Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0008546

Physical Location & Seq

Genomic Coordinates Reverse (-)

27197587 .. 27198540

Gene Structure 954 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG170500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGATTGGTGGTTATTGCCAAAACAAACGTCCCCATGAAGCCGTGAGATTGTTTCATGAAATGCAGTCAACTACATCGCTTGAACCAGATGCTGTAACGGTTGTGAGCATTCTTCCGGCTATAGCTGATTTGGGTGCTTTGGATTTAGGGCATTGGGTTCACGAGTTTGTACAGAGGAAGAAGCTTGATAGGCTAACCAATATATGCACTGCGCTTGTGGATATGTATGCAAAATGTGGTGAAATAAAAAAGGCCAAAAGACTCTTTGATGAGATGCCTGAAAAAGAAACGGCTTCTTGGAATGCTTTGATAAATGGGTTTGCAGTCAATGGCTATGGAAAGGAGGCACTAGATGTATTTTTAGAGATGCAACGAGAAAAGTTTAAGCCTAACAATATAACCTTTGTCGGTGTTCTGTCCGCTTGTAACCATTGTGGTCTGGTAGAGGAAGGGAAATTTTGGTTTAGGAAAATGGAAAACTTTGGGCTCATTCCACAGATTGAGCATTATGGTTGTATGGTAGATCTTTTAGGAAGGGCAGGGTGCTTGGAGGAAGCTGAGAAGCTGATCAAGAGCATGCCTTACGATGTTAATGGGATAATTTTGAGTTCCTTTCTTTTTGCGTGTGGGTATTGTGAGGATGTCACGAGAGCCAACAAAACTTTAGAGCAGGCTGTCAAACTGGAGCCATGGAATTATGGAAATTATGTTATGTTGAGAAATTTGTATGCGAGAAACAGAAGGTGGAGTGATGCAGATAATATTAAGAGTTCGATGCGGAAGAATCAAGCAGATAAAGAGGTTGGTTATAGTGTTATAGAGGTTGATGGTAGAATCAACCAGTTTGTGGCTGGGGACAGGATGTACACATCTTCGGAAGCTATACATTTGACCTTGCTACAGAGTTGGAAGCACATGATGGGACAAGTCCCATGTTCTATGGCTAAGGTGTGA

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

317

Amino Acids

36.0

Weight (kDa)

6.71

Isoelectric Point (pI)

42.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	1 - 38	5.6e-07	PPR repeat family
PPR_2	PF13041	97 - 142	6.5e-11	PPR repeat family
PPR	PF01535	99 - 127	6.9e-08	PPR repeat
E_motif	PF20431	214 - 274	2.8e-11	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008546)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G44880 AT2G44880 AT2G44880 AT2G44880 AT2G44880 AT2G44880
fragaria_vesca	FvH4_7g09950
malus_domestica	MD07G1104700.v1.1 MD07G1105400.v1.1
prunus_persica	Prupe.2G128300_v2.0.a1
pyrus_communis	pycom07g08960
rosa_chinensis	RchiOBHm_Chr1g0347511 RchiOBHm_Chr1g0347541
rosa_laevigata	RLG00000028745
rosa_multiflora	Rmu_ssc0000280.1_g000005
rosa_roxburghii	Rroxscaffold_4G00307740
rosa_rugosa	Rorug01G0187500
rosa_samantha	Rh1AG204700 Rh1BG170500 Rh1CG189800 Rh1DG200800
rosa_wichuraiana	Rw0G013630 Rw1G017180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	847
AciI	CCGC	2 cut(s)	420, 778
AcsI	RAATTY	2 cut(s)	455, 721
AfaI	GTAC	2 cut(s)	171, 866
AfiI	CCNNNNNNNGG	1 cut(s)	847
AgsI	TTSAA	1 cut(s)	83
AluBI	AGCT	5 cut(s)	125, 184, 557, 565, 881
AluI	AGCT	5 cut(s)	125, 184, 557, 565, 881
AlwNI	CAGNNNCTG	1 cut(s)	92
AoxI	GGCC	1 cut(s)	252
ApoI	RAATTY	2 cut(s)	455, 721
ArsI	GACNNNNNNTTYG	2 cut(s)	13, 45
AspLEI	GCGC	1 cut(s)	214
AsuHPI	GGTGA	1 cut(s)	251
BanII	GRGCYC	1 cut(s)	489
BauI	CACGAG	2 cut(s)	161, 646
BccI	CCATC	2 cut(s)	821, 913
BceAI	ACGGC	2 cut(s)	26, 306
BclI	TGATCA	1 cut(s)	567
BfaI	CTAG	1 cut(s)	350
BfmI	CTRYAG	2 cut(s)	120, 899
BglII	AGATCT	1 cut(s)	523
BmiI	GGNNCC	1 cut(s)	687
BmsI	GCATC	5 cut(s)	79, 264, 357, 742, 765
BpmI	CTGGAG	1 cut(s)	704
Bpu10I	CCTNAGC	1 cut(s)	945
BsaJI	CCNNGG	1 cut(s)	689
Bsc4I	CCNNNNNNNGG	1 cut(s)	847
Bse1I	ACTGG	2 cut(s)	687, 841
BseDI	CCNNGG	1 cut(s)	689
BseGI	GGATG	2 cut(s)	646, 867
BseLI	CCNNNNNNNGG	1 cut(s)	847
BseMII	CTCAG	1 cut(s)	549
BseNI	ACTGG	2 cut(s)	687, 841
BseYI	CCCAGC	1 cut(s)	851
BshFI	GGCC	1 cut(s)	254
BsiSI	CCGG	1 cut(s)	116
BslFI	GGGAC	4 cut(s)	15, 869, 914, 936
BslI	CCNNNNNNNGG	1 cut(s)	847
BsmFI	GGGAC	4 cut(s)	15, 869, 914, 936
BsmI	GAATGC	2 cut(s)	108, 307
BsnI	GGCC	1 cut(s)	254
Bsp1286I	GDGCHC	1 cut(s)	489
Bsp1407I	TGTACA	2 cut(s)	169, 864
Bsp143I	GATC	2 cut(s)	523, 567
Bsp19I	CCATGG	1 cut(s)	689
BspACI	CCGC	2 cut(s)	420, 778
BspANI	GGCC	1 cut(s)	254
BspCNI	CTCAG	1 cut(s)	550
BspHI	TCATGA	1 cut(s)	55
BspLI	GGNNCC	1 cut(s)	687
BsrGI	TGTACA	2 cut(s)	169, 864
BsrI	ACTGG	2 cut(s)	687, 841
BssECI	CCNNGG	1 cut(s)	689
BssMI	GATC	2 cut(s)	523, 567
BssSI	CACGAG	2 cut(s)	161, 646
BssT1I	CCWWGG	1 cut(s)	689
Bst2BI	CACGAG	2 cut(s)	161, 646
Bst4CI	ACNGT	1 cut(s)	100
BstAUI	TGTACA	2 cut(s)	169, 864
BstC8I	GCNNGC	2 cut(s)	578, 672
BstDEI	CTNAG	2 cut(s)	558, 945
BstDSI	CCRYGG	1 cut(s)	689
BstF5I	GGATG	2 cut(s)	646, 867
BstHHI	GCGC	1 cut(s)	214
BstKTI	GATC	2 cut(s)	526, 570
BstMBI	GATC	2 cut(s)	523, 567
BstMWI	GCNNNNNNNGC	1 cut(s)	190
BstNSI	RCATGY	1 cut(s)	580
BstSFI	CTRYAG	2 cut(s)	120, 899
BstX2I	RGATCY	1 cut(s)	523
BstYI	RGATCY	1 cut(s)	523
BsuRI	GGCC	1 cut(s)	254
BtgI	CCRYGG	1 cut(s)	689
BtgZI	GCGATG	1 cut(s)	60
BtsCI	GGATG	2 cut(s)	646, 867
BtsI	GCAGTG	1 cut(s)	207
BtsIMutI	CAGTG	1 cut(s)	207
Cac8I	GCNNGC	2 cut(s)	578, 672
CaiI	CAGNNNCTG	1 cut(s)	92
CciI	TCATGA	1 cut(s)	55
CfoI	GCGC	1 cut(s)	214
Csp6I	GTAC	2 cut(s)	170, 865
CviAII	CATG	6 cut(s)	35, 56, 577, 690, 916, 933
CviQI	GTAC	2 cut(s)	170, 865
DdeI	CTNAG	2 cut(s)	558, 945
DpnI	GATC	2 cut(s)	525, 569
DpnII	GATC	2 cut(s)	523, 567
Eco130I	CCWWGG	1 cut(s)	689
Eco24I	GRGCYC	1 cut(s)	489
EcoT14I	CCWWGG	1 cut(s)	689
EcoT38I	GRGCYC	1 cut(s)	489
ErhI	CCWWGG	1 cut(s)	689
FaeI	CATG	6 cut(s)	38, 59, 580, 693, 919, 936
FaqI	GGGAC	4 cut(s)	15, 869, 914, 936
FatI	CATG	6 cut(s)	34, 55, 576, 689, 915, 932
FbaI	TGATCA	1 cut(s)	567
FokI	GGATG	2 cut(s)	653, 874
FriOI	GRGCYC	1 cut(s)	489
FspBI	CTAG	1 cut(s)	350
GlaI	GCGC	1 cut(s)	213
GsaI	CCCAGC	1 cut(s)	855
GsuI	CTGGAG	1 cut(s)	704
HaeIII	GGCC	1 cut(s)	254
HapII	CCGG	1 cut(s)	116
HhaI	GCGC	1 cut(s)	214
Hin1II	CATG	6 cut(s)	38, 59, 580, 693, 919, 936
Hin6I	GCGC	1 cut(s)	212
HinP1I	GCGC	1 cut(s)	212
HincII	GTYRAC	1 cut(s)	69
HindII	GTYRAC	1 cut(s)	69
HindIII	AAGCTT	1 cut(s)	182
HinfI	GANTC	3 cut(s)	261, 784, 834
HpaII	CCGG	1 cut(s)	116
HphI	GGTGA	1 cut(s)	251
Hpy166II	GTNNAC	3 cut(s)	69, 160, 867
Hpy188I	TCNGA	1 cut(s)	877
Hpy188III	TCNNGA	4 cut(s)	56, 161, 571, 646
Hpy8I	GTNNAC	3 cut(s)	69, 160, 867
HpyAV	CCTTC	3 cut(s)	443, 528, 735
HpyCH4III	ACNGT	1 cut(s)	100
HpyCH4IV	ACGT	1 cut(s)	28
HpyCH4V	TGCA	6 cut(s)	64, 207, 230, 323, 370, 755
HpyF10VI	GCNNNNNNNGC	1 cut(s)	190
HpyF3I	CTNAG	2 cut(s)	558, 945
HpySE526I	ACGT	1 cut(s)	28
Hsp92II	CATG	6 cut(s)	38, 59, 580, 693, 919, 936
HspAI	GCGC	1 cut(s)	212
Ksp22I	TGATCA	1 cut(s)	567
Kzo9I	GATC	2 cut(s)	523, 567
LmnI	GCTCC	1 cut(s)	685
LweI	GCATC	5 cut(s)	79, 264, 357, 742, 765
MaeI	CTAG	1 cut(s)	350
MaeII	ACGT	1 cut(s)	28
MaeIII	GTNAC	3 cut(s)	94, 425, 643
MalI	GATC	2 cut(s)	525, 569
MboI	GATC	2 cut(s)	523, 567
MboII	GAAGA	4 cut(s)	104, 190, 793, 864
MflI	RGATCY	1 cut(s)	523
MhlI	GDGCHC	1 cut(s)	489
MluCI	AATT	5 cut(s)	455, 600, 694, 703, 721
MlyI	GAGTC	1 cut(s)	255
MmeI	TCCRAC	1 cut(s)	887
MnlI	CCTC	7 cut(s)	168, 337, 439, 544, 631, 793, 814
MseI	TTAA	3 cut(s)	384, 591, 765
MspI	CCGG	1 cut(s)	116
Mva1269I	GAATGC	2 cut(s)	108, 307
MwoI	GCNNNNNNNGC	1 cut(s)	190
NcoI	CCATGG	1 cut(s)	689
NdeII	GATC	2 cut(s)	523, 567
NlaIII	CATG	6 cut(s)	38, 59, 580, 693, 919, 936
NlaIV	GGNNCC	1 cut(s)	687
NmuCI	GTSAC	1 cut(s)	643
NspI	RCATGY	1 cut(s)	580
PaeI	GCATGC	1 cut(s)	580
PagI	TCATGA	1 cut(s)	55
PctI	GAATGC	2 cut(s)	108, 307
PfeI	GAWTC	2 cut(s)	784, 834
PflMI	CCANNNNNTGG	1 cut(s)	847
PleI	GAGTC	1 cut(s)	255
PpsI	GAGTC	1 cut(s)	255
PspFI	CCCAGC	1 cut(s)	851
PspN4I	GGNNCC	1 cut(s)	687
PstNI	CAGNNNCTG	1 cut(s)	92
PsuI	RGATCY	1 cut(s)	523
RsaI	GTAC	2 cut(s)	171, 866
RsaNI	GTAC	2 cut(s)	170, 865
SaqAI	TTAA	3 cut(s)	384, 591, 765
Sau3AI	GATC	2 cut(s)	523, 567
SchI	GAGTC	1 cut(s)	255
SduI	GDGCHC	1 cut(s)	489
SfaNI	GCATC	5 cut(s)	79, 264, 357, 742, 765
SfcI	CTRYAG	2 cut(s)	120, 899
SphI	GCATGC	1 cut(s)	580
Sse9I	AATT	5 cut(s)	455, 600, 694, 703, 721
SsiI	CCGC	2 cut(s)	420, 778
SspI	AATATT	1 cut(s)	763
SspMI	CTAG	1 cut(s)	350
StyI	CCWWGG	1 cut(s)	689
TaaI	ACNGT	1 cut(s)	100
TaiI	ACGT	1 cut(s)	31
TaqI	TCGA	1 cut(s)	773
TasI	AATT	5 cut(s)	455, 600, 694, 703, 721
TatI	WGTACW	2 cut(s)	169, 864
TfiI	GAWTC	2 cut(s)	784, 834
Tru1I	TTAA	3 cut(s)	384, 591, 765
Tru9I	TTAA	3 cut(s)	384, 591, 765
TscAI	CASTG	1 cut(s)	214
TseFI	GTSAC	1 cut(s)	643
Tsp45I	GTSAC	1 cut(s)	643
TspDTI	ATGAA	3 cut(s)	44, 51, 72
TspRI	CASTG	1 cut(s)	214
Van91I	CCANNNNNTGG	1 cut(s)	847
XapI	RAATTY	2 cut(s)	455, 721
XceI	RCATGY	1 cut(s)	580
XcmI	CCANNNNNNNNNTGG	1 cut(s)	848
XspI	CTAG	1 cut(s)	350

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