Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0000530

Physical Location & Seq

Genomic Coordinates Forward (+)

24101491 .. 24102447

Gene Structure 957 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG145600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGCCTGCCATGGGATTTGTGCCCAATGTGGTGACTTTTACTACCATTTTAGGTGGTTATGTGTCGCGGCGCGATATGGTTGGTGCCAAGAGGGTGTTTGGTGAGATTTTGGACAGAGGGTGGTTTCCTGATGTGACTACATATACCATATTGATGGATGGGTATGTGAAGCAGGGGAAGCTGGTTGAGGCTATTAAGGTCATGGATGAGATGGAGGATAATGGGATTGGCGCCAATGAGGTTACTTATGGGGTTATGATTGAAGCTTATTGTAAGGAAAAGAAGTCAGGTGAAGCGGTTAATTTGCTTAATGATATGGTGGAGAAGAGTTACATACCGAGCTCGGCGCTCTGTTGTAAGGTGATTGATGTGTTGTGTTGCGAAGGGAAGGTGGAGGATGCTTGTGTACTGTGGAAGAGGCTTTTGAAGAAGAGTTGCACACCGGATAATGCAGTATTGGGGACAATCATATATTGGCTTTGTAAGAAGGGAGAAGTATGGGAAGCCAGGAAATTGTTTGATCAGTTTGAGACGAGTGAGCCTCCGGATGTCATGACTTACAACGTGCTTATTTCTGGAATGTGTGAAGTTTGGGAGTTGTGTGAGGCAGGGAGGTTATGGGATGACATGGTGGAGAAAGGATATTCTCCAAATTCTTTTACATATAATGTATTGATCAAAGGATTCTGTAAGATTAGAAAAGCGAAGGAGGGAATTAGGATTTTGGACGAGATGTTCGAAAAAGGCTATTTGCCAAACAAGTCTACTTATGCTATGTTGATTGAGGGGCTCTGTGACTCGGGAGAGGATGCTGAAATGGCTAGAGTAATATCTATGTCAATCTCAAGTGGAGACATTGACAGTGATTCCTGGGATCTTTTCCTTACTAAGGTTGTTGGTGATTTGGATACTGGGGAAATTGTTCTAGACAGAATACTACTGGAGAATGCTGATTAG

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

318

Amino Acids

35.62

Weight (kDa)

4.61

Isoelectric Point (pI)

31.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	8 - 57	2.7e-13	PPR repeat family
PPR_3	PF13812	32 - 92	1.5e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	40 - 72	2.7e-09	PPR repeat
PPR_2	PF13041	43 - 92	1.1e-16	PPR repeat family
PPR	PF01535	47 - 76	1.3e-08	PPR repeat
PPR_1	PF12854	75 - 107	2.3e-06	PPR repeat
PPR_2	PF13041	79 - 115	8.9e-08	PPR repeat family
PPR	PF01535	81 - 109	1.7e-06	PPR repeat
PPR_2	PF13041	182 - 231	9.9e-19	PPR repeat family
PPR_3	PF13812	205 - 262	1.6e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	213 - 245	3e-09	PPR repeat
PPR	PF01535	220 - 249	1.3e-06	PPR repeat
PPR_2	PF13041	222 - 266	6.1e-12	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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000530)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca	FvH4_7g08341 FvH4_7g08360
malus_domestica	MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica	Prupe.2G106500_v2.0.a1
pyrus_communis	pycom02g20040
rosa_chinensis	RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata	RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora	Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii	Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa	Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha	Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana	Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	83, 230
AccI	GTMKAC	1 cut(s)	764
AccII	CGCG	2 cut(s)	67, 72
AccIII	TCCGGA	1 cut(s)	544
AciI	CCGC	2 cut(s)	67, 296
AclWI	GGATC	1 cut(s)	882
AcsI	RAATTY	1 cut(s)	652
AcyI	GRCGYC	1 cut(s)	231
AfaI	GTAC	1 cut(s)	408
AfiI	CCNNNNNNNGG	2 cut(s)	11, 889
AgsI	TTSAA	2 cut(s)	263, 427
AjnI	CCWGG	2 cut(s)	506, 869
AloI	GAACNNNNNNTCC	2 cut(s)	719, 751
AluBI	AGCT	3 cut(s)	181, 266, 342
AluI	AGCT	3 cut(s)	181, 266, 342
Alw21I	GWGCWC	1 cut(s)	344
Alw26I	GTCTC	2 cut(s)	524, 846
AlwI	GGATC	1 cut(s)	882
Ama87I	CYCGRG	1 cut(s)	799
Aor13HI	TCCGGA	1 cut(s)	544
ApoI	RAATTY	1 cut(s)	652
ArsI	GACNNNNNNTTYG	2 cut(s)	719, 751
Asp700I	GAANNNNTTC	1 cut(s)	921
AspLEI	GCGC	3 cut(s)	72, 233, 349
AsuHPI	GGTGA	5 cut(s)	43, 113, 302, 373, 911
AsuII	TTCGAA	1 cut(s)	738
AvaI	CYCGRG	1 cut(s)	799
BaeGI	GKGCMC	1 cut(s)	24
BanI	GGYRCC	2 cut(s)	83, 230
BanII	GRGCYC	2 cut(s)	344, 792
Bbv12I	GWGCWC	1 cut(s)	344
BccI	CCATC	3 cut(s)	148, 152, 205
BciT130I	CCWGG	2 cut(s)	508, 871
BciVI	GTATCC	1 cut(s)	901
BclI	TGATCA	2 cut(s)	520, 675
BcoDI	GTCTC	2 cut(s)	524, 846
BfaI	CTAG	2 cut(s)	822, 926
BfoI	RGCGCY	2 cut(s)	234, 350
BfuI	GTATCC	1 cut(s)	901
BisI	GCNGC	1 cut(s)	68
BlsI	GCNGC	1 cut(s)	69
Bme1390I	CCNGG	2 cut(s)	508, 871
BmeT110I	CYCGRG	1 cut(s)	799
BmiI	GGNNCC	2 cut(s)	85, 232
BmrFI	CCNGG	2 cut(s)	508, 871
BmrI	ACTGGG	1 cut(s)	921
BmsI	GCATC	2 cut(s)	388, 799
BmuI	ACTGGG	1 cut(s)	921
BplI	GAGNNNNNCTC	2 cut(s)	526, 558
Bpu14I	TTCGAA	1 cut(s)	738
BpuEI	CTTGAG	1 cut(s)	829
BsaHI	GRCGYC	1 cut(s)	231
BsaJI	CCNNGG	2 cut(s)	9, 870
BsaWI	WCCGGW	2 cut(s)	442, 544
Bsc4I	CCNNNNNNNGG	2 cut(s)	11, 889
Bse1I	ACTGG	2 cut(s)	916, 945
BseAI	TCCGGA	1 cut(s)	544
BseBI	CCWGG	2 cut(s)	508, 871
BseDI	CCNNGG	2 cut(s)	9, 870
BseGI	GGATG	6 cut(s)	163, 211, 403, 553, 628, 814
BseLI	CCNNNNNNNGG	2 cut(s)	11, 889
BseNI	ACTGG	2 cut(s)	916, 945
BseSI	GKGCMC	1 cut(s)	24
Bsh1236I	CGCG	2 cut(s)	67, 72
BshNI	GGYRCC	2 cut(s)	83, 230
BsiHKAI	GWGCWC	1 cut(s)	344
BsiHKCI	CYCGRG	1 cut(s)	799
BsiSI	CCGG	2 cut(s)	443, 545
BslFI	GGGAC	1 cut(s)	475
BslI	CCNNNNNNNGG	2 cut(s)	11, 889
BsmAI	GTCTC	2 cut(s)	524, 846
BsmBI	CGTCTC	1 cut(s)	524
BsmFI	GGGAC	1 cut(s)	475
BsmI	GAATGC	1 cut(s)	952
BsoBI	CYCGRG	1 cut(s)	799
Bsp119I	TTCGAA	1 cut(s)	738
Bsp1286I	GDGCHC	3 cut(s)	24, 344, 792
Bsp13I	TCCGGA	1 cut(s)	544
Bsp143I	GATC	3 cut(s)	520, 675, 874
Bsp19I	CCATGG	1 cut(s)	9
BspACI	CCGC	2 cut(s)	67, 296
BspEI	TCCGGA	1 cut(s)	544
BspFNI	CGCG	2 cut(s)	67, 72
BspHI	TCATGA	1 cut(s)	552
BspLI	GGNNCC	2 cut(s)	85, 232
BspPI	GGATC	1 cut(s)	882
BspT104I	TTCGAA	1 cut(s)	738
BspT107I	GGYRCC	2 cut(s)	83, 230
BsrI	ACTGG	2 cut(s)	916, 945
BssECI	CCNNGG	2 cut(s)	9, 870
BssMI	GATC	3 cut(s)	520, 675, 874
BssNI	GRCGYC	1 cut(s)	231
BssT1I	CCWWGG	1 cut(s)	9
Bst2UI	CCWGG	2 cut(s)	508, 871
Bst4CI	ACNGT	2 cut(s)	411, 863
Bst6I	CTCTTC	3 cut(s)	320, 410, 425
BstACI	GRCGYC	1 cut(s)	231
BstBI	TTCGAA	1 cut(s)	738
BstC8I	GCNNGC	1 cut(s)	6
BstDEI	CTNAG	1 cut(s)	888
BstDSI	CCRYGG	1 cut(s)	9
BstENI	CCTNNNNNAGG	1 cut(s)	887
BstF5I	GGATG	6 cut(s)	163, 211, 403, 553, 628, 814
BstFNI	CGCG	2 cut(s)	67, 72
BstH2I	RGCGCY	2 cut(s)	234, 350
BstHHI	GCGC	3 cut(s)	72, 233, 349
BstKTI	GATC	3 cut(s)	523, 678, 877
BstMAI	GTCTC	2 cut(s)	524, 846
BstMBI	GATC	3 cut(s)	520, 675, 874
BstMWI	GCNNNNNNNGC	2 cut(s)	178, 818
BstNI	CCWGG	2 cut(s)	508, 871
BstSCI	CCNGG	2 cut(s)	506, 869
BstSLI	GKGCMC	1 cut(s)	24
BstUI	CGCG	2 cut(s)	67, 72
BstX2I	RGATCY	1 cut(s)	874
BstXI	CCANNNNNNTGG	1 cut(s)	154
BstYI	RGATCY	1 cut(s)	874
BsuI	GTATCC	1 cut(s)	901
BtgI	CCRYGG	1 cut(s)	9
BtsCI	GGATG	6 cut(s)	163, 211, 403, 553, 628, 814
BtsIMutI	CAGTG	1 cut(s)	868
Cac8I	GCNNGC	1 cut(s)	6
CciI	TCATGA	1 cut(s)	552
CfoI	GCGC	3 cut(s)	72, 233, 349
Csp6I	GTAC	1 cut(s)	407
CviAII	CATG	4 cut(s)	10, 202, 553, 628
CviQI	GTAC	1 cut(s)	407
DdeI	CTNAG	1 cut(s)	888
DinI	GGCGCC	1 cut(s)	232
DpnI	GATC	3 cut(s)	522, 677, 876
DpnII	GATC	3 cut(s)	520, 675, 874
Eam1104I	CTCTTC	3 cut(s)	320, 410, 425
EarI	CTCTTC	3 cut(s)	320, 410, 425
Ecl136II	GAGCTC	1 cut(s)	342
Eco130I	CCWWGG	1 cut(s)	9
Eco24I	GRGCYC	2 cut(s)	344, 792
Eco53kI	GAGCTC	1 cut(s)	342
Eco88I	CYCGRG	1 cut(s)	799
EcoICRI	GAGCTC	1 cut(s)	342
EcoNI	CCTNNNNNAGG	1 cut(s)	887
EcoRII	CCWGG	2 cut(s)	506, 869
EcoT14I	CCWWGG	1 cut(s)	9
EcoT38I	GRGCYC	2 cut(s)	344, 792
EgeI	GGCGCC	1 cut(s)	232
EheI	GGCGCC	1 cut(s)	232
ErhI	CCWWGG	1 cut(s)	9
Esp3I	CGTCTC	1 cut(s)	524
FaeI	CATG	4 cut(s)	13, 205, 556, 631
FaqI	GGGAC	1 cut(s)	475
FatI	CATG	4 cut(s)	9, 201, 552, 627
FbaI	TGATCA	2 cut(s)	520, 675
FblI	GTMKAC	1 cut(s)	764
Fnu4HI	GCNGC	1 cut(s)	68
FokI	GGATG	6 cut(s)	170, 218, 410, 560, 635, 821
FriOI	GRGCYC	2 cut(s)	344, 792
Fsp4HI	GCNGC	1 cut(s)	68
FspBI	CTAG	2 cut(s)	822, 926
GlaI	GCGC	3 cut(s)	71, 232, 348
GluI	GCNGC	1 cut(s)	68
HaeII	RGCGCY	2 cut(s)	234, 350
HapII	CCGG	2 cut(s)	443, 545
HhaI	GCGC	3 cut(s)	72, 233, 349
Hin1I	GRCGYC	1 cut(s)	231
Hin1II	CATG	4 cut(s)	13, 205, 556, 631
Hin6I	GCGC	3 cut(s)	70, 231, 347
HinP1I	GCGC	3 cut(s)	70, 231, 347
HindIII	AAGCTT	1 cut(s)	264
HinfI	GANTC	3 cut(s)	684, 797, 866
HpaII	CCGG	2 cut(s)	443, 545
HphI	GGTGA	5 cut(s)	43, 113, 302, 373, 911
Hpy166II	GTNNAC	2 cut(s)	407, 765
Hpy188III	TCNNGA	6 cut(s)	128, 545, 553, 576, 801, 926
Hpy8I	GTNNAC	2 cut(s)	407, 765
HpyAV	CCTTC	4 cut(s)	377, 382, 481, 700
HpyCH4III	ACNGT	2 cut(s)	411, 863
HpyCH4IV	ACGT	1 cut(s)	564
HpyCH4V	TGCA	2 cut(s)	438, 452
HpyF10VI	GCNNNNNNNGC	2 cut(s)	178, 818
HpyF3I	CTNAG	1 cut(s)	888
HpySE526I	ACGT	1 cut(s)	564
Hsp92I	GRCGYC	1 cut(s)	231
Hsp92II	CATG	4 cut(s)	13, 205, 556, 631
HspAI	GCGC	3 cut(s)	70, 231, 347
KasI	GGCGCC	1 cut(s)	230
Kpn2I	TCCGGA	1 cut(s)	544
Ksp22I	TGATCA	2 cut(s)	520, 675
Kzo9I	GATC	3 cut(s)	520, 675, 874
LweI	GCATC	2 cut(s)	388, 799
MaeI	CTAG	2 cut(s)	822, 926
MaeII	ACGT	1 cut(s)	564
MaeIII	GTNAC	5 cut(s)	31, 133, 241, 329, 794
MalI	GATC	3 cut(s)	522, 677, 876
MboI	GATC	3 cut(s)	520, 675, 874
MboII	GAAGA	4 cut(s)	337, 427, 439, 442
MflI	RGATCY	1 cut(s)	874
MhlI	GDGCHC	3 cut(s)	24, 344, 792
MluCI	AATT	5 cut(s)	301, 512, 652, 714, 918
Mly113I	GGCGCC	1 cut(s)	231
MlyI	GAGTC	1 cut(s)	791
MroI	TCCGGA	1 cut(s)	544
MroXI	GAANNNNTTC	1 cut(s)	921
MseI	TTAA	3 cut(s)	195, 300, 309
MslI	CAYNNNNRTG	1 cut(s)	152
MspI	CCGG	2 cut(s)	443, 545
MspR9I	CCNGG	2 cut(s)	508, 871
Mva1269I	GAATGC	1 cut(s)	952
MvaI	CCWGG	2 cut(s)	508, 871
MvnI	CGCG	2 cut(s)	67, 72
MwoI	GCNNNNNNNGC	2 cut(s)	178, 818
NarI	GGCGCC	1 cut(s)	231
NcoI	CCATGG	1 cut(s)	9
NdeII	GATC	3 cut(s)	520, 675, 874
NlaIII	CATG	4 cut(s)	13, 205, 556, 631
NlaIV	GGNNCC	2 cut(s)	85, 232
NmeAIII	GCCGAG	1 cut(s)	323
NmuCI	GTSAC	3 cut(s)	31, 133, 794
NspV	TTCGAA	1 cut(s)	738
PagI	TCATGA	1 cut(s)	552
PcsI	WCGNNNNNNNCGW	1 cut(s)	735
PctI	GAATGC	1 cut(s)	952
PdmI	GAANNNNTTC	1 cut(s)	921
PfeI	GAWTC	2 cut(s)	684, 866
PkrI	GCNGC	1 cut(s)	69
PleI	GAGTC	1 cut(s)	791
PluTI	GGCGCC	1 cut(s)	234
PpsI	GAGTC	1 cut(s)	791
Psp124BI	GAGCTC	1 cut(s)	344
Psp6I	CCWGG	2 cut(s)	506, 869
PspGI	CCWGG	2 cut(s)	506, 869
PspN4I	GGNNCC	2 cut(s)	85, 232
PsuI	RGATCY	1 cut(s)	874
RsaI	GTAC	1 cut(s)	408
RsaNI	GTAC	1 cut(s)	407
RseI	CAYNNNNRTG	1 cut(s)	152
SacI	GAGCTC	1 cut(s)	344
SaqAI	TTAA	3 cut(s)	195, 300, 309
SatI	GCNGC	1 cut(s)	68
Sau3AI	GATC	3 cut(s)	520, 675, 874
SchI	GAGTC	1 cut(s)	791
ScrFI	CCNGG	2 cut(s)	508, 871
SduI	GDGCHC	3 cut(s)	24, 344, 792
SfaNI	GCATC	2 cut(s)	388, 799
SfoI	GGCGCC	1 cut(s)	232
SfuI	TTCGAA	1 cut(s)	738
SmiMI	CAYNNNNRTG	1 cut(s)	152
SmlI	CTYRAG	1 cut(s)	844
SmoI	CTYRAG	1 cut(s)	844
Sse9I	AATT	5 cut(s)	301, 512, 652, 714, 918
SsiI	CCGC	2 cut(s)	67, 296
SspDI	GGCGCC	1 cut(s)	230
SspMI	CTAG	2 cut(s)	822, 926
SstI	GAGCTC	1 cut(s)	344
StyD4I	CCNGG	2 cut(s)	506, 869
StyI	CCWWGG	1 cut(s)	9
TaaI	ACNGT	2 cut(s)	411, 863
TaiI	ACGT	1 cut(s)	567
TaqI	TCGA	1 cut(s)	738
TasI	AATT	5 cut(s)	301, 512, 652, 714, 918
TatI	WGTACW	1 cut(s)	406
TauI	GCSGC	1 cut(s)	70
TfiI	GAWTC	2 cut(s)	684, 866
Tru1I	TTAA	3 cut(s)	195, 300, 309
Tru9I	TTAA	3 cut(s)	195, 300, 309
TscAI	CASTG	1 cut(s)	868
TseFI	GTSAC	3 cut(s)	31, 133, 794
Tsp45I	GTSAC	3 cut(s)	31, 133, 794
TspRI	CASTG	1 cut(s)	868
XagI	CCTNNNNNAGG	1 cut(s)	887
XapI	RAATTY	1 cut(s)	652
XbaI	TCTAGA	1 cut(s)	925
XmiI	GTMKAC	1 cut(s)	764
XmnI	GAANNNNTTC	1 cut(s)	921
XspI	CTAG	2 cut(s)	822, 926

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