Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Reverse (-)

14145369 .. 14146102

Gene Structure 734 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000017209

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGATCACCAATTTGATTGTCGTAGGATGGGACCATATGGCCAAACGATCCCTCCTTTTATTGATGATCAGCTTAATTAATGATGCAGAGACTCATGGTGCACTGTTCATATTATATGTGGAGAAGCATACTGCATGTGTTAGCTTGATGGAAGACAAATTTTACCTGGACTATCCCTGCATCATAATCACTGGAATGGGAATTCCTGATGTGGCAACAAGGCGCTTCATTAACTTCTTGTCAACCACCTTCGAACTCCCAACCTTTGCCATTGTGGATAGTGATCCATATGGATTCCAAATTCTATCCACGTGTGCTTTTGGCTCCGAAGCTATGTGTTATGATAATGAAAATTTGGCTACCCCAGGTATCATATGGCTGGGTCTCTTACCTACTGATGTGGAGGGGCTTGAAATGCCCAGTCAGGATATGAGTATACATGACATCGATAAGCTGGTACATAATCTTATGAAGAAAGATTACGTGAAGAGCCATAATGTCTGCTCTGCTGCCATACAAATTGAATCTTCTCAAAGTCTGTCACTAGATGTGGAAGCTTCTGGAAGCCTGGAAATCAAGAATGAACCTGCTGGAAGCCTGGAAATCAAGAATGAACCTGCTGGAAGCCTGGAATCAGTGGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008134 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0030957 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0042803 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046983 GO:0048285 GO:0050896 GO:0051321 GO:0051716 GO:0061505 GO:0061982 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

215

Amino Acids

23.59

Weight (kDa)

4.48

Isoelectric Point (pI)

43.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	36 - 186	2e-41	Topoisomerase 6 subunit A/Spo11, Toprim domain

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: OG0004536)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43731 FvH4_3g43753
rosa_chinensis	RchiOBHm_Chr2g0086091 RchiOBHm_Chr2g0089291 RchiOBHm_Chr2g0089851 RchiOBHm_Chr5g0083311
rosa_laevigata	RLG00000015741 RLG00000016061 RLG00000017209
rosa_multiflora	Rmu_co8293021.1_g000001 Rmu_co8360049.1_g000001 Rmu_sc0000388.1_g000047 Rmu_sc0002384.1_g000009 Rmu_sc0003382.1_g000021 Rmu_sc0017765.1_g000002 Rmu_ssc0000355.1_g000016
rosa_roxburghii	Rroxscaffold_2G00140180 Rroxscaffold_2G00151540
rosa_rugosa	Rorug01G0465600 Rorug01G0488800 Rorug02G0003700
rosa_samantha	Rh2AG015000 Rh2AG045100 Rh2AG048900 Rh2BG047800 Rh2CG016000 Rh2CG016100 Rh2CG045000 Rh2CG049900 Rh5BG561000 Rh5CG583600
rosa_wichuraiana	Rw2G001320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	595, 625
AccI	GTMKAC	1 cut(s)	436
AclWI	GGATC	2 cut(s)	42, 278
AcoI	YGGCCR	1 cut(s)	39
AcsI	RAATTY	4 cut(s)	158, 201, 300, 352
AcvI	CACGTG	1 cut(s)	312
AfaI	GTAC	1 cut(s)	459
AflIII	ACRYGT	1 cut(s)	311
AgsI	TTSAA	2 cut(s)	413, 524
AjnI	CCWGG	5 cut(s)	165, 364, 567, 597, 627
AluBI	AGCT	5 cut(s)	72, 144, 332, 454, 557
AluI	AGCT	5 cut(s)	72, 144, 332, 454, 557
Alw21I	GWGCWC	1 cut(s)	103
Alw26I	GTCTC	2 cut(s)	83, 389
Alw44I	GTGCAC	1 cut(s)	99
AlwI	GGATC	2 cut(s)	42, 278
AoxI	GGCC	1 cut(s)	39
ApaLI	GTGCAC	1 cut(s)	99
ApeKI	GCWGC	1 cut(s)	509
ApoI	RAATTY	4 cut(s)	158, 201, 300, 352
AseI	ATTAAT	1 cut(s)	78
AspLEI	GCGC	1 cut(s)	225
AspS9I	GGNCC	1 cut(s)	31
AsuII	TTCGAA	1 cut(s)	252
AvaII	GGWCC	1 cut(s)	31
BaeGI	GKGCMC	1 cut(s)	103
BalI	TGGCCA	1 cut(s)	41
BarI	GAAGNNNNNNTAC	2 cut(s)	464, 496
BbrPI	CACGTG	1 cut(s)	312
BbsI	GAAGAC	1 cut(s)	159
Bbv12I	GWGCWC	1 cut(s)	103
BbvI	GCAGC	1 cut(s)	496
BccI	CCATC	2 cut(s)	21, 142
BciT130I	CCWGG	5 cut(s)	167, 366, 569, 599, 629
BclI	TGATCA	2 cut(s)	3, 66
BcoDI	GTCTC	2 cut(s)	83, 389
BfaI	CTAG	1 cut(s)	545
BfoI	RGCGCY	1 cut(s)	226
BfuAI	ACCTGC	2 cut(s)	595, 625
BisI	GCNGC	1 cut(s)	510
BlsI	GCNGC	1 cut(s)	511
Bme1390I	CCNGG	5 cut(s)	167, 366, 569, 599, 629
Bme18I	GGWCC	1 cut(s)	31
BmgT120I	GGNCC	1 cut(s)	31
BmiI	GGNNCC	2 cut(s)	32, 325
BmrFI	CCNGG	5 cut(s)	167, 366, 569, 599, 629
BmrI	ACTGGG	1 cut(s)	414
BmsI	GCATC	2 cut(s)	73, 189
BmuI	ACTGGG	1 cut(s)	414
BpiI	GAAGAC	1 cut(s)	159
Bpu14I	TTCGAA	1 cut(s)	252
Bsa29I	ATCGAT	1 cut(s)	447
BsaAI	YACGTR	2 cut(s)	312, 484
BsaBI	GATNNNNATC	1 cut(s)	282
BsaI	GGTCTC	1 cut(s)	389
BsaJI	CCNNGG	1 cut(s)	364
BsaXI	ACNNNNNCTCC	2 cut(s)	36, 66
Bse1I	ACTGG	2 cut(s)	196, 420
Bse8I	GATNNNNATC	1 cut(s)	282
BseBI	CCWGG	5 cut(s)	167, 366, 569, 599, 629
BseCI	ATCGAT	1 cut(s)	447
BseDI	CCNNGG	1 cut(s)	364
BseGI	GGATG	1 cut(s)	32
BseJI	GATNNNNATC	1 cut(s)	282
BseNI	ACTGG	2 cut(s)	196, 420
BseSI	GKGCMC	1 cut(s)	103
BseXI	GCAGC	1 cut(s)	496
BseYI	CCCAGC	1 cut(s)	379
BshFI	GGCC	1 cut(s)	41
BshVI	ATCGAT	1 cut(s)	447
BsiHKAI	GWGCWC	1 cut(s)	103
BslFI	GGGAC	1 cut(s)	44
BsmAI	GTCTC	2 cut(s)	83, 389
BsmFI	GGGAC	1 cut(s)	44
BsnI	GGCC	1 cut(s)	41
Bso31I	GGTCTC	1 cut(s)	389
Bsp119I	TTCGAA	1 cut(s)	252
Bsp1286I	GDGCHC	1 cut(s)	103
Bsp143I	GATC	4 cut(s)	3, 47, 66, 283
BspANI	GGCC	1 cut(s)	41
BspDI	ATCGAT	1 cut(s)	447
BspLI	GGNNCC	2 cut(s)	32, 325
BspMI	ACCTGC	2 cut(s)	595, 625
BspPI	GGATC	2 cut(s)	42, 278
BspQI	GCTCTTC	1 cut(s)	482
BspT104I	TTCGAA	1 cut(s)	252
BspTNI	GGTCTC	1 cut(s)	389
BsrI	ACTGG	2 cut(s)	196, 420
BssECI	CCNNGG	1 cut(s)	364
BssMI	GATC	4 cut(s)	3, 47, 66, 283
BssNAI	GTATAC	1 cut(s)	437
Bst1107I	GTATAC	1 cut(s)	437
Bst2UI	CCWGG	5 cut(s)	167, 366, 569, 599, 629
Bst4CI	ACNGT	1 cut(s)	105
Bst6I	CTCTTC	1 cut(s)	482
BstBAI	YACGTR	2 cut(s)	312, 484
BstBI	TTCGAA	1 cut(s)	252
BstF5I	GGATG	1 cut(s)	32
BstH2I	RGCGCY	1 cut(s)	226
BstHHI	GCGC	1 cut(s)	225
BstKTI	GATC	4 cut(s)	6, 50, 69, 286
BstMAI	GTCTC	2 cut(s)	83, 389
BstMBI	GATC	4 cut(s)	3, 47, 66, 283
BstMWI	GCNNNNNNNGC	1 cut(s)	415
BstNI	CCWGG	5 cut(s)	167, 366, 569, 599, 629
BstNSI	RCATGY	1 cut(s)	138
BstSCI	CCNGG	5 cut(s)	165, 364, 567, 597, 627
BstSLI	GKGCMC	1 cut(s)	103
BstV1I	GCAGC	1 cut(s)	496
BstV2I	GAAGAC	1 cut(s)	159
BstZ17I	GTATAC	1 cut(s)	437
Bsu15I	ATCGAT	1 cut(s)	447
BsuRI	GGCC	1 cut(s)	41
BsuTUI	ATCGAT	1 cut(s)	447
BtsCI	GGATG	1 cut(s)	32
BtsIMutI	CAGTG	3 cut(s)	101, 189, 642
BveI	ACCTGC	2 cut(s)	595, 625
CfoI	GCGC	1 cut(s)	225
Cfr13I	GGNCC	1 cut(s)	31
ClaI	ATCGAT	1 cut(s)	447
Csp6I	GTAC	1 cut(s)	458
CviAII	CATG	3 cut(s)	95, 135, 440
CviQI	GTAC	1 cut(s)	458
DpnI	GATC	4 cut(s)	5, 49, 68, 285
DpnII	GATC	4 cut(s)	3, 47, 66, 283
EaeI	YGGCCR	1 cut(s)	39
Eam1104I	CTCTTC	1 cut(s)	482
EarI	CTCTTC	1 cut(s)	482
Eco31I	GGTCTC	1 cut(s)	389
Eco47I	GGWCC	1 cut(s)	31
Eco72I	CACGTG	1 cut(s)	312
EcoRI	GAATTC	1 cut(s)	201
EcoRII	CCWGG	5 cut(s)	165, 364, 567, 597, 627
FaeI	CATG	3 cut(s)	98, 138, 443
FaqI	GGGAC	1 cut(s)	44
FatI	CATG	3 cut(s)	94, 134, 439
FauNDI	CATATG	3 cut(s)	36, 289, 374
FbaI	TGATCA	2 cut(s)	3, 66
FblI	GTMKAC	1 cut(s)	436
Fnu4HI	GCNGC	1 cut(s)	510
FokI	GGATG	1 cut(s)	39
Fsp4HI	GCNGC	1 cut(s)	510
FspBI	CTAG	1 cut(s)	545
GlaI	GCGC	1 cut(s)	224
GluI	GCNGC	1 cut(s)	510
GsaI	CCCAGC	1 cut(s)	383
HaeII	RGCGCY	1 cut(s)	226
HaeIII	GGCC	1 cut(s)	41
HhaI	GCGC	1 cut(s)	225
Hin1II	CATG	3 cut(s)	98, 138, 443
Hin6I	GCGC	1 cut(s)	223
HinP1I	GCGC	1 cut(s)	223
HincII	GTYRAC	1 cut(s)	243
HindII	GTYRAC	1 cut(s)	243
HindIII	AAGCTT	1 cut(s)	555
HinfI	GANTC	4 cut(s)	91, 294, 524, 632
Hpy166II	GTNNAC	3 cut(s)	101, 243, 437
Hpy188I	TCNGA	1 cut(s)	328
Hpy188III	TCNNGA	5 cut(s)	206, 425, 561, 577, 607
Hpy8I	GTNNAC	3 cut(s)	101, 243, 437
HpyAV	CCTTC	1 cut(s)	259
HpyCH4III	ACNGT	1 cut(s)	105
HpyCH4IV	ACGT	2 cut(s)	311, 483
HpyCH4V	TGCA	4 cut(s)	86, 101, 134, 180
HpyF10VI	GCNNNNNNNGC	1 cut(s)	415
HpySE526I	ACGT	2 cut(s)	311, 483
Hsp92II	CATG	3 cut(s)	98, 138, 443
HspAI	GCGC	1 cut(s)	223
Ksp22I	TGATCA	2 cut(s)	3, 66
Kzo9I	GATC	4 cut(s)	3, 47, 66, 283
LguI	GCTCTTC	1 cut(s)	482
LmnI	GCTCC	1 cut(s)	329
Lsp1109I	GCAGC	1 cut(s)	496
LweI	GCATC	2 cut(s)	73, 189
MaeI	CTAG	1 cut(s)	545
MaeII	ACGT	2 cut(s)	311, 483
MaeIII	GTNAC	1 cut(s)	540
MalI	GATC	4 cut(s)	5, 49, 68, 285
MboI	GATC	4 cut(s)	3, 47, 66, 283
MboII	GAAGA	4 cut(s)	164, 484, 499, 519
MhlI	GDGCHC	1 cut(s)	103
MlsI	TGGCCA	1 cut(s)	41
MluCI	AATT	7 cut(s)	10, 75, 158, 201, 300, 352, 519
MluNI	TGGCCA	1 cut(s)	41
MlyI	GAGTC	1 cut(s)	85
MnlI	CCTC	2 cut(s)	62, 397
Mox20I	TGGCCA	1 cut(s)	41
MscI	TGGCCA	1 cut(s)	41
MseI	TTAA	3 cut(s)	74, 78, 231
MslI	CAYNNNNRTG	1 cut(s)	194
Msp20I	TGGCCA	1 cut(s)	41
MspR9I	CCNGG	5 cut(s)	167, 366, 569, 599, 629
MvaI	CCWGG	5 cut(s)	167, 366, 569, 599, 629
MwoI	GCNNNNNNNGC	1 cut(s)	415
NdeI	CATATG	3 cut(s)	36, 289, 374
NdeII	GATC	4 cut(s)	3, 47, 66, 283
NlaIII	CATG	3 cut(s)	98, 138, 443
NlaIV	GGNNCC	2 cut(s)	32, 325
NmuCI	GTSAC	1 cut(s)	540
NspI	RCATGY	1 cut(s)	138
NspV	TTCGAA	1 cut(s)	252
PacI	TTAATTAA	1 cut(s)	78
PciSI	GCTCTTC	1 cut(s)	482
PfeI	GAWTC	3 cut(s)	294, 524, 632
PkrI	GCNGC	1 cut(s)	511
PleI	GAGTC	1 cut(s)	85
PmaCI	CACGTG	1 cut(s)	312
PmlI	CACGTG	1 cut(s)	312
PpsI	GAGTC	1 cut(s)	85
Ppu21I	YACGTR	2 cut(s)	312, 484
PshBI	ATTAAT	1 cut(s)	78
Psp6I	CCWGG	5 cut(s)	165, 364, 567, 597, 627
PspCI	CACGTG	1 cut(s)	312
PspFI	CCCAGC	1 cut(s)	379
PspGI	CCWGG	5 cut(s)	165, 364, 567, 597, 627
PspN4I	GGNNCC	2 cut(s)	32, 325
PspPI	GGNCC	1 cut(s)	31
RsaI	GTAC	1 cut(s)	459
RsaNI	GTAC	1 cut(s)	458
RseI	CAYNNNNRTG	1 cut(s)	194
SapI	GCTCTTC	1 cut(s)	482
SaqAI	TTAA	3 cut(s)	74, 78, 231
SatI	GCNGC	1 cut(s)	510
Sau3AI	GATC	4 cut(s)	3, 47, 66, 283
Sau96I	GGNCC	1 cut(s)	31
SchI	GAGTC	1 cut(s)	85
ScrFI	CCNGG	5 cut(s)	167, 366, 569, 599, 629
SduI	GDGCHC	1 cut(s)	103
SfaNI	GCATC	2 cut(s)	73, 189
SfuI	TTCGAA	1 cut(s)	252
SinI	GGWCC	1 cut(s)	31
SmiMI	CAYNNNNRTG	1 cut(s)	194
Sse9I	AATT	7 cut(s)	10, 75, 158, 201, 300, 352, 519
SspMI	CTAG	1 cut(s)	545
StyD4I	CCNGG	5 cut(s)	165, 364, 567, 597, 627
TaaI	ACNGT	1 cut(s)	105
TaiI	ACGT	2 cut(s)	314, 486
TaqI	TCGA	2 cut(s)	252, 447
TasI	AATT	7 cut(s)	10, 75, 158, 201, 300, 352, 519
TfiI	GAWTC	3 cut(s)	294, 524, 632
Tru1I	TTAA	3 cut(s)	74, 78, 231
Tru9I	TTAA	3 cut(s)	74, 78, 231
TscAI	CASTG	3 cut(s)	108, 196, 642
TseFI	GTSAC	1 cut(s)	540
TseI	GCWGC	1 cut(s)	509
Tsp45I	GTSAC	1 cut(s)	540
TspDTI	ATGAA	6 cut(s)	97, 217, 363, 485, 597, 627
TspRI	CASTG	3 cut(s)	108, 196, 642
VneI	GTGCAC	1 cut(s)	99
VpaK11BI	GGWCC	1 cut(s)	31
VspI	ATTAAT	1 cut(s)	78
XapI	RAATTY	4 cut(s)	158, 201, 300, 352
XceI	RCATGY	1 cut(s)	138
XcmI	CCANNNNNNNNNTGG	1 cut(s)	372
XmiI	GTMKAC	1 cut(s)	436
XspI	CTAG	1 cut(s)	545

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