Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0009624

Physical Location & Seq

Genomic Coordinates Reverse (-)

19346722 .. 19347816

Gene Structure 1095 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG214500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGGTCTGCACTCTCGCAACCACCGACCGCTTCGCCGAGCTGGGCCATCTCATCGGTTTCATGGTTTCGAACCCATGCCCTTGTTCCGATGGTATTTTCTCTTGCCCAAGAACAGAACCCATTTTCAAATTTGCGATTAGTGCTTATTGTAGAGTAGGGAGATTGGGCGATGCTGTTAGTGCTTTTGATTCCATGAGGAAATTGATTGATGGGAAGCCTAGTGTTGTGGTTTATAACATTGTGATTAATGGGTTTGTGAAATGTGGGGCACATGATAAGGCTTTGGGGTTTTATGAGAAGATGGGGAGGGATAGAGTAAGGGGTGATGTGTTTACTTTCAATATTTTGATTAGTAGTTATTGTCGAAATTCGCAATTCGGGTTGGCTTTGGAGTTGTTTAAGGAGATGAGGGAGAAGGGGTGTAGTCCCAATGTGGTTAGTTTCAATACTTTGATTAAGGGATTCTTTAGGGAGAGGAAGTTTGAGGATGGGATTGAGATGGCTTATGAGATGATTGACTTTGGGTGCAAGTTTTCGAGTGTGACTTGTGAGATTTTGGTTGATGGACTTTGTAGAGAAGGTCGGGTTGAGGAGGCGTGTGAGCTGTTGATTGATTTCTCGAGGAAAGGAGTGTTGCCTAGATTGTATGATTACTATGGCCTTGTTGAAGTGCTTTGTGGGGAAAGAAATTCGGGGAGAGCGTTGGAGGTTGTGGATGAGCTGTGGAGGACGGGAAATGTTCCGAGCTTGATTGCTTGTACCACTTTGGTTGAGGGTTTGAGGAGGTCAGCGAAGATTGATGAAGCTTTAGAAGTGATGGAAAGGATGCTTGAAGAGGGTATGGTTCCAGATATTGTGACTTTTAATTGCCTCCTTCAAGATCTTTGCAATTTGGGGAGAACTGAGGAAGCTGATAACCTTAGGTTGTTGTCTTCGAGTAAAGGCTTGGAGCTGGACGGCATGGCGTATACCATTTTGGTGTCTGGGTATTCAAGAAAAGGGAAAAAGAAGGAGGTGAAAGTGGTGGTGGATGAGATGCTGGACATGGGATTTATACCTGATCTTGCTACATATAATAGGTTGGTTGATGGATGA

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

364

Amino Acids

40.71

Weight (kDa)

5.18

Isoelectric Point (pI)

32.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	73 - 122	1.8e-14	PPR repeat family
PPR	PF01535	76 - 105	7.4e-06	PPR repeat
PPR_3	PF13812	99 - 153	2.2e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	109 - 156	3e-18	PPR repeat family
PPR_1	PF12854	109 - 137	9.4e-09	PPR repeat
PPR	PF01535	111 - 141	6.7e-10	PPR repeat
PPR_1	PF12854	139 - 171	1.8e-07	PPR repeat
PPR_2	PF13041	143 - 192	5.9e-12	PPR repeat family
PPR_1	PF12854	175 - 203	2.9e-07	PPR repeat
PPR_3	PF13812	237 - 293	1.3e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	248 - 297	9e-10	PPR repeat family
PPR_3	PF13812	313 - 361	5.1e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	321 - 364	3.5e-07	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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Orthologous Genes (Group: OG0009624)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36240
fragaria_vesca	FvH4_6g18780
prunus_persica	Prupe.7G109800_v2.0.a1
pyrus_communis	pycom04g01140 pycom15g30020
rosa_chinensis	RchiOBHm_Chr3g0473791
rosa_laevigata	RLG00000015254 RLG00000023984
rosa_multiflora	Rmu_co8122080.1_g000001 Rmu_sc0001293.1_g000012 Rmu_sc0007035.1_g000006 Rmu_sc0007035.1_g000008
rosa_roxburghii	Rroxscaffold_1G00029320 Rroxscaffold_6G00407800
rosa_rugosa	Rorug03G0135500
rosa_samantha	Rh3BG214200 Rh3BG214500 Rh3CG210900 Rh3CG211100 Rh3DG210100 Rh3DG210300
rosa_wichuraiana	Rw3G017010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	234
AccI	GTMKAC	1 cut(s)	968
AciI	CCGC	1 cut(s)	28
AcsI	RAATTY	3 cut(s)	128, 367, 688
AfaI	GTAC	1 cut(s)	760
AgsI	TTSAA	7 cut(s)	127, 340, 445, 668, 833, 878, 993
AluBI	AGCT	7 cut(s)	40, 604, 721, 747, 806, 911, 952
AluI	AGCT	7 cut(s)	40, 604, 721, 747, 806, 911, 952
Ama87I	CYCGRG	1 cut(s)	619
AoxI	GGCC	2 cut(s)	43, 658
ApoI	RAATTY	3 cut(s)	128, 367, 688
AseI	ATTAAT	1 cut(s)	246
AspS9I	GGNCC	1 cut(s)	43
AsuHPI	GGTGA	2 cut(s)	335, 1027
AsuII	TTCGAA	1 cut(s)	68
AvaI	CYCGRG	1 cut(s)	619
AxyI	CCTNAGG	1 cut(s)	920
BaeGI	GKGCMC	1 cut(s)	271
BbsI	GAAGAC	1 cut(s)	924
BccI	CCATC	9 cut(s)	54, 83, 203, 295, 482, 493, 557, 811, 1082
BceAI	ACGGC	1 cut(s)	973
BfaI	CTAG	2 cut(s)	219, 639
BglII	AGATCT	1 cut(s)	880
BmeT110I	CYCGRG	1 cut(s)	619
BmgT120I	GGNCC	1 cut(s)	43
BmiI	GGNNCC	1 cut(s)	846
BmsI	GCATC	3 cut(s)	160, 816, 1026
BpiI	GAAGAC	1 cut(s)	924
Bpu14I	TTCGAA	1 cut(s)	68
BsaXI	ACNNNNNCTCC	4 cut(s)	404, 434, 464, 494
Bse21I	CCTNAGG	1 cut(s)	920
BseGI	GGATG	4 cut(s)	493, 721, 831, 1036
BseMII	CTCAG	1 cut(s)	894
BseRI	GAGGAG	2 cut(s)	605, 796
BseSI	GKGCMC	1 cut(s)	271
BseYI	CCCAGC	1 cut(s)	40
Bsh1285I	CGRYCG	1 cut(s)	28
BshFI	GGCC	2 cut(s)	45, 660
BsiEI	CGRYCG	1 cut(s)	28
BsiHKCI	CYCGRG	1 cut(s)	619
BslFI	GGGAC	1 cut(s)	411
BsmFI	GGGAC	1 cut(s)	411
BsnI	GGCC	2 cut(s)	45, 660
BsoBI	CYCGRG	1 cut(s)	619
Bsp119I	TTCGAA	1 cut(s)	68
Bsp1286I	GDGCHC	1 cut(s)	271
Bsp143I	GATC	2 cut(s)	880, 1060
BspACI	CCGC	1 cut(s)	28
BspANI	GGCC	2 cut(s)	45, 660
BspCNI	CTCAG	1 cut(s)	895
BspLI	GGNNCC	1 cut(s)	846
BspT104I	TTCGAA	1 cut(s)	68
BssMI	GATC	2 cut(s)	880, 1060
BssNAI	GTATAC	1 cut(s)	969
Bst1107I	GTATAC	1 cut(s)	969
Bst6I	CTCTTC	1 cut(s)	828
BstBI	TTCGAA	1 cut(s)	68
BstDEI	CTNAG	2 cut(s)	903, 920
BstF5I	GGATG	4 cut(s)	493, 721, 831, 1036
BstKTI	GATC	2 cut(s)	883, 1063
BstMBI	GATC	2 cut(s)	880, 1060
BstMCI	CGRYCG	1 cut(s)	28
BstMWI	GCNNNNNNNGC	2 cut(s)	140, 179
BstSLI	GKGCMC	1 cut(s)	271
BstV2I	GAAGAC	1 cut(s)	924
BstX2I	RGATCY	1 cut(s)	880
BstYI	RGATCY	1 cut(s)	880
BstZ17I	GTATAC	1 cut(s)	969
Bsu36I	CCTNAGG	1 cut(s)	920
BsuRI	GGCC	2 cut(s)	45, 660
BtgZI	GCGATG	1 cut(s)	183
BtsCI	GGATG	4 cut(s)	493, 721, 831, 1036
Cfr13I	GGNCC	1 cut(s)	43
Csp6I	GTAC	1 cut(s)	759
CspCI	CAANNNNNGTGG	2 cut(s)	751, 786
CviAII	CATG	6 cut(s)	61, 75, 193, 272, 961, 1045
CviQI	GTAC	1 cut(s)	759
DdeI	CTNAG	2 cut(s)	903, 920
DpnI	GATC	2 cut(s)	882, 1062
DpnII	GATC	2 cut(s)	880, 1060
Eam1104I	CTCTTC	1 cut(s)	828
EarI	CTCTTC	1 cut(s)	828
Eco81I	CCTNAGG	1 cut(s)	920
Eco88I	CYCGRG	1 cut(s)	619
FaeI	CATG	6 cut(s)	64, 78, 196, 275, 964, 1048
FalI	AAGNNNNNCTT	2 cut(s)	449, 481
FaqI	GGGAC	1 cut(s)	411
FatI	CATG	6 cut(s)	60, 74, 192, 271, 960, 1044
FblI	GTMKAC	1 cut(s)	968
FokI	GGATG	4 cut(s)	500, 728, 838, 1043
FspBI	CTAG	2 cut(s)	219, 639
GsaI	CCCAGC	1 cut(s)	44
HaeIII	GGCC	2 cut(s)	45, 660
Hin1II	CATG	6 cut(s)	64, 78, 196, 275, 964, 1048
HindIII	AAGCTT	1 cut(s)	804
HinfI	GANTC	2 cut(s)	188, 462
HphI	GGTGA	2 cut(s)	335, 1027
Hpy166II	GTNNAC	2 cut(s)	333, 969
Hpy188I	TCNGA	2 cut(s)	88, 744
Hpy188III	TCNNGA	4 cut(s)	619, 848, 878, 993
Hpy8I	GTNNAC	2 cut(s)	333, 969
HpyAV	CCTTC	4 cut(s)	409, 572, 884, 1003
HpyCH4V	TGCA	3 cut(s)	9, 528, 888
HpyF10VI	GCNNNNNNNGC	2 cut(s)	140, 179
HpyF3I	CTNAG	2 cut(s)	903, 920
Hsp92II	CATG	6 cut(s)	64, 78, 196, 275, 964, 1048
Kzo9I	GATC	2 cut(s)	880, 1060
LmnI	GCTCC	1 cut(s)	949
LpnPI	CCDG	6 cut(s)	26, 861, 938, 969, 1025, 1071
LweI	GCATC	3 cut(s)	160, 816, 1026
MaeI	CTAG	2 cut(s)	219, 639
MaeIII	GTNAC	2 cut(s)	541, 856
MalI	GATC	2 cut(s)	882, 1062
MboI	GATC	2 cut(s)	880, 1060
MboII	GAAGA	4 cut(s)	310, 805, 845, 924
MflI	RGATCY	1 cut(s)	880
MhlI	GDGCHC	1 cut(s)	271
MluCI	AATT	7 cut(s)	128, 200, 367, 374, 688, 865, 889
MmeI	TCCRAC	1 cut(s)	684
MseI	TTAA	4 cut(s)	246, 399, 456, 864
MslI	CAYNNNNRTG	1 cut(s)	977
MwoI	GCNNNNNNNGC	2 cut(s)	140, 179
NdeII	GATC	2 cut(s)	880, 1060
NlaIII	CATG	6 cut(s)	64, 78, 196, 275, 964, 1048
NlaIV	GGNNCC	1 cut(s)	846
NmeAIII	GCCGAG	1 cut(s)	61
NmuCI	GTSAC	2 cut(s)	541, 856
NspV	TTCGAA	1 cut(s)	68
PaeR7I	CTCGAG	1 cut(s)	619
PcsI	WCGNNNNNNNCGW	2 cut(s)	21, 698
PfeI	GAWTC	2 cut(s)	188, 462
PshBI	ATTAAT	1 cut(s)	246
PsiI	TTATAA	1 cut(s)	234
PspFI	CCCAGC	1 cut(s)	40
PspN4I	GGNNCC	1 cut(s)	846
PspPI	GGNCC	1 cut(s)	43
PsuI	RGATCY	1 cut(s)	880
RsaI	GTAC	1 cut(s)	760
RsaNI	GTAC	1 cut(s)	759
RseI	CAYNNNNRTG	1 cut(s)	977
SaqAI	TTAA	4 cut(s)	246, 399, 456, 864
Sau3AI	GATC	2 cut(s)	880, 1060
Sau96I	GGNCC	1 cut(s)	43
SduI	GDGCHC	1 cut(s)	271
SfaNI	GCATC	3 cut(s)	160, 816, 1026
Sfr274I	CTCGAG	1 cut(s)	619
SfuI	TTCGAA	1 cut(s)	68
SlaI	CTCGAG	1 cut(s)	619
SmiMI	CAYNNNNRTG	1 cut(s)	977
SmlI	CTYRAG	1 cut(s)	619
SmoI	CTYRAG	1 cut(s)	619
Sse9I	AATT	7 cut(s)	128, 200, 367, 374, 688, 865, 889
SsiI	CCGC	1 cut(s)	28
SspI	AATATT	1 cut(s)	343
SspMI	CTAG	2 cut(s)	219, 639
TaqI	TCGA	5 cut(s)	68, 364, 536, 620, 935
TasI	AATT	7 cut(s)	128, 200, 367, 374, 688, 865, 889
TfiI	GAWTC	2 cut(s)	188, 462
Tru1I	TTAA	4 cut(s)	246, 399, 456, 864
Tru9I	TTAA	4 cut(s)	246, 399, 456, 864
TseFI	GTSAC	2 cut(s)	541, 856
Tsp45I	GTSAC	2 cut(s)	541, 856
TspDTI	ATGAA	2 cut(s)	49, 816
VspI	ATTAAT	1 cut(s)	246
XapI	RAATTY	3 cut(s)	128, 367, 688
XhoI	CTCGAG	1 cut(s)	619
XmiI	GTMKAC	1 cut(s)	968
XspI	CTAG	2 cut(s)	219, 639

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