Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0005465

Physical Location & Seq

Genomic Coordinates Forward (+)

83002384 .. 83003504

Gene Structure 1121 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG601300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1014 bp

ATGGAGGCGTTCGGGTTGTTTTTGGATATGTGGGAGGAGTTTTCTGATGGGGAGTCGAGGATATTTGCCACAATGATTCGGGCTTCGGCTGGCTTGGGACCCGTTTCTGCAGGGAGACACTTTCATTCGTGTTGTGTGAAGATGGGTGTGGCGGCTGATATTTTTCTGTCTTGTGCGTTGATTGATATGTATAGCAAGTGTGGGAGCATTGATGATGCTCACTGTGTTTTTGATGAGATGCCGAAGAAGAATACCATTCTAGCGGGTTATGCACTTCATGAACATGCAAAGCAAGCAGTTCGTCATGGTTTTGGGTTGGATATAGTGGCAAACACATTGCTTGTGGACTTCTATAGCAAATGGGGGAGGATAGAAGATGCTCATCATGTTTTTGATCAGATGCCTAACAAGAATGCCTTGATTGCTGGATATGGTAACCATAGTCGGGGTGATGAGGCTGTTGAGATGTTTGAGAAGATGCTTCAGGAAGGAATGGTACCCAACCATGTTACCTTTCTTGCTGTCTTGTCTGCTTGCAGTCGTTCAAGTTTATCAGAACTTGGATGGGAGATTTTTGAATCAATGAACGGGGATTACAAGATTAAGCCCCGTGCTATGCATTATGCTTGTATGATTGAATTGCTAGGACAAGAGGGCAATTTGGATGAAGCGTTTGCAATAATAAGAACTGCTCCCTTAAAGCCTACAGCAAACATGTGGGCTGCTCTGCTGACAGCTTGTCGAATCCATGAGAATTTAGAGCTTGGCAATATTGCTGCCGAAGAGCTCTATGGGATGGAGCCTGAGAAGCTAAGTAATTATGTTGTGCTCCTAAATATATACAACAGTTGTGGAAAGTTGAAGGAAGTTGCTGCTGTTGTTCAGAGTCTAAGAAGAAAGGATTTGAGAATGCTTCCGGCATGCAGTTGGATTGAAATTAATAAACAGGTACATATTTTTCATTCCGGAGATGAAAGGCATGCCCAAACAAGAGAGATTTACGAGAAATTGTAG

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

DYW_deaminase PPR PPR_2

Protein Analysis

337

Amino Acids

37.77

Weight (kDa)

5.67

Isoelectric Point (pI)

53.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	138 - 180	5.6e-09	PPR repeat family
PPR_long	PF17177	152 - 300	1.1e-07	Pentacotripeptide-repeat region of PRORP
E_motif	PF20431	250 - 312	3.7e-12	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: OG0005465)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G50390
fragaria_vesca	FvH4_6g48290
malus_domestica	MD00G1131200.v1.1 MD09G1052300.v1.1
prunus_persica	Prupe.3G266400_v2.0.a1
pyrus_communis	pycom111g04370 pycom17g04780
rosa_chinensis	RchiOBHm_Chr2g0168271 RchiOBHm_Chr6g0267531
rosa_laevigata	RLG00000013953 RLG00000013992
rosa_multiflora	Rmu_co8459511.1_g000001 Rmu_sc0003354.1_g000005 Rmu_sc0012005.1_g000008
rosa_roxburghii	Rroxscaffold_2G00083250 Rroxscaffold_7G00200650
rosa_rugosa	Rorug02G0532200 Rorug02G0532200 Rorug02G0532300 Rorug06G0033600
rosa_samantha	Rh2AG601300 Rh2BG614500 Rh2BG614600 Rh6AG155000 Rh6BG155600 Rh6DG140900
rosa_wichuraiana	Rw0G012800 Rw2G049930 Rw6G013300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	496
AccB1I	GGYRCC	1 cut(s)	496
AccIII	TCCGGA	1 cut(s)	965
AciI	CCGC	2 cut(s)	152, 263
AcsI	RAATTY	1 cut(s)	754
AcuI	CTGAAG	1 cut(s)	467
AfaI	GTAC	2 cut(s)	498, 951
AfiI	CCNNNNNNNGG	1 cut(s)	445
AflIII	ACRYGT	1 cut(s)	714
AgsI	TTSAA	5 cut(s)	546, 578, 638, 862, 935
AhdI	GACNNNNNGTC	1 cut(s)	738
AluBI	AGCT	4 cut(s)	737, 763, 787, 811
AluI	AGCT	4 cut(s)	737, 763, 787, 811
Alw21I	GWGCWC	2 cut(s)	789, 831
Alw26I	GTCTC	1 cut(s)	109
Aor13HI	TCCGGA	1 cut(s)	965
ApeKI	GCWGC	3 cut(s)	722, 776, 872
ApoI	RAATTY	1 cut(s)	754
AseI	ATTAAT	1 cut(s)	939
Asp718I	GGTACC	1 cut(s)	496
AspS9I	GGNCC	1 cut(s)	98
AsuHPI	GGTGA	1 cut(s)	461
AvaII	GGWCC	1 cut(s)	98
BanI	GGYRCC	1 cut(s)	496
BanII	GRGCYC	1 cut(s)	789
BarI	GAAGNNNNNNTAC	2 cut(s)	480, 512
Bbv12I	GWGCWC	2 cut(s)	789, 831
BbvI	GCAGC	3 cut(s)	709, 763, 859
BccI	CCATC	4 cut(s)	41, 136, 558, 790
BcgI	CGANNNNNNTGC	2 cut(s)	281, 315
BclI	TGATCA	1 cut(s)	394
BcoDI	GTCTC	1 cut(s)	109
BfaI	CTAG	2 cut(s)	260, 644
BfmI	CTRYAG	3 cut(s)	108, 352, 705
BisI	GCNGC	4 cut(s)	153, 723, 777, 873
BlsI	GCNGC	4 cut(s)	154, 724, 778, 874
Bme18I	GGWCC	1 cut(s)	98
BmeRI	GACNNNNNGTC	1 cut(s)	738
BmgT120I	GGNCC	1 cut(s)	98
BmiI	GGNNCC	4 cut(s)	99, 100, 498, 801
BmsI	GCATC	5 cut(s)	205, 228, 367, 390, 468
BsaBI	GATNNNNATC	1 cut(s)	381
BsaWI	WCCGGW	1 cut(s)	965
Bsc4I	CCNNNNNNNGG	1 cut(s)	445
Bse3DI	GCAATG	1 cut(s)	335
Bse8I	GATNNNNATC	1 cut(s)	381
BseAI	TCCGGA	1 cut(s)	965
BseGI	GGATG	3 cut(s)	569, 670, 801
BseJI	GATNNNNATC	1 cut(s)	381
BseLI	CCNNNNNNNGG	1 cut(s)	445
BseMI	GCAATG	1 cut(s)	335
BseMII	CTCAG	1 cut(s)	795
BseRI	GAGGAG	1 cut(s)	50
BseXI	GCAGC	3 cut(s)	709, 763, 859
BshNI	GGYRCC	1 cut(s)	496
BsiHKAI	GWGCWC	2 cut(s)	789, 831
BsiSI	CCGG	2 cut(s)	917, 966
BslFI	GGGAC	1 cut(s)	111
BslI	CCNNNNNNNGG	1 cut(s)	445
BsmAI	GTCTC	1 cut(s)	109
BsmFI	GGGAC	1 cut(s)	111
BsmI	GAATGC	2 cut(s)	418, 915
Bsp1286I	GDGCHC	2 cut(s)	789, 831
Bsp13I	TCCGGA	1 cut(s)	965
Bsp143I	GATC	1 cut(s)	394
BspACI	CCGC	2 cut(s)	152, 263
BspCNI	CTCAG	1 cut(s)	796
BspEI	TCCGGA	1 cut(s)	965
BspHI	TCATGA	1 cut(s)	277
BspLI	GGNNCC	4 cut(s)	99, 100, 498, 801
BspMAI	CTGCAG	1 cut(s)	112
BspQI	GCTCTTC	1 cut(s)	777
BspT107I	GGYRCC	1 cut(s)	496
BsrDI	GCAATG	1 cut(s)	335
BssMI	GATC	1 cut(s)	394
Bst4CI	ACNGT	2 cut(s)	224, 848
Bst6I	CTCTTC	1 cut(s)	777
BstC8I	GCNNGC	5 cut(s)	91, 294, 535, 922, 981
BstDEI	CTNAG	3 cut(s)	804, 812, 890
BstEII	GGTNACC	1 cut(s)	434
BstF5I	GGATG	3 cut(s)	569, 670, 801
BstKTI	GATC	1 cut(s)	397
BstMAI	GTCTC	1 cut(s)	109
BstMBI	GATC	1 cut(s)	394
BstMWI	GCNNNNNNNGC	4 cut(s)	269, 293, 422, 808
BstNSI	RCATGY	4 cut(s)	287, 718, 924, 983
BstPI	GGTNACC	1 cut(s)	434
BstSFI	CTRYAG	3 cut(s)	108, 352, 705
BstV1I	GCAGC	3 cut(s)	709, 763, 859
BtsCI	GGATG	3 cut(s)	569, 670, 801
BtsIMutI	CAGTG	1 cut(s)	220
Cac8I	GCNNGC	5 cut(s)	91, 294, 535, 922, 981
CciI	TCATGA	1 cut(s)	277
Cfr13I	GGNCC	1 cut(s)	98
Csp6I	GTAC	2 cut(s)	497, 950
CspCI	CAANNNNNGTGG	2 cut(s)	832, 867
CviAII	CATG	9 cut(s)	278, 284, 305, 386, 506, 715, 749, 921, 980
CviQI	GTAC	2 cut(s)	497, 950
DdeI	CTNAG	3 cut(s)	804, 812, 890
DpnI	GATC	1 cut(s)	396
DpnII	GATC	1 cut(s)	394
DriI	GACNNNNNGTC	1 cut(s)	738
Eam1104I	CTCTTC	1 cut(s)	777
Eam1105I	GACNNNNNGTC	1 cut(s)	738
EarI	CTCTTC	1 cut(s)	777
Ecl136II	GAGCTC	1 cut(s)	787
Eco24I	GRGCYC	1 cut(s)	789
Eco47I	GGWCC	1 cut(s)	98
Eco53kI	GAGCTC	1 cut(s)	787
Eco57I	CTGAAG	1 cut(s)	467
Eco91I	GGTNACC	1 cut(s)	434
EcoICRI	GAGCTC	1 cut(s)	787
EcoO109I	RGGNCCY	1 cut(s)	98
EcoO65I	GGTNACC	1 cut(s)	434
EcoT22I	ATGCAT	1 cut(s)	621
EcoT38I	GRGCYC	1 cut(s)	789
FaeI	CATG	9 cut(s)	281, 287, 308, 389, 509, 718, 752, 924, 983
FalI	AAGNNNNNCTT	2 cut(s)	401, 433
FaqI	GGGAC	1 cut(s)	111
FatI	CATG	9 cut(s)	277, 283, 304, 385, 505, 714, 748, 920, 979
FauI	CCCGC	1 cut(s)	256
FbaI	TGATCA	1 cut(s)	394
Fnu4HI	GCNGC	4 cut(s)	153, 723, 777, 873
FokI	GGATG	3 cut(s)	576, 677, 808
FriOI	GRGCYC	1 cut(s)	789
Fsp4HI	GCNGC	4 cut(s)	153, 723, 777, 873
FspBI	CTAG	2 cut(s)	260, 644
GluI	GCNGC	4 cut(s)	153, 723, 777, 873
HapII	CCGG	2 cut(s)	917, 966
Hin1II	CATG	9 cut(s)	281, 287, 308, 389, 509, 718, 752, 924, 983
HinfI	GANTC	5 cut(s)	53, 76, 578, 744, 886
HpaII	CCGG	2 cut(s)	917, 966
HphI	GGTGA	1 cut(s)	461
Hpy166II	GTNNAC	1 cut(s)	346
Hpy188I	TCNGA	4 cut(s)	46, 399, 556, 885
Hpy188III	TCNNGA	3 cut(s)	278, 485, 966
Hpy8I	GTNNAC	1 cut(s)	346
HpyAV	CCTTC	2 cut(s)	482, 856
HpyCH4III	ACNGT	2 cut(s)	224, 848
HpyCH4V	TGCA	7 cut(s)	110, 272, 287, 537, 619, 677, 924
HpyF10VI	GCNNNNNNNGC	4 cut(s)	269, 293, 422, 808
HpyF3I	CTNAG	3 cut(s)	804, 812, 890
Hsp92II	CATG	9 cut(s)	281, 287, 308, 389, 509, 718, 752, 924, 983
KflI	GGGWCCC	1 cut(s)	98
Kpn2I	TCCGGA	1 cut(s)	965
KpnI	GGTACC	1 cut(s)	500
Ksp22I	TGATCA	1 cut(s)	394
Kzo9I	GATC	1 cut(s)	394
LguI	GCTCTTC	1 cut(s)	777
LmnI	GCTCC	4 cut(s)	204, 697, 799, 834
LpnPI	CCDG	8 cut(s)	75, 96, 411, 470, 816, 930, 932, 979
Lsp1109I	GCAGC	3 cut(s)	709, 763, 859
LweI	GCATC	5 cut(s)	205, 228, 367, 390, 468
MaeI	CTAG	2 cut(s)	260, 644
MaeIII	GTNAC	2 cut(s)	434, 508
MalI	GATC	1 cut(s)	396
MboI	GATC	1 cut(s)	394
MboII	GAAGA	7 cut(s)	151, 256, 259, 386, 487, 794, 906
MhlI	GDGCHC	2 cut(s)	789, 831
MluCI	AATT	6 cut(s)	638, 658, 754, 817, 936, 1007
MlyI	GAGTC	2 cut(s)	62, 895
MmeI	TCCRAC	2 cut(s)	297, 908
MnlI	CCTC	5 cut(s)	28, 51, 360, 448, 646
Mph1103I	ATGCAT	1 cut(s)	621
MroI	TCCGGA	1 cut(s)	965
MseI	TTAA	3 cut(s)	603, 698, 939
MslI	CAYNNNNRTG	1 cut(s)	282
MspI	CCGG	2 cut(s)	917, 966
Mva1269I	GAATGC	2 cut(s)	418, 915
MwoI	GCNNNNNNNGC	4 cut(s)	269, 293, 422, 808
NdeII	GATC	1 cut(s)	394
NlaIII	CATG	9 cut(s)	281, 287, 308, 389, 509, 718, 752, 924, 983
NlaIV	GGNNCC	4 cut(s)	99, 100, 498, 801
NsiI	ATGCAT	1 cut(s)	621
NspI	RCATGY	4 cut(s)	287, 718, 924, 983
PaeI	GCATGC	2 cut(s)	924, 983
PagI	TCATGA	1 cut(s)	277
PciI	ACATGT	1 cut(s)	714
PciSI	GCTCTTC	1 cut(s)	777
PctI	GAATGC	2 cut(s)	418, 915
PfeI	GAWTC	3 cut(s)	76, 578, 744
PkrI	GCNGC	4 cut(s)	154, 724, 778, 874
PleI	GAGTC	2 cut(s)	61, 894
PpsI	GAGTC	2 cut(s)	61, 894
PpuMI	RGGWCCY	1 cut(s)	98
PscI	ACATGT	1 cut(s)	714
PshBI	ATTAAT	1 cut(s)	939
Psp124BI	GAGCTC	1 cut(s)	789
Psp5II	RGGWCCY	1 cut(s)	98
PspEI	GGTNACC	1 cut(s)	434
PspN4I	GGNNCC	4 cut(s)	99, 100, 498, 801
PspPI	GGNCC	1 cut(s)	98
PspPPI	RGGWCCY	1 cut(s)	98
PsrI	GAACNNNNNNTAC	2 cut(s)	578, 610
PstI	CTGCAG	1 cut(s)	112
RsaI	GTAC	2 cut(s)	498, 951
RsaNI	GTAC	2 cut(s)	497, 950
RseI	CAYNNNNRTG	1 cut(s)	282
SacI	GAGCTC	1 cut(s)	789
SapI	GCTCTTC	1 cut(s)	777
SaqAI	TTAA	3 cut(s)	603, 698, 939
SatI	GCNGC	4 cut(s)	153, 723, 777, 873
Sau3AI	GATC	1 cut(s)	394
Sau96I	GGNCC	1 cut(s)	98
SchI	GAGTC	2 cut(s)	62, 895
SduI	GDGCHC	2 cut(s)	789, 831
SetI	ASST	6 cut(s)	515, 739, 765, 789, 813, 951
SfaNI	GCATC	5 cut(s)	205, 228, 367, 390, 468
SfcI	CTRYAG	3 cut(s)	108, 352, 705
SinI	GGWCC	1 cut(s)	98
SmiMI	CAYNNNNRTG	1 cut(s)	282
SphI	GCATGC	2 cut(s)	924, 983
Sse9I	AATT	6 cut(s)	638, 658, 754, 817, 936, 1007
SsiI	CCGC	2 cut(s)	152, 263
SspI	AATATT	1 cut(s)	772
SspMI	CTAG	2 cut(s)	260, 644
SstI	GAGCTC	1 cut(s)	789
TaaI	ACNGT	2 cut(s)	224, 848
TaqI	TCGA	2 cut(s)	56, 742
TasI	AATT	6 cut(s)	638, 658, 754, 817, 936, 1007
TauI	GCSGC	1 cut(s)	155
TfiI	GAWTC	3 cut(s)	76, 578, 744
Tru1I	TTAA	3 cut(s)	603, 698, 939
Tru9I	TTAA	3 cut(s)	603, 698, 939
TscAI	CASTG	1 cut(s)	227
TseI	GCWGC	3 cut(s)	722, 776, 872
TspDTI	ATGAA	7 cut(s)	113, 266, 294, 599, 681, 950, 987
TspRI	CASTG	1 cut(s)	227
VpaK11BI	GGWCC	1 cut(s)	98
VspI	ATTAAT	1 cut(s)	939
XapI	RAATTY	1 cut(s)	754
XceI	RCATGY	4 cut(s)	287, 718, 924, 983
XspI	CTAG	2 cut(s)	260, 644
Zsp2I	ATGCAT	1 cut(s)	621

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