Gene Structure 708 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG216900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGGGTACTAAGAATGGTGTTATTTCTTGGAACTCAATGATCATTGGTTTTGCTAAAAATGGGTATGCAGAAGATGCATTTAAGATCTTTGATGAGATGAAGCAATCTCATGTTGAGCCTGACGACGTCACATTTCTTGGTGTTCTCACTGCATGTAGTCATGCAGGGAAGGTGGCTGAAGGTCGTGAGATCTTTGATTCTATGGTCAATTATTATTCTATTCAACCCAGGGTTGATCGTATTTGCTGCATGCTTGATCTTCTGGGCAGATGGGGTTTGCTTAAAGAAGCAGAGGAGTTTATTGATAGGCTAGATTTTGTACCAAATTCTATGATTTGGGCCACACTGCTTGGTGCTTGCAAACTACATCGAGAAGACATAAGGGGTCGGCGTGCGGCTAAGAAACTGAAGGAGTTAGAACCACAAAGTTCGTCCCCATATGTGCAACTTTCTAGTATGTGTGCTGAATCTGGAAATTGGAATGAGGCTAACTCTTTTAGGAGGGAAATGAAAGAAAAAGGGGTGATTAAGTTGCCTGGATTTAGTTGGATTTCTGTGGGACAGAGGACAAATTACTTTGTTGTTGGGGACAAGTCTCATCCAAGTGCTGCTGAAATTCATGTCGCTTTAAAGTACTTGACAGCAATAATGAAAGGAGAGGGTTGTGTTTTTGATGAAACAGATTCTTTGTTGCATGAAGAAGAGTGA

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

235

Amino Acids

26.47

Weight (kDa)

5.61

Isoelectric Point (pI)

37.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	5 - 52	3.9e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	6 - 53	2.4e-13	PPR repeat family
PPR_1	PF12854	7 - 34	4e-06	PPR repeat
PPR	PF01535	8 - 36	1.9e-09	PPR repeat
E_motif	PF20431	127 - 184	1.2e-14	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0005824)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G09040 AT3G09040 AT3G09040 AT3G09040
fragaria_vesca	FvH4_2g14640 FvH4_2g14640
malus_domestica	MD05G1015800.v1.1 MD10G1015600.v1.1
prunus_persica	Prupe.8G019100_v2.0.a1
pyrus_communis	pycom05g00870 pycom10g01020
rosa_chinensis	RchiOBHm_Chr6g0277121
rosa_laevigata	RLG00000013330
rosa_multiflora	Rmu_sc0003539.1_g000006 Rmu_sc0006244.1_g000049
rosa_roxburghii	Rroxscaffold_7G00191600
rosa_rugosa	Rorug06G0106300 Rorug06G0106400 Rorug06G0106500 Rorug06G0106500
rosa_samantha	Rh6AG216500 Rh6AG216800 Rh6AG216900 Rh6BG221100 Rh6CG223800 Rh6DG213700
rosa_wichuraiana	Rw6G018890 Rw6G018920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	129
AciI	CCGC	1 cut(s)	395
AcsI	RAATTY	2 cut(s)	325, 615
AcuI	CTGAAG	2 cut(s)	198, 428
AcyI	GRCGYC	1 cut(s)	126
AfaI	GTAC	3 cut(s)	7, 321, 635
AgsI	TTSAA	1 cut(s)	224
AjnI	CCWGG	2 cut(s)	227, 535
Alw26I	GTCTC	1 cut(s)	600
AoxI	GGCC	1 cut(s)	339
ApeKI	GCWGC	2 cut(s)	246, 608
ApoI	RAATTY	2 cut(s)	325, 615
AspS9I	GGNCC	1 cut(s)	339
AsuHPI	GGTGA	1 cut(s)	535
BbsI	GAAGAC	1 cut(s)	381
BbvI	GCAGC	2 cut(s)	233, 595
BccI	CCATC	1 cut(s)	264
BciT130I	CCWGG	2 cut(s)	229, 537
BclI	TGATCA	1 cut(s)	39
BcoDI	GTCTC	1 cut(s)	600
BfaI	CTAG	2 cut(s)	311, 453
BglII	AGATCT	2 cut(s)	84, 189
BisI	GCNGC	3 cut(s)	247, 396, 609
BlsI	GCNGC	3 cut(s)	248, 397, 610
BmcAI	AGTACT	1 cut(s)	635
Bme1390I	CCNGG	2 cut(s)	229, 537
BmgT120I	GGNCC	1 cut(s)	339
BmrFI	CCNGG	2 cut(s)	229, 537
BmsI	GCATC	1 cut(s)	64
BpiI	GAAGAC	1 cut(s)	381
BplI	GAGNNNNNCTC	2 cut(s)	476, 508
BsaHI	GRCGYC	1 cut(s)	126
BsaJI	CCNNGG	2 cut(s)	227, 228
BseBI	CCWGG	2 cut(s)	229, 537
BseDI	CCNNGG	2 cut(s)	227, 228
BseGI	GGATG	1 cut(s)	598
BseRI	GAGGAG	1 cut(s)	308
BseXI	GCAGC	2 cut(s)	233, 595
BshFI	GGCC	1 cut(s)	341
BslFI	GGGAC	3 cut(s)	418, 573, 602
BsmAI	GTCTC	1 cut(s)	600
BsmFI	GGGAC	3 cut(s)	418, 573, 602
BsnI	GGCC	1 cut(s)	341
Bsp143I	GATC	5 cut(s)	39, 84, 189, 235, 256
BspACI	CCGC	1 cut(s)	395
BspANI	GGCC	1 cut(s)	341
BssECI	CCNNGG	2 cut(s)	227, 228
BssMI	GATC	5 cut(s)	39, 84, 189, 235, 256
BssNI	GRCGYC	1 cut(s)	126
Bst2UI	CCWGG	2 cut(s)	229, 537
Bst6I	CTCTTC	1 cut(s)	696
BstACI	GRCGYC	1 cut(s)	126
BstAPI	GCANNNNNTGC	1 cut(s)	74
BstC8I	GCNNGC	3 cut(s)	251, 358, 393
BstDEI	CTNAG	2 cut(s)	9, 399
BstF5I	GGATG	1 cut(s)	598
BstKTI	GATC	5 cut(s)	42, 87, 192, 238, 259
BstMAI	GTCTC	1 cut(s)	600
BstMBI	GATC	5 cut(s)	39, 84, 189, 235, 256
BstMWI	GCNNNNNNNGC	1 cut(s)	74
BstNI	CCWGG	2 cut(s)	229, 537
BstNSI	RCATGY	2 cut(s)	156, 253
BstSCI	CCNGG	2 cut(s)	227, 535
BstV1I	GCAGC	2 cut(s)	233, 595
BstV2I	GAAGAC	1 cut(s)	381
BstX2I	RGATCY	2 cut(s)	84, 189
BstYI	RGATCY	2 cut(s)	84, 189
BsuRI	GGCC	1 cut(s)	341
BtsCI	GGATG	1 cut(s)	598
BtsI	GCAGTG	2 cut(s)	147, 344
BtsIMutI	CAGTG	2 cut(s)	147, 344
Cac8I	GCNNGC	3 cut(s)	251, 358, 393
Cfr13I	GGNCC	1 cut(s)	339
Csp6I	GTAC	3 cut(s)	6, 320, 634
CspCI	CAANNNNNGTGG	2 cut(s)	331, 366
CviAII	CATG	6 cut(s)	110, 153, 161, 250, 620, 695
CviJI	RGCY	6 cut(s)	118, 176, 310, 341, 398, 488
CviKI_1	RGCY	6 cut(s)	118, 176, 310, 341, 398, 488
CviQI	GTAC	3 cut(s)	6, 320, 634
DdeI	CTNAG	2 cut(s)	9, 399
DpnI	GATC	5 cut(s)	41, 86, 191, 237, 258
DpnII	GATC	5 cut(s)	39, 84, 189, 235, 256
DraI	TTTAAA	1 cut(s)	630
Eam1104I	CTCTTC	1 cut(s)	696
EarI	CTCTTC	1 cut(s)	696
Eco57I	CTGAAG	2 cut(s)	198, 428
EcoRII	CCWGG	2 cut(s)	227, 535
EcoT22I	ATGCAT	1 cut(s)	79
FaeI	CATG	6 cut(s)	113, 156, 164, 253, 623, 698
FaqI	GGGAC	3 cut(s)	418, 573, 602
FatI	CATG	6 cut(s)	109, 152, 160, 249, 619, 694
FauNDI	CATATG	1 cut(s)	439
FbaI	TGATCA	1 cut(s)	39
Fnu4HI	GCNGC	3 cut(s)	247, 396, 609
FokI	GGATG	1 cut(s)	585
Fsp4HI	GCNGC	3 cut(s)	247, 396, 609
FspBI	CTAG	2 cut(s)	311, 453
GluI	GCNGC	3 cut(s)	247, 396, 609
HaeIII	GGCC	1 cut(s)	341
Hin1I	GRCGYC	1 cut(s)	126
Hin1II	CATG	6 cut(s)	113, 156, 164, 253, 623, 698
HinfI	GANTC	3 cut(s)	197, 467, 683
HphI	GGTGA	1 cut(s)	535
Hpy188III	TCNNGA	3 cut(s)	185, 371, 471
Hpy99I	CGWCG	1 cut(s)	128
HpyAV	CCTTC	3 cut(s)	163, 173, 403
HpyCH4IV	ACGT	1 cut(s)	126
HpyCH4V	TGCA	8 cut(s)	68, 77, 152, 164, 249, 360, 445, 694
HpyF10VI	GCNNNNNNNGC	1 cut(s)	74
HpyF3I	CTNAG	2 cut(s)	9, 399
HpySE526I	ACGT	1 cut(s)	126
Hsp92I	GRCGYC	1 cut(s)	126
Hsp92II	CATG	6 cut(s)	113, 156, 164, 253, 623, 698
Ksp22I	TGATCA	1 cut(s)	39
Kzo9I	GATC	5 cut(s)	39, 84, 189, 235, 256
LpnPI	CCDG	8 cut(s)	132, 150, 214, 241, 248, 456, 522, 549
Lsp1109I	GCAGC	2 cut(s)	233, 595
LweI	GCATC	1 cut(s)	64
MaeI	CTAG	2 cut(s)	311, 453
MaeII	ACGT	1 cut(s)	126
MaeIII	GTNAC	1 cut(s)	127
MalI	GATC	5 cut(s)	41, 86, 191, 237, 258
MboI	GATC	5 cut(s)	39, 84, 189, 235, 256
MboII	GAAGA	3 cut(s)	83, 251, 386
MflI	RGATCY	2 cut(s)	84, 189
MluCI	AATT	5 cut(s)	208, 325, 475, 571, 615
MmeI	TCCRAC	1 cut(s)	527
MnlI	CCTC	5 cut(s)	286, 478, 495, 558, 652
Mph1103I	ATGCAT	1 cut(s)	79
MseI	TTAA	4 cut(s)	81, 282, 528, 629
MslI	CAYNNNNRTG	1 cut(s)	603
MspR9I	CCNGG	2 cut(s)	229, 537
MvaI	CCWGG	2 cut(s)	229, 537
MwoI	GCNNNNNNNGC	1 cut(s)	74
NdeI	CATATG	1 cut(s)	439
NdeII	GATC	5 cut(s)	39, 84, 189, 235, 256
NlaIII	CATG	6 cut(s)	113, 156, 164, 253, 623, 698
NmuCI	GTSAC	1 cut(s)	127
NsiI	ATGCAT	1 cut(s)	79
NspI	RCATGY	2 cut(s)	156, 253
PaeI	GCATGC	1 cut(s)	253
PasI	CCCWGGG	1 cut(s)	228
PfeI	GAWTC	3 cut(s)	197, 467, 683
PflFI	GACNNNGTC	1 cut(s)	125
PkrI	GCNGC	3 cut(s)	248, 397, 610
Psp6I	CCWGG	2 cut(s)	227, 535
PspGI	CCWGG	2 cut(s)	227, 535
PspPI	GGNCC	1 cut(s)	339
PsuI	RGATCY	2 cut(s)	84, 189
PsyI	GACNNNGTC	1 cut(s)	125
RsaI	GTAC	3 cut(s)	7, 321, 635
RsaNI	GTAC	3 cut(s)	6, 320, 634
RseI	CAYNNNNRTG	1 cut(s)	603
SaqAI	TTAA	4 cut(s)	81, 282, 528, 629
SatI	GCNGC	3 cut(s)	247, 396, 609
Sau3AI	GATC	5 cut(s)	39, 84, 189, 235, 256
Sau96I	GGNCC	1 cut(s)	339
ScaI	AGTACT	1 cut(s)	635
ScrFI	CCNGG	2 cut(s)	229, 537
SetI	ASST	3 cut(s)	129, 174, 184
SfaNI	GCATC	1 cut(s)	64
SmiMI	CAYNNNNRTG	1 cut(s)	603
SphI	GCATGC	1 cut(s)	253
Sse9I	AATT	5 cut(s)	208, 325, 475, 571, 615
SsiI	CCGC	1 cut(s)	395
SspMI	CTAG	2 cut(s)	311, 453
StyD4I	CCNGG	2 cut(s)	227, 535
TaiI	ACGT	1 cut(s)	129
TaqI	TCGA	1 cut(s)	370
TasI	AATT	5 cut(s)	208, 325, 475, 571, 615
TatI	WGTACW	1 cut(s)	633
TauI	GCSGC	1 cut(s)	398
TfiI	GAWTC	3 cut(s)	197, 467, 683
Tru1I	TTAA	4 cut(s)	81, 282, 528, 629
Tru9I	TTAA	4 cut(s)	81, 282, 528, 629
TscAI	CASTG	2 cut(s)	154, 351
TseFI	GTSAC	1 cut(s)	127
TseI	GCWGC	2 cut(s)	246, 608
Tsp45I	GTSAC	1 cut(s)	127
TspDTI	ATGAA	5 cut(s)	113, 524, 608, 665, 690
TspRI	CASTG	2 cut(s)	154, 351
Tth111I	GACNNNGTC	1 cut(s)	125
XapI	RAATTY	2 cut(s)	325, 615
XceI	RCATGY	2 cut(s)	156, 253
XspI	CTAG	2 cut(s)	311, 453
ZraI	GACGTC	1 cut(s)	127
ZrmI	AGTACT	1 cut(s)	635
Zsp2I	ATGCAT	1 cut(s)	79

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