Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004479

Physical Location & Seq

Genomic Coordinates Forward (+)

82194488 .. 82197564

Gene Structure 3077 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000022279

Sequence Viewer

CDS Protein Promoter (2k)

Length: 837 bp

ATGATTTTGTATTGGTCTGGTTATCAGATTATAAAGGTTGTGAGGGACATGAGCCATGCTTCTTATCTTACAGTTTGCAAGGCTTTGAATTTTGGAGCAAGACCGCTGCGAAGATCATCGAATTTTTCTTTTAAGTTGCCCCAAAAGGTTTTTGTTAGGCGGATTCAAATGGCAGATAATAGTCACAACTGTAGCCTAAGAGGCAAGGAGGATTCAAGAGGTGCATTGGTTGTTTTGGAAGGCTTGGATCGTTGTGGGAAGACTACACAGTCTACTAGACTAGTAAAACACTTAGAAAGTTTAGGGTATTCAACGGAATTATGGAGGTATCCTGACAGGACTACAAGTGTTGGGCAAATGATATCTTCTTATCTTTCGAACAAATCACAACTGGATGATCGTACTATCCATCTTCTCTTCAGTGCCAACCGGTGGGAAAAGAGATCATTGATGGAAACTAAATTGAAAAGTGGAACCACTCTTGTCGTTGACCGGTATTCTTATTCTGGGGTGGCTTTCTCATCTGCCAAAGGACTGGACATGGAATGGTGTAAGGCTCCTGAGATTGGGTTGTTGGCTCCAGATGTTGTTCTGTACCTTGACATACCACCTGAGAAAGCTGCAGAAAGAGGGGGCTATGGAGGTGAGAGATATGAGCAGCTTGAATTTCAGAAGAAAGTTGGCCAAAGATATAAGGACCTCTGCAGTGCCAATTGGAAGGTCATAGATGCTTGTTCAACAATGGAGGAAGTTGAGAAACAGTTGCAAGAGATAGTATTGGGTTCTGTAAAGACATGCCAAGAAGGAAAACCCCTCTCATGTCTCTGGTCTTGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004798 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005739 GO:0006139 GO:0006220 GO:0006221 GO:0006227 GO:0006233 GO:0006235 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009041 GO:0009058 GO:0009117 GO:0009123 GO:0009132 GO:0009133 GO:0009138 GO:0009139 GO:0009141 GO:0009142 GO:0009147 GO:0009148 GO:0009165 GO:0009186 GO:0009189 GO:0009196 GO:0009197 GO:0009200 GO:0009202 GO:0009211 GO:0009212 GO:0009219 GO:0009221 GO:0009262 GO:0009263 GO:0009265 GO:0009394 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016776 GO:0018130 GO:0019205 GO:0019438 GO:0019637 GO:0019692 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0034641 GO:0034654 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046072 GO:0046075 GO:0046077 GO:0046385 GO:0046483 GO:0046940 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050145 GO:0055086 GO:0061458 GO:0070013 GO:0071704 GO:0072527 GO:0072528 GO:0090407 GO:1901135 GO:1901137 GO:1901293 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00240 ko01100 map00240 map01100

Pfam Domains

Protein Families

Thymidylate_kin

Protein Analysis

279

Amino Acids

31.55

Weight (kDa)

9.04

Isoelectric Point (pI)

38.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Thymidylate_kin	PF02223	79 - 254	9.9e-47	Thymidylate kinase

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: OG0004479)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G59440 AT5G59440 AT5G59440
fragaria_vesca	FvH4_6g52930 FvH4_6g52930 FvH4_6g52930 FvH4_6g52930
malus_domestica	MD09G1015900.v1.1 MD17G1016300.v1.1
prunus_persica	Prupe.3G071800_v2.0.a1 Prupe.3G071800_v2.0.a1 Prupe.3G071800_v2.0.a1 Prupe.3G071800_v2.0.a1 Prupe.3G071800_v2.0.a1 Prupe.3G071800_v2.0.a1 Prupe.3G071800_v2.0.a1 Prupe.3G301400_v2.0.a1 Prupe.3G301400_v2.0.a1
pyrus_communis	pycom111g01300 pycom17g01320
rosa_chinensis	RchiOBHm_Chr2g0174641
rosa_laevigata	RLG00000022279
rosa_multiflora	Rmu_sc0007189.1_g000008
rosa_roxburghii	Rroxscaffold_2G00077980
rosa_rugosa	Rorug02G0578500 Rorug02G0578500 Rorug02G0578500
rosa_samantha	Rh2AG659600 Rh2BG670400 Rh2CG633700 Rh2DG684100
rosa_wichuraiana	Rw2G054020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	32
AasI	GACNNNNNNGTC	1 cut(s)	268
AccB7I	CCANNNNNTGG	1 cut(s)	432
AccI	GTMKAC	1 cut(s)	272
AciI	CCGC	2 cut(s)	104, 160
AclWI	GGATC	1 cut(s)	255
AcoI	YGGCCR	1 cut(s)	682
AcsI	RAATTY	3 cut(s)	88, 121, 665
AcuI	CTGAAG	1 cut(s)	403
AfaI	GTAC	2 cut(s)	403, 596
AfiI	CCNNNNNNNGG	2 cut(s)	432, 566
AgeI	ACCGGT	2 cut(s)	429, 492
AgsI	TTSAA	7 cut(s)	88, 167, 216, 312, 466, 665, 738
AhlI	ACTAGT	1 cut(s)	280
AluBI	AGCT	2 cut(s)	620, 661
AluI	AGCT	2 cut(s)	620, 661
Alw26I	GTCTC	1 cut(s)	827
AlwI	GGATC	1 cut(s)	255
AoxI	GGCC	1 cut(s)	682
ApeKI	GCWGC	3 cut(s)	106, 620, 658
ApoI	RAATTY	3 cut(s)	88, 121, 665
AsiGI	ACCGGT	2 cut(s)	429, 492
AspS9I	GGNCC	1 cut(s)	697
AsuHPI	GGTGA	1 cut(s)	656
AsuII	TTCGAA	1 cut(s)	377
AvaII	GGWCC	1 cut(s)	697
BalI	TGGCCA	1 cut(s)	684
BbsI	GAAGAC	1 cut(s)	266
BbvI	GCAGC	3 cut(s)	93, 607, 670
BccI	CCATC	2 cut(s)	417, 445
BciVI	GTATCC	1 cut(s)	339
BcoDI	GTCTC	1 cut(s)	827
BcuI	ACTAGT	1 cut(s)	280
BfaI	CTAG	2 cut(s)	276, 281
BfmI	CTRYAG	3 cut(s)	190, 621, 703
BfuI	GTATCC	1 cut(s)	339
BglI	GCCNNNNNGGC	1 cut(s)	201
BisI	GCNGC	3 cut(s)	107, 621, 659
BlsI	GCNGC	3 cut(s)	108, 622, 660
Bme18I	GGWCC	1 cut(s)	697
BmgT120I	GGNCC	1 cut(s)	697
BmiI	GGNNCC	3 cut(s)	475, 558, 579
BmsI	GCATC	1 cut(s)	718
BpiI	GAAGAC	1 cut(s)	266
BpmI	CTGGAG	1 cut(s)	564
Bpu14I	TTCGAA	1 cut(s)	377
BsaWI	WCCGGW	2 cut(s)	429, 492
Bsc4I	CCNNNNNNNGG	2 cut(s)	432, 566
Bse118I	RCCGGY	2 cut(s)	429, 492
Bse1I	ACTGG	2 cut(s)	396, 540
BseGI	GGATG	1 cut(s)	400
BseLI	CCNNNNNNNGG	2 cut(s)	432, 566
BseMII	CTCAG	2 cut(s)	552, 603
BseNI	ACTGG	2 cut(s)	396, 540
BseXI	GCAGC	3 cut(s)	93, 607, 670
BshFI	GGCC	1 cut(s)	684
BshTI	ACCGGT	2 cut(s)	429, 492
BsiSI	CCGG	2 cut(s)	430, 493
BslFI	GGGAC	1 cut(s)	59
BslI	CCNNNNNNNGG	2 cut(s)	432, 566
BsmAI	GTCTC	1 cut(s)	827
BsmFI	GGGAC	1 cut(s)	59
BsnI	GGCC	1 cut(s)	684
Bsp119I	TTCGAA	1 cut(s)	377
Bsp143I	GATC	4 cut(s)	113, 247, 397, 443
BspACI	CCGC	2 cut(s)	104, 160
BspANI	GGCC	1 cut(s)	684
BspCNI	CTCAG	2 cut(s)	553, 604
BspLI	GGNNCC	3 cut(s)	475, 558, 579
BspMAI	CTGCAG	2 cut(s)	625, 707
BspPI	GGATC	1 cut(s)	255
BspT104I	TTCGAA	1 cut(s)	377
BsrFI	RCCGGY	2 cut(s)	429, 492
BsrI	ACTGG	2 cut(s)	396, 540
BssAI	RCCGGY	2 cut(s)	429, 492
BssMI	GATC	4 cut(s)	113, 247, 397, 443
Bst4CI	ACNGT	4 cut(s)	73, 191, 270, 762
Bst6I	CTCTTC	1 cut(s)	422
BstBI	TTCGAA	1 cut(s)	377
BstDEI	CTNAG	4 cut(s)	197, 292, 561, 612
BstF5I	GGATG	1 cut(s)	400
BstKTI	GATC	4 cut(s)	116, 250, 400, 446
BstMAI	GTCTC	1 cut(s)	827
BstMBI	GATC	4 cut(s)	113, 247, 397, 443
BstMWI	GCNNNNNNNGC	1 cut(s)	201
BstNSI	RCATGY	1 cut(s)	798
BstSFI	CTRYAG	3 cut(s)	190, 621, 703
BstV1I	GCAGC	3 cut(s)	93, 607, 670
BstV2I	GAAGAC	1 cut(s)	266
BstXI	CCANNNNNNTGG	1 cut(s)	535
BsuI	GTATCC	1 cut(s)	339
BsuRI	GGCC	1 cut(s)	684
BtsCI	GGATG	1 cut(s)	400
BtsI	GCAGTG	1 cut(s)	712
BtsIMutI	CAGTG	2 cut(s)	427, 712
Cfr10I	RCCGGY	2 cut(s)	429, 492
Cfr13I	GGNCC	1 cut(s)	697
Csp6I	GTAC	2 cut(s)	402, 595
CspAI	ACCGGT	2 cut(s)	429, 492
CviAII	CATG	5 cut(s)	49, 56, 541, 795, 819
CviQI	GTAC	2 cut(s)	402, 595
DdeI	CTNAG	4 cut(s)	197, 292, 561, 612
DpnI	GATC	4 cut(s)	115, 249, 399, 445
DpnII	GATC	4 cut(s)	113, 247, 397, 443
DrdI	GACNNNNNNGTC	1 cut(s)	268
DseDI	GACNNNNNNGTC	1 cut(s)	268
EaeI	YGGCCR	1 cut(s)	682
Eam1104I	CTCTTC	1 cut(s)	422
EarI	CTCTTC	1 cut(s)	422
EciI	GGCGGA	1 cut(s)	175
Eco32I	GATATC	1 cut(s)	363
Eco47I	GGWCC	1 cut(s)	697
Eco57I	CTGAAG	1 cut(s)	403
EcoO109I	RGGNCCY	1 cut(s)	697
EcoRV	GATATC	1 cut(s)	363
FaeI	CATG	5 cut(s)	52, 59, 544, 798, 822
FaqI	GGGAC	1 cut(s)	59
FatI	CATG	5 cut(s)	48, 55, 540, 794, 818
FblI	GTMKAC	1 cut(s)	272
Fnu4HI	GCNGC	3 cut(s)	107, 621, 659
FokI	GGATG	1 cut(s)	407
Fsp4HI	GCNGC	3 cut(s)	107, 621, 659
FspBI	CTAG	2 cut(s)	276, 281
GluI	GCNGC	3 cut(s)	107, 621, 659
GsuI	CTGGAG	1 cut(s)	564
HaeIII	GGCC	1 cut(s)	684
HapII	CCGG	2 cut(s)	430, 493
Hin1II	CATG	5 cut(s)	52, 59, 544, 798, 822
HincII	GTYRAC	1 cut(s)	490
HindII	GTYRAC	1 cut(s)	490
HinfI	GANTC	2 cut(s)	163, 212
HpaII	CCGG	2 cut(s)	430, 493
HphI	GGTGA	1 cut(s)	656
Hpy166II	GTNNAC	2 cut(s)	273, 490
Hpy188I	TCNGA	2 cut(s)	27, 672
Hpy188III	TCNNGA	4 cut(s)	216, 332, 560, 581
Hpy8I	GTNNAC	2 cut(s)	273, 490
HpyAV	CCTTC	3 cut(s)	233, 712, 797
HpyCH4III	ACNGT	4 cut(s)	73, 191, 270, 762
HpyCH4V	TGCA	5 cut(s)	78, 224, 623, 705, 766
HpyF10VI	GCNNNNNNNGC	1 cut(s)	201
HpyF3I	CTNAG	4 cut(s)	197, 292, 561, 612
Hsp92II	CATG	5 cut(s)	52, 59, 544, 798, 822
Kzo9I	GATC	4 cut(s)	113, 247, 397, 443
LmnI	GCTCC	3 cut(s)	95, 562, 583
Lsp1109I	GCAGC	3 cut(s)	93, 607, 670
LweI	GCATC	1 cut(s)	718
MaeI	CTAG	2 cut(s)	276, 281
MaeIII	GTNAC	1 cut(s)	182
MalI	GATC	4 cut(s)	115, 249, 399, 445
MboI	GATC	4 cut(s)	113, 247, 397, 443
MboII	GAAGA	6 cut(s)	123, 271, 357, 404, 409, 685
MfeI	CAATTG	1 cut(s)	712
MlsI	TGGCCA	1 cut(s)	684
MluCI	AATT	6 cut(s)	88, 121, 317, 461, 665, 712
MluNI	TGGCCA	1 cut(s)	684
Mox20I	TGGCCA	1 cut(s)	684
MscI	TGGCCA	1 cut(s)	684
MseI	TTAA	2 cut(s)	132, 835
Msp20I	TGGCCA	1 cut(s)	684
MspA1I	CMGCKG	1 cut(s)	106
MspI	CCGG	2 cut(s)	430, 493
MunI	CAATTG	1 cut(s)	712
MwoI	GCNNNNNNNGC	1 cut(s)	201
NdeII	GATC	4 cut(s)	113, 247, 397, 443
NlaIII	CATG	5 cut(s)	52, 59, 544, 798, 822
NlaIV	GGNNCC	3 cut(s)	475, 558, 579
NmuCI	GTSAC	1 cut(s)	182
NspI	RCATGY	1 cut(s)	798
NspV	TTCGAA	1 cut(s)	377
PfeI	GAWTC	2 cut(s)	163, 212
PflMI	CCANNNNNTGG	1 cut(s)	432
PinAI	ACCGGT	2 cut(s)	429, 492
PkrI	GCNGC	3 cut(s)	108, 622, 660
PpuMI	RGGWCCY	1 cut(s)	697
PsiI	TTATAA	1 cut(s)	32
Psp5II	RGGWCCY	1 cut(s)	697
PspN4I	GGNNCC	3 cut(s)	475, 558, 579
PspPI	GGNCC	1 cut(s)	697
PspPPI	RGGWCCY	1 cut(s)	697
PstI	CTGCAG	2 cut(s)	625, 707
RsaI	GTAC	2 cut(s)	403, 596
RsaNI	GTAC	2 cut(s)	402, 595
SaqAI	TTAA	2 cut(s)	132, 835
SatI	GCNGC	3 cut(s)	107, 621, 659
Sau3AI	GATC	4 cut(s)	113, 247, 397, 443
Sau96I	GGNCC	1 cut(s)	697
SfaNI	GCATC	1 cut(s)	718
SfcI	CTRYAG	3 cut(s)	190, 621, 703
SfuI	TTCGAA	1 cut(s)	377
SinI	GGWCC	1 cut(s)	697
SpeI	ACTAGT	1 cut(s)	280
Sse9I	AATT	6 cut(s)	88, 121, 317, 461, 665, 712
SsiI	CCGC	2 cut(s)	104, 160
SspMI	CTAG	2 cut(s)	276, 281
TaaI	ACNGT	4 cut(s)	73, 191, 270, 762
TaqI	TCGA	2 cut(s)	119, 377
TasI	AATT	6 cut(s)	88, 121, 317, 461, 665, 712
TfiI	GAWTC	2 cut(s)	163, 212
Tru1I	TTAA	2 cut(s)	132, 835
Tru9I	TTAA	2 cut(s)	132, 835
TscAI	CASTG	2 cut(s)	427, 712
TseFI	GTSAC	1 cut(s)	182
TseI	GCWGC	3 cut(s)	106, 620, 658
Tsp45I	GTSAC	1 cut(s)	182
TspGWI	ACGGA	1 cut(s)	329
TspRI	CASTG	2 cut(s)	427, 712
Van91I	CCANNNNNTGG	1 cut(s)	432
VpaK11BI	GGWCC	1 cut(s)	697
XapI	RAATTY	3 cut(s)	88, 121, 665
XceI	RCATGY	1 cut(s)	798
XmiI	GTMKAC	1 cut(s)	272
XspI	CTAG	2 cut(s)	276, 281

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