Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0002518

Physical Location & Seq

Genomic Coordinates Forward (+)

7480067 .. 7480975

Gene Structure 909 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG090800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 909 bp

ATGGGTGAGAGGAATCTTGTTTCCTGGAACTCGATGATTTCGTGCTTAGCGCACTGTGGGAGGGACAGTGAAGCTTTGGGGGTTTTTAATGAGATGAGGGAGCAGAGTTTTGAACCGGACGAGGCTACTGTGGTGTCGGTTTTGCCTGCCTGCGCTCGGTTAGGGGATGTTGATGTTGGGAAATGGATACACTCTTATGCAGATTCTAAAGGACTTCTGCAAGAAGTTGTATCTGTGGGGAACTCGCTTGTGAGTTTTTACTGTAAATGTGGAGATTTGGATGCTGCGTCTAGTGTTTTTGACCGAATGGCGCAGAAGAATGTTGTTTCCTGGAACTCTTTGATTTCGGGGTATGCTTTCAATGGGAGAGGTGAACTTGGGATCAACTTGTTCGAGGAGATGATGAACGCAGATGAGAAACCAAACGATGCCACGTTTGTTGGGGCATTAACATGCTGTGCGCATGCAGGCTTGGTTGAAAAGGGAAGGGATTTGTTTGCTTCAATGACTGAAACTCACCGAATTGAGCCGAAACTAGAGCATTACGGATGCATGGTTGATGTTCTTGGCAGAAGTGGATGTCTGAAGGAGGCTCATGACTTGATCAAGAGCATGCCTATGAAACCAAATGCTGCCTTATGGGGTGCACTGCTTGGTGCTTGCTCTACTCACGGTGAAGTAAAGCTTGCGGAACTTGCAGCTAAAGAGCTTATTGATGTTGAACCGTGGAATTCTGGGAATTACGTGTTGTTATCCAATATTTACGCAGAAGAAGGCCGGTGGGATGAAGTTGAGAAAGTCAGGGACTTGATGAAGGAAAACTGCATCACAAAAGCACCCGGACAGAGTGCCATTGGAAAGGATGTTTATGATGAGGAAAAGCAGAGCTATCGACTTAAGCAAGCCTGA

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

302

Amino Acids

33.16

Weight (kDa)

4.95

Isoelectric Point (pI)

38.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	5 - 53	3.7e-10	PPR repeat family
PPR	PF01535	7 - 35	3.9e-08	PPR repeat
PPR_2	PF13041	106 - 154	1.7e-10	PPR repeat family
PPR	PF01535	109 - 136	1e-06	PPR repeat
E_motif	PF20431	224 - 285	8.3e-22	E motif

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: OG0002518)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09190
fragaria_vesca	FvH4_1g08040
malus_domestica	MD02G1085000.v1.1
prunus_persica	Prupe.7G204600_v2.0.a1
pyrus_communis	pycom02g06780 pycom02g20400
rosa_chinensis	RchiOBHm_Chr1g0349371 RchiOBHm_Chr1g0365421 RchiOBHm_Chr2g0094071 RchiOBHm_Chr2g0100501 RchiOBHm_Chr2g0145241 RchiOBHm_Chr5g0027681
rosa_laevigata	RLG00000016453 RLG00000016978 RLG00000028565
rosa_multiflora	Rmu_sc0000528.1_g000021 Rmu_sc0001942.1_g000078 Rmu_sc0001989.1_g000005 Rmu_sc0001989.1_g000006 Rmu_sc0002834.1_g000001 Rmu_sc0010460.1_g000009 Rmu_sc0015757.1_g000001 Rmu_sc0023774.1_g000001 Rmu_ssc0000469.1_g000004
rosa_roxburghii	Rroxscaffold_1G00065660 Rroxscaffold_2G00147500
rosa_rugosa	Rorug01G0191200 Rorug01G0245800 Rorug01G0404500 Rorug02G0040700 Rorug02G0042900 Rorug02G0088700 Rorug02G0306900 Rorug02G0425200 RorugPtG0000800
rosa_samantha	Rh1BG121500 Rh2BG141500 Rh2BG455200 Rh2CG090800 Rh2CG143700 Rh2DG465200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	462
AciI	CCGC	1 cut(s)	689
AclWI	GGATC	1 cut(s)	389
AcsI	RAATTY	1 cut(s)	730
AcuI	CTGAAG	1 cut(s)	605
AfiI	CCNNNNNNNGG	1 cut(s)	156
AflII	CTTAAG	1 cut(s)	896
AflIII	ACRYGT	1 cut(s)	744
AgsI	TTSAA	5 cut(s)	113, 361, 479, 504, 722
AjnI	CCWGG	2 cut(s)	23, 329
AluBI	AGCT	5 cut(s)	74, 685, 701, 709, 888
AluI	AGCT	5 cut(s)	74, 685, 701, 709, 888
Alw21I	GWGCWC	1 cut(s)	649
Alw44I	GTGCAC	1 cut(s)	645
AlwI	GGATC	1 cut(s)	389
AoxI	GGCC	1 cut(s)	775
ApaLI	GTGCAC	1 cut(s)	645
ApeKI	GCWGC	3 cut(s)	284, 632, 698
ApoI	RAATTY	1 cut(s)	730
AspLEI	GCGC	4 cut(s)	52, 155, 313, 463
AsuC2I	CCSGG	1 cut(s)	840
AsuHPI	GGTGA	4 cut(s)	17, 383, 509, 686
BaeGI	GKGCMC	1 cut(s)	649
Bbv12I	GWGCWC	1 cut(s)	649
BbvI	GCAGC	3 cut(s)	271, 619, 710
BcgI	CGANNNNNNTGC	2 cut(s)	872, 906
BciT130I	CCWGG	2 cut(s)	25, 331
BciVI	GTATCC	1 cut(s)	180
BclI	TGATCA	1 cut(s)	603
BcnI	CCSGG	1 cut(s)	840
BfaI	CTAG	2 cut(s)	291, 536
BfrI	CTTAAG	1 cut(s)	896
BfuI	GTATCC	1 cut(s)	180
BisI	GCNGC	3 cut(s)	285, 633, 699
BlpI	GCTNAGC	1 cut(s)	46
BlsI	GCNGC	3 cut(s)	286, 634, 700
Bme1390I	CCNGG	3 cut(s)	25, 331, 840
BmrFI	CCNGG	3 cut(s)	25, 331, 840
BmsI	GCATC	4 cut(s)	271, 418, 539, 834
Bpu1102I	GCTNAGC	1 cut(s)	46
BpuMI	CCSGG	1 cut(s)	840
BsaAI	YACGTR	1 cut(s)	745
BsaJI	CCNNGG	1 cut(s)	725
BsaWI	WCCGGW	1 cut(s)	115
BsaXI	ACNNNNNCTCC	2 cut(s)	52, 82
Bsc4I	CCNNNNNNNGG	1 cut(s)	156
Bse118I	RCCGGY	1 cut(s)	777
BseBI	CCWGG	2 cut(s)	25, 331
BseDI	CCNNGG	1 cut(s)	725
BseGI	GGATG	6 cut(s)	172, 286, 554, 584, 790, 868
BseLI	CCNNNNNNNGG	1 cut(s)	156
BseRI	GAGGAG	1 cut(s)	410
BseSI	GKGCMC	1 cut(s)	649
BseXI	GCAGC	3 cut(s)	271, 619, 710
BshFI	GGCC	1 cut(s)	777
BsiHKAI	GWGCWC	1 cut(s)	649
BsiSI	CCGG	3 cut(s)	116, 778, 840
BslFI	GGGAC	2 cut(s)	77, 818
BslI	CCNNNNNNNGG	1 cut(s)	156
BsmFI	GGGAC	2 cut(s)	77, 818
BsnI	GGCC	1 cut(s)	777
Bsp1286I	GDGCHC	1 cut(s)	649
Bsp143I	GATC	2 cut(s)	381, 603
Bsp1720I	GCTNAGC	1 cut(s)	46
BspACI	CCGC	1 cut(s)	689
BspANI	GGCC	1 cut(s)	777
BspHI	TCATGA	1 cut(s)	595
BspPI	GGATC	1 cut(s)	389
BspTI	CTTAAG	1 cut(s)	896
BsrFI	RCCGGY	1 cut(s)	777
BssAI	RCCGGY	1 cut(s)	777
BssECI	CCNNGG	1 cut(s)	725
BssMI	GATC	2 cut(s)	381, 603
Bst2UI	CCWGG	2 cut(s)	25, 331
Bst4CI	ACNGT	6 cut(s)	56, 68, 130, 263, 674, 726
BstAFI	CTTAAG	1 cut(s)	896
BstBAI	YACGTR	1 cut(s)	745
BstC8I	GCNNGC	8 cut(s)	147, 151, 465, 469, 614, 661, 687, 903
BstDEI	CTNAG	1 cut(s)	46
BstDSI	CCRYGG	1 cut(s)	725
BstF5I	GGATG	6 cut(s)	172, 286, 554, 584, 790, 868
BstHHI	GCGC	4 cut(s)	52, 155, 313, 463
BstKTI	GATC	2 cut(s)	384, 606
BstMBI	GATC	2 cut(s)	381, 603
BstMWI	GCNNNNNNNGC	1 cut(s)	695
BstNI	CCWGG	2 cut(s)	25, 331
BstNSI	RCATGY	3 cut(s)	456, 467, 616
BstSCI	CCNGG	3 cut(s)	23, 329, 838
BstSLI	GKGCMC	1 cut(s)	649
BstV1I	GCAGC	3 cut(s)	271, 619, 710
BsuI	GTATCC	1 cut(s)	180
BsuRI	GGCC	1 cut(s)	777
BtgI	CCRYGG	1 cut(s)	725
BtsCI	GGATG	6 cut(s)	172, 286, 554, 584, 790, 868
BtsI	GCAGTG	1 cut(s)	647
BtsIMutI	CAGTG	3 cut(s)	52, 73, 647
Cac8I	GCNNGC	8 cut(s)	147, 151, 465, 469, 614, 661, 687, 903
CciI	TCATGA	1 cut(s)	595
CfoI	GCGC	4 cut(s)	52, 155, 313, 463
Cfr10I	RCCGGY	1 cut(s)	777
CseI	GACGC	1 cut(s)	276
CspCI	CAANNNNNGTGG	2 cut(s)	421, 456
CviAII	CATG	5 cut(s)	453, 464, 553, 596, 613
DdeI	CTNAG	1 cut(s)	46
DpnI	GATC	2 cut(s)	383, 605
DpnII	GATC	2 cut(s)	381, 603
Eco57I	CTGAAG	1 cut(s)	605
EcoRI	GAATTC	1 cut(s)	730
EcoRII	CCWGG	2 cut(s)	23, 329
EcoT22I	ATGCAT	1 cut(s)	554
FaeI	CATG	5 cut(s)	456, 467, 556, 599, 616
FalI	AAGNNNNNCTT	2 cut(s)	669, 701
FaqI	GGGAC	2 cut(s)	77, 818
FatI	CATG	5 cut(s)	452, 463, 552, 595, 612
FbaI	TGATCA	1 cut(s)	603
Fnu4HI	GCNGC	3 cut(s)	285, 633, 699
FokI	GGATG	6 cut(s)	179, 293, 561, 591, 797, 875
Fsp4HI	GCNGC	3 cut(s)	285, 633, 699
FspAI	RTGCGCAY	1 cut(s)	462
FspBI	CTAG	2 cut(s)	291, 536
FspI	TGCGCA	1 cut(s)	462
GlaI	GCGC	4 cut(s)	51, 154, 312, 462
GluI	GCNGC	3 cut(s)	285, 633, 699
HaeIII	GGCC	1 cut(s)	777
HapII	CCGG	3 cut(s)	116, 778, 840
HgaI	GACGC	1 cut(s)	276
HhaI	GCGC	4 cut(s)	52, 155, 313, 463
Hin1II	CATG	5 cut(s)	456, 467, 556, 599, 616
Hin6I	GCGC	4 cut(s)	50, 153, 311, 461
HinP1I	GCGC	4 cut(s)	50, 153, 311, 461
HindIII	AAGCTT	2 cut(s)	72, 683
HinfI	GANTC	2 cut(s)	13, 203
HpaII	CCGG	3 cut(s)	116, 778, 840
HphI	GGTGA	4 cut(s)	17, 383, 509, 686
Hpy166II	GTNNAC	2 cut(s)	374, 647
Hpy188I	TCNGA	1 cut(s)	585
Hpy188III	TCNNGA	2 cut(s)	596, 607
Hpy8I	GTNNAC	2 cut(s)	374, 647
HpyAV	CCTTC	4 cut(s)	480, 580, 767, 808
HpyCH4III	ACNGT	6 cut(s)	56, 68, 130, 263, 674, 726
HpyCH4IV	ACGT	2 cut(s)	434, 744
HpyCH4V	TGCA	7 cut(s)	200, 220, 467, 552, 647, 698, 825
HpyF10VI	GCNNNNNNNGC	1 cut(s)	695
HpyF3I	CTNAG	1 cut(s)	46
HpySE526I	ACGT	2 cut(s)	434, 744
Hsp92II	CATG	5 cut(s)	456, 467, 556, 599, 616
HspAI	GCGC	4 cut(s)	50, 153, 311, 461
Ksp22I	TGATCA	1 cut(s)	603
Kzo9I	GATC	2 cut(s)	381, 603
LmnI	GCTCC	1 cut(s)	100
Lsp1109I	GCAGC	3 cut(s)	271, 619, 710
LweI	GCATC	4 cut(s)	271, 418, 539, 834
MaeI	CTAG	2 cut(s)	291, 536
MaeII	ACGT	2 cut(s)	434, 744
MalI	GATC	2 cut(s)	383, 605
MboI	GATC	2 cut(s)	381, 603
MboII	GAAGA	2 cut(s)	328, 782
MhlI	GDGCHC	1 cut(s)	649
MluCI	AATT	3 cut(s)	522, 730, 739
MnlI	CCTC	8 cut(s)	3, 54, 90, 115, 362, 388, 583, 868
Mph1103I	ATGCAT	1 cut(s)	554
MseI	TTAA	3 cut(s)	87, 449, 897
MslI	CAYNNNNRTG	3 cut(s)	195, 451, 617
MspCI	CTTAAG	1 cut(s)	896
MspI	CCGG	3 cut(s)	116, 778, 840
MspR9I	CCNGG	3 cut(s)	25, 331, 840
MvaI	CCWGG	2 cut(s)	25, 331
MwoI	GCNNNNNNNGC	1 cut(s)	695
NciI	CCSGG	1 cut(s)	840
NdeII	GATC	2 cut(s)	381, 603
NlaIII	CATG	5 cut(s)	456, 467, 556, 599, 616
NsbI	TGCGCA	1 cut(s)	462
NsiI	ATGCAT	1 cut(s)	554
NspI	RCATGY	3 cut(s)	456, 467, 616
PaeI	GCATGC	2 cut(s)	467, 616
PagI	TCATGA	1 cut(s)	595
PcsI	WCGNNNNNNNCGW	1 cut(s)	38
PfeI	GAWTC	2 cut(s)	13, 203
PfoI	TCCNGGA	2 cut(s)	23, 329
PkrI	GCNGC	3 cut(s)	286, 634, 700
Ppu21I	YACGTR	1 cut(s)	745
Psp6I	CCWGG	2 cut(s)	23, 329
PspGI	CCWGG	2 cut(s)	23, 329
RseI	CAYNNNNRTG	3 cut(s)	195, 451, 617
SaqAI	TTAA	3 cut(s)	87, 449, 897
SatI	GCNGC	3 cut(s)	285, 633, 699
Sau3AI	GATC	2 cut(s)	381, 603
ScrFI	CCNGG	3 cut(s)	25, 331, 840
SduI	GDGCHC	1 cut(s)	649
SetI	ASST	8 cut(s)	76, 373, 437, 687, 703, 711, 747, 890
SfaNI	GCATC	4 cut(s)	271, 418, 539, 834
SmiMI	CAYNNNNRTG	3 cut(s)	195, 451, 617
SmlI	CTYRAG	1 cut(s)	896
SmoI	CTYRAG	1 cut(s)	896
SphI	GCATGC	2 cut(s)	467, 616
Sse9I	AATT	3 cut(s)	522, 730, 739
SsiI	CCGC	1 cut(s)	689
SspI	AATATT	1 cut(s)	760
SspMI	CTAG	2 cut(s)	291, 536
StyD4I	CCNGG	3 cut(s)	23, 329, 838
TaaI	ACNGT	6 cut(s)	56, 68, 130, 263, 674, 726
TaiI	ACGT	2 cut(s)	437, 747
TaqI	TCGA	3 cut(s)	32, 393, 892
TaqII	GACCGA	1 cut(s)	318
TasI	AATT	3 cut(s)	522, 730, 739
TfiI	GAWTC	2 cut(s)	13, 203
Tru1I	TTAA	3 cut(s)	87, 449, 897
Tru9I	TTAA	3 cut(s)	87, 449, 897
TscAI	CASTG	3 cut(s)	59, 73, 654
TseI	GCWGC	3 cut(s)	284, 632, 698
TspDTI	ATGAA	4 cut(s)	419, 635, 801, 827
TspGWI	ACGGA	1 cut(s)	561
TspRI	CASTG	3 cut(s)	59, 73, 654
Vha464I	CTTAAG	1 cut(s)	896
VneI	GTGCAC	1 cut(s)	645
XapI	RAATTY	1 cut(s)	730
XceI	RCATGY	3 cut(s)	456, 467, 616
XspI	CTAG	2 cut(s)	291, 536
Zsp2I	ATGCAT	1 cut(s)	554

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