Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0016098

Physical Location & Seq

Genomic Coordinates Forward (+)

3727761 .. 3729575

Gene Structure 1815 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G004260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 870 bp

ATGGAAACCATTCTTTCTTCTCCCTCACTCTCTCCTCTCTTCAACCAAAAACTCTCCTCTCTCCCACCCAATTCAAAGTCCCTGTTCCTCACAAAACCCATCATCAATTCAAGCCTCAAAAAGCACTCTGTCCAATCCATTGAAGCATCTTCACCAACAATACCCACAAGCTGGTTTTCTCATGCTCAACAAGGACTAGCTGCTCTTGCACTTTCTTTGGCTCTAAGCTTTTCCCCAGTCTTGACTAGTGGCAATGCACTAGCTTCTGAGTTTGATGTGATCAATGAGGGGCCACCCAAAGGCTCCTATGTTGTTGATGATGCAGGTGTGCTTAGTCGGGTGACCAAATCTGATGTGAAGCGATTGTTACAAGACTTGGAAGATAGGAAGAACTTCCACATCAATTTCATCACTGTCAGAAAGCTCACTAGCAAAGCTGATGCTTTTGAGTATGCTGACCAAGTTTTAGAGAAGTGGTACCCTTCAGTTGAGGAGGGCAACAACAAGGGCATTGTTGTCCTTGTCACCAGTCAAAAAGAAGGAGCAATCACAGGTGGACCTGCATTTGTTCAAGCTGTGGGAGAAGGTGTCCTTGATGCAACTGTATCAGAGAACCTTCCTGTCTTGGCTACTGAGGAGAAGTACAATGAAGCTATTTACAGTAGCGCAAAACGGATAGTAGCTGCCATTGATGGACTTCCAGATCCTGGTGGACCAAAGCTTAACGAAAACAAGCGTGAATCCAACTTCAAAACCAAGGAAGAGACAGAAGAGAAACGAGGACAGTTCACTCTTGTAGTTGGAGGATTGTTAGTGATTGCTTTTGTTGTTCCCATGGCACAATACTATGCTTATGTCTCTAGGAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0003993 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006091 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009765 GO:0009987 GO:0010206 GO:0015979 GO:0016020 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019538 GO:0019684 GO:0030091 GO:0031976 GO:0031977 GO:0031984 GO:0034357 GO:0042578 GO:0042651 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0055035 GO:0071704 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TPM_phosphatase

Protein Analysis

289

Amino Acids

31.3

Weight (kDa)

6.02

Isoelectric Point (pI)

44.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPM_phosphatase	PF04536	104 - 228	3.2e-21	TPM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0016098)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G54780
fragaria_vesca	FvH4_6g05320
malus_domestica	MD04G1209400.v1.1 MD12G1224000.v1.1
prunus_persica	Prupe.6G330400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0454061
rosa_laevigata	RLG00000025485
rosa_multiflora	Rmu_sc0040155.1_g000001
rosa_roxburghii	Rroxscaffold_6G00430870
rosa_rugosa	Rorug02G0652900
rosa_samantha	Rh3AG055600 Rh3BG057000 Rh3CG056300 Rh3DG057600
rosa_wichuraiana	Rw3G004260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	314
Acc36I	ACCTGC	2 cut(s)	314, 568
Acc65I	GGTACC	1 cut(s)	477
AccB1I	GGYRCC	1 cut(s)	477
AccB7I	CCANNNNNTGG	2 cut(s)	171, 707
AclWI	GGATC	1 cut(s)	698
AcuI	CTGAAG	1 cut(s)	468
AfaI	GTAC	2 cut(s)	479, 644
AfiI	CCNNNNNNNGG	3 cut(s)	171, 299, 707
AgsI	TTSAA	6 cut(s)	43, 75, 111, 143, 572, 751
AhlI	ACTAGT	1 cut(s)	245
AjnI	CCWGG	1 cut(s)	706
Alw26I	GTCTC	2 cut(s)	758, 862
AlwI	GGATC	1 cut(s)	698
AlwNI	CAGNNNCTG	1 cut(s)	707
AoxI	GGCC	1 cut(s)	290
ApeKI	GCWGC	2 cut(s)	200, 683
Asp700I	GAANNNNTTC	2 cut(s)	9, 392
Asp718I	GGTACC	1 cut(s)	477
AspLEI	GCGC	1 cut(s)	668
AspS9I	GGNCC	3 cut(s)	290, 557, 713
AsuHPI	GGTGA	3 cut(s)	144, 352, 517
AvaII	GGWCC	2 cut(s)	557, 713
BanI	GGYRCC	1 cut(s)	477
BbvI	GCAGC	2 cut(s)	187, 670
BccI	CCATC	2 cut(s)	107, 686
BciT130I	CCWGG	1 cut(s)	708
BclI	TGATCA	1 cut(s)	279
BcoDI	GTCTC	2 cut(s)	758, 862
BcuI	ACTAGT	1 cut(s)	245
BfaI	CTAG	5 cut(s)	197, 246, 260, 429, 861
BfuAI	ACCTGC	2 cut(s)	314, 568
BisI	GCNGC	2 cut(s)	201, 684
BlsI	GCNGC	2 cut(s)	202, 685
Bme1390I	CCNGG	1 cut(s)	708
Bme18I	GGWCC	2 cut(s)	557, 713
BmgT120I	GGNCC	3 cut(s)	290, 557, 713
BmiI	GGNNCC	3 cut(s)	291, 304, 479
BmrFI	CCNGG	1 cut(s)	708
BmrI	ACTGGG	1 cut(s)	230
BmsI	GCATC	4 cut(s)	155, 310, 430, 586
BmuI	ACTGGG	1 cut(s)	230
BsaJI	CCNNGG	2 cut(s)	756, 834
BsaXI	ACNNNNNCTCC	2 cut(s)	573, 603
Bsc4I	CCNNNNNNNGG	3 cut(s)	171, 299, 707
Bse1I	ACTGG	2 cut(s)	236, 528
Bse3DI	GCAATG	1 cut(s)	259
BseBI	CCWGG	1 cut(s)	708
BseDI	CCNNGG	2 cut(s)	756, 834
BseLI	CCNNNNNNNGG	3 cut(s)	171, 299, 707
BseMI	GCAATG	1 cut(s)	259
BseMII	CTCAG	2 cut(s)	258, 624
BseNI	ACTGG	2 cut(s)	236, 528
BseRI	GAGGAG	4 cut(s)	24, 46, 506, 650
BseXI	GCAGC	2 cut(s)	187, 670
BshFI	GGCC	1 cut(s)	292
BshNI	GGYRCC	1 cut(s)	477
BslFI	GGGAC	1 cut(s)	64
BslI	CCNNNNNNNGG	3 cut(s)	171, 299, 707
BsmAI	GTCTC	2 cut(s)	758, 862
BsmFI	GGGAC	1 cut(s)	64
BsnI	GGCC	1 cut(s)	292
Bsp143I	GATC	2 cut(s)	279, 703
Bsp19I	CCATGG	1 cut(s)	834
BspANI	GGCC	1 cut(s)	292
BspCNI	CTCAG	2 cut(s)	259, 625
BspLI	GGNNCC	3 cut(s)	291, 304, 479
BspMI	ACCTGC	2 cut(s)	314, 568
BspPI	GGATC	1 cut(s)	698
BspT107I	GGYRCC	1 cut(s)	477
BsrDI	GCAATG	1 cut(s)	259
BsrI	ACTGG	2 cut(s)	236, 528
BssECI	CCNNGG	2 cut(s)	756, 834
BssMI	GATC	2 cut(s)	279, 703
BssT1I	CCWWGG	2 cut(s)	756, 834
Bst2UI	CCWGG	1 cut(s)	708
Bst4CI	ACNGT	4 cut(s)	415, 604, 662, 786
Bst6I	CTCTTC	3 cut(s)	44, 756, 765
BstDEI	CTNAG	4 cut(s)	224, 267, 332, 633
BstDSI	CCRYGG	1 cut(s)	834
BstEII	GGTNACC	1 cut(s)	340
BstHHI	GCGC	1 cut(s)	668
BstKTI	GATC	2 cut(s)	282, 706
BstMAI	GTCTC	2 cut(s)	758, 862
BstMBI	GATC	2 cut(s)	279, 703
BstMWI	GCNNNNNNNGC	1 cut(s)	206
BstNI	CCWGG	1 cut(s)	708
BstPI	GGTNACC	1 cut(s)	340
BstSCI	CCNGG	1 cut(s)	706
BstV1I	GCAGC	2 cut(s)	187, 670
BstX2I	RGATCY	1 cut(s)	703
BstYI	RGATCY	1 cut(s)	703
BsuRI	GGCC	1 cut(s)	292
BtgI	CCRYGG	1 cut(s)	834
BtsIMutI	CAGTG	1 cut(s)	411
BveI	ACCTGC	2 cut(s)	314, 568
CaiI	CAGNNNCTG	1 cut(s)	707
CfoI	GCGC	1 cut(s)	668
Cfr13I	GGNCC	3 cut(s)	290, 557, 713
Csp6I	GTAC	2 cut(s)	478, 643
CviAII	CATG	2 cut(s)	182, 835
CviQI	GTAC	2 cut(s)	478, 643
DdeI	CTNAG	4 cut(s)	224, 267, 332, 633
DpnI	GATC	2 cut(s)	281, 705
DpnII	GATC	2 cut(s)	279, 703
Eam1104I	CTCTTC	3 cut(s)	44, 756, 765
EarI	CTCTTC	3 cut(s)	44, 756, 765
Eco130I	CCWWGG	2 cut(s)	756, 834
Eco47I	GGWCC	2 cut(s)	557, 713
Eco57I	CTGAAG	1 cut(s)	468
Eco91I	GGTNACC	1 cut(s)	340
EcoO65I	GGTNACC	1 cut(s)	340
EcoRII	CCWGG	1 cut(s)	706
EcoT14I	CCWWGG	2 cut(s)	756, 834
ErhI	CCWWGG	2 cut(s)	756, 834
FaeI	CATG	2 cut(s)	185, 838
FaiI	YATR	6 cut(s)	183, 309, 453, 836, 849, 855
FalI	AAGNNNNNCTT	2 cut(s)	576, 608
FaqI	GGGAC	1 cut(s)	64
FatI	CATG	2 cut(s)	181, 834
FbaI	TGATCA	1 cut(s)	279
Fnu4HI	GCNGC	2 cut(s)	201, 684
Fsp4HI	GCNGC	2 cut(s)	201, 684
FspBI	CTAG	5 cut(s)	197, 246, 260, 429, 861
GlaI	GCGC	1 cut(s)	667
GluI	GCNGC	2 cut(s)	201, 684
HaeIII	GGCC	1 cut(s)	292
HhaI	GCGC	1 cut(s)	668
Hin1II	CATG	2 cut(s)	185, 838
Hin6I	GCGC	1 cut(s)	666
HinP1I	GCGC	1 cut(s)	666
HindIII	AAGCTT	2 cut(s)	226, 719
HinfI	GANTC	1 cut(s)	740
HphI	GGTGA	3 cut(s)	144, 352, 517
Hpy166II	GTNNAC	3 cut(s)	557, 713, 789
Hpy188I	TCNGA	4 cut(s)	268, 352, 419, 610
Hpy188III	TCNNGA	2 cut(s)	241, 701
Hpy8I	GTNNAC	3 cut(s)	557, 713, 789
HpyAV	CCTTC	4 cut(s)	492, 533, 578, 626
HpyCH4III	ACNGT	4 cut(s)	415, 604, 662, 786
HpyCH4V	TGCA	5 cut(s)	209, 257, 323, 563, 599
HpyF10VI	GCNNNNNNNGC	1 cut(s)	206
HpyF3I	CTNAG	4 cut(s)	224, 267, 332, 633
Hsp92II	CATG	2 cut(s)	185, 838
HspAI	GCGC	1 cut(s)	666
KpnI	GGTACC	1 cut(s)	481
Ksp22I	TGATCA	1 cut(s)	279
Kzo9I	GATC	2 cut(s)	279, 703
LmnI	GCTCC	2 cut(s)	308, 542
Lsp1109I	GCAGC	2 cut(s)	187, 670
LweI	GCATC	4 cut(s)	155, 310, 430, 586
MaeI	CTAG	5 cut(s)	197, 246, 260, 429, 861
MaeIII	GTNAC	3 cut(s)	340, 366, 523
MalI	GATC	2 cut(s)	281, 705
MboI	GATC	2 cut(s)	279, 703
MboII	GAAGA	7 cut(s)	9, 31, 141, 392, 400, 773, 782
MflI	RGATCY	1 cut(s)	703
MluCI	AATT	3 cut(s)	70, 106, 403
MmeI	TCCRAC	2 cut(s)	768, 781
MroXI	GAANNNNTTC	2 cut(s)	9, 392
MseI	TTAA	1 cut(s)	723
MspR9I	CCNGG	1 cut(s)	708
MvaI	CCWGG	1 cut(s)	708
MwoI	GCNNNNNNNGC	1 cut(s)	206
NcoI	CCATGG	1 cut(s)	834
NdeII	GATC	2 cut(s)	279, 703
NlaIII	CATG	2 cut(s)	185, 838
NlaIV	GGNNCC	3 cut(s)	291, 304, 479
NmuCI	GTSAC	2 cut(s)	340, 523
PaqCI	CACCTGC	1 cut(s)	314
PdmI	GAANNNNTTC	2 cut(s)	9, 392
PfeI	GAWTC	1 cut(s)	740
PflMI	CCANNNNNTGG	2 cut(s)	171, 707
PkrI	GCNGC	2 cut(s)	202, 685
Psp6I	CCWGG	1 cut(s)	706
PspEI	GGTNACC	1 cut(s)	340
PspGI	CCWGG	1 cut(s)	706
PspN4I	GGNNCC	3 cut(s)	291, 304, 479
PspPI	GGNCC	3 cut(s)	290, 557, 713
PstNI	CAGNNNCTG	1 cut(s)	707
PsuI	RGATCY	1 cut(s)	703
RsaI	GTAC	2 cut(s)	479, 644
RsaNI	GTAC	2 cut(s)	478, 643
SaqAI	TTAA	1 cut(s)	723
SatI	GCNGC	2 cut(s)	201, 684
Sau3AI	GATC	2 cut(s)	279, 703
Sau96I	GGNCC	3 cut(s)	290, 557, 713
ScrFI	CCNGG	1 cut(s)	708
SfaNI	GCATC	4 cut(s)	155, 310, 430, 586
SinI	GGWCC	2 cut(s)	557, 713
SpeI	ACTAGT	1 cut(s)	245
Sse9I	AATT	3 cut(s)	70, 106, 403
SspMI	CTAG	5 cut(s)	197, 246, 260, 429, 861
StyD4I	CCNGG	1 cut(s)	706
StyI	CCWWGG	2 cut(s)	756, 834
TaaI	ACNGT	4 cut(s)	415, 604, 662, 786
TasI	AATT	3 cut(s)	70, 106, 403
TatI	WGTACW	1 cut(s)	642
TfiI	GAWTC	1 cut(s)	740
Tru1I	TTAA	1 cut(s)	723
Tru9I	TTAA	1 cut(s)	723
TscAI	CASTG	1 cut(s)	418
TseFI	GTSAC	2 cut(s)	340, 523
TseI	GCWGC	2 cut(s)	200, 683
Tsp45I	GTSAC	2 cut(s)	340, 523
TspDTI	ATGAA	2 cut(s)	397, 663
TspGWI	ACGGA	1 cut(s)	688
TspRI	CASTG	1 cut(s)	418
Van91I	CCANNNNNTGG	2 cut(s)	171, 707
VpaK11BI	GGWCC	2 cut(s)	557, 713
XmnI	GAANNNNTTC	2 cut(s)	9, 392
XspI	CTAG	5 cut(s)	197, 246, 260, 429, 861

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