Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0017998

Physical Location & Seq

Genomic Coordinates Forward (+)

47025955 .. 47026578

Gene Structure 624 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003317

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGGCTAATCACCAGAAACTGAAGGTGACACCAGAGTTCTCGAAACGTATAGAGTTATTCCTCTCCGACATGGACGACTGCCTGAAACTGCAATTATGCTCCTTCATCCTTGAAAACCTGGAAGAATTCCGCCTTGGCCGCGCCACCAAAACATATTCTCATTGCCCTATCCCCGCCTCCATTGAGGAACGGCGTGTCGTTGGGGGTCAACTTCAGTTCTCCGAAGACGGTCAAGAGGTCGACTGCACCAAAACGCAGGGGCGCAAAATCATCCCCAATGTCGACAAGGTTAGGGCCGATGATATGAAGAGTAGTTCTGGTAGGTTCATCTTGGTAGTCCAGAGGTATGAAACTTATCGGAGATTGGTGGTGCCTGCTAATGACAGTGATGTTGGTCACGTATTTTACGAGCGTCATCCGTGTATAGTTGTAAATGTTGAAGAGGAACTTGATTCGGTGATGAAGCTCTTTCTGTGTAAGCTGAAGATGGAGCTGAAGCTTCCGATGCTTGCAGTTGTGGACAGCAGTCCAGACGGGGTTAAGATTATTTCGACTGTGTCTCAAATCTCAATGCTGCGGATGCGATGTACATTGGCTTGGGATATTACCAAGCGAATTGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 GO:0001708 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:0008150 GO:0008152 GO:0008544 GO:0009888 GO:0009913 GO:0009957 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:0030154 GO:0030855 GO:0031974 GO:0031981 GO:0032502 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 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:0045165 GO:0046483 GO:0048285 GO:0048856 GO:0048869 GO:0050896 GO:0051321 GO:0051716 GO:0060429 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

208

Amino Acids

23.68

Weight (kDa)

7.57

Isoelectric Point (pI)

46.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	109 - 191	6.8e-08	Topoisomerase 6 subunit A/Spo11, Toprim domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0017998)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g06051 FvH4_4g12771
rosa_laevigata	RLG00000003317 RLG00000003318
rosa_multiflora	Rmu_sc0003652.1_g000002 Rmu_sc0005065.1_g000016
rosa_roxburghii	Rroxscaffold_3G00251590
rosa_samantha	Rh7AG228500 Rh7BG224900 Rh7CG243100 Rh7CG243200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	370
AccI	GTMKAC	2 cut(s)	240, 282
AccII	CGCG	1 cut(s)	141
AciI	CCGC	4 cut(s)	130, 139, 174, 577
AcoI	YGGCCR	1 cut(s)	136
AcsI	RAATTY	1 cut(s)	125
AcuI	CTGAAG	4 cut(s)	41, 197, 503, 515
AfaI	GTAC	1 cut(s)	589
AgsI	TTSAA	2 cut(s)	113, 440
AjnI	CCWGG	1 cut(s)	117
AjuI	GAANNNNNNNTTGG	2 cut(s)	117, 149
AluBI	AGCT	4 cut(s)	466, 481, 493, 499
AluI	AGCT	4 cut(s)	466, 481, 493, 499
Alw26I	GTCTC	1 cut(s)	564
AlwNI	CAGNNNCTG	1 cut(s)	19
AoxI	GGCC	2 cut(s)	136, 294
ApeKI	GCWGC	1 cut(s)	574
ApoI	RAATTY	1 cut(s)	125
AspLEI	GCGC	2 cut(s)	143, 264
AspS9I	GGNCC	1 cut(s)	294
AsuHPI	GGTGA	2 cut(s)	37, 469
BanI	GGYRCC	1 cut(s)	370
BbsI	GAAGAC	1 cut(s)	231
BbvI	GCAGC	1 cut(s)	561
BccI	CCATC	1 cut(s)	481
BceAI	ACGGC	1 cut(s)	206
BciT130I	CCWGG	1 cut(s)	119
BcoDI	GTCTC	1 cut(s)	564
BisI	GCNGC	2 cut(s)	139, 575
BlsI	GCNGC	2 cut(s)	140, 576
Bme1390I	CCNGG	1 cut(s)	119
BmgT120I	GGNCC	1 cut(s)	294
BmiI	GGNNCC	1 cut(s)	372
BmrFI	CCNGG	1 cut(s)	119
BmsI	GCATC	2 cut(s)	495, 570
BoxI	GACNNNNGTC	1 cut(s)	525
BpiI	GAAGAC	1 cut(s)	231
BsaAI	YACGTR	1 cut(s)	400
BsaJI	CCNNGG	1 cut(s)	133
Bse3DI	GCAATG	1 cut(s)	160
BseBI	CCWGG	1 cut(s)	119
BseDI	CCNNGG	1 cut(s)	133
BseGI	GGATG	4 cut(s)	105, 270, 415, 585
BseMI	GCAATG	1 cut(s)	160
BseXI	GCAGC	1 cut(s)	561
BsgI	GTGCAG	1 cut(s)	229
Bsh1236I	CGCG	1 cut(s)	141
BshFI	GGCC	2 cut(s)	138, 296
BshNI	GGYRCC	1 cut(s)	370
BsmAI	GTCTC	1 cut(s)	564
BsnI	GGCC	2 cut(s)	138, 296
Bsp1407I	TGTACA	1 cut(s)	587
BspACI	CCGC	4 cut(s)	130, 139, 174, 577
BspANI	GGCC	2 cut(s)	138, 296
BspFNI	CGCG	1 cut(s)	141
BspLI	GGNNCC	1 cut(s)	372
BspT107I	GGYRCC	1 cut(s)	370
BsrDI	GCAATG	1 cut(s)	160
BsrGI	TGTACA	1 cut(s)	587
BssECI	CCNNGG	1 cut(s)	133
BssT1I	CCWWGG	1 cut(s)	133
Bst2UI	CCWGG	1 cut(s)	119
Bst4CI	ACNGT	3 cut(s)	230, 386, 556
Bst6I	CTCTTC	2 cut(s)	302, 435
BstAUI	TGTACA	1 cut(s)	587
BstBAI	YACGTR	1 cut(s)	400
BstC8I	GCNNGC	2 cut(s)	375, 510
BstF5I	GGATG	4 cut(s)	105, 270, 415, 585
BstFNI	CGCG	1 cut(s)	141
BstHHI	GCGC	2 cut(s)	143, 264
BstMAI	GTCTC	1 cut(s)	564
BstMWI	GCNNNNNNNGC	3 cut(s)	138, 505, 580
BstNI	CCWGG	1 cut(s)	119
BstPAI	GACNNNNGTC	1 cut(s)	525
BstSCI	CCNGG	1 cut(s)	117
BstUI	CGCG	1 cut(s)	141
BstV1I	GCAGC	1 cut(s)	561
BstV2I	GAAGAC	1 cut(s)	231
BsuRI	GGCC	2 cut(s)	138, 296
BtgZI	GCGATG	1 cut(s)	598
BtsCI	GGATG	4 cut(s)	105, 270, 415, 585
BtsIMutI	CAGTG	1 cut(s)	391
Cac8I	GCNNGC	2 cut(s)	375, 510
CaiI	CAGNNNCTG	1 cut(s)	19
CfoI	GCGC	2 cut(s)	143, 264
Cfr13I	GGNCC	1 cut(s)	294
CseI	GACGC	1 cut(s)	401
Csp6I	GTAC	1 cut(s)	588
CviAII	CATG	1 cut(s)	70
CviJI	RGCY	8 cut(s)	5, 138, 296, 466, 481, 493, 499, 596
CviKI_1	RGCY	8 cut(s)	5, 138, 296, 466, 481, 493, 499, 596
CviQI	GTAC	1 cut(s)	588
EaeI	YGGCCR	1 cut(s)	136
Eam1104I	CTCTTC	2 cut(s)	302, 435
EarI	CTCTTC	2 cut(s)	302, 435
EciI	GGCGGA	1 cut(s)	119
Eco130I	CCWWGG	1 cut(s)	133
Eco57I	CTGAAG	4 cut(s)	41, 197, 503, 515
EcoRI	GAATTC	1 cut(s)	125
EcoRII	CCWGG	1 cut(s)	117
EcoT14I	CCWWGG	1 cut(s)	133
ErhI	CCWWGG	1 cut(s)	133
FaeI	CATG	1 cut(s)	73
FaiI	YATR	7 cut(s)	50, 71, 97, 154, 305, 348, 425
FalI	AAGNNNNNCTT	2 cut(s)	432, 464
FatI	CATG	1 cut(s)	69
FauI	CCCGC	1 cut(s)	181
FblI	GTMKAC	2 cut(s)	240, 282
Fnu4HI	GCNGC	2 cut(s)	139, 575
FokI	GGATG	4 cut(s)	92, 257, 402, 592
Fsp4HI	GCNGC	2 cut(s)	139, 575
GlaI	GCGC	2 cut(s)	142, 263
GluI	GCNGC	2 cut(s)	139, 575
HaeIII	GGCC	2 cut(s)	138, 296
HgaI	GACGC	1 cut(s)	401
HhaI	GCGC	2 cut(s)	143, 264
Hin1II	CATG	1 cut(s)	73
Hin6I	GCGC	2 cut(s)	141, 262
HinP1I	GCGC	2 cut(s)	141, 262
HincII	GTYRAC	3 cut(s)	209, 241, 283
HindII	GTYRAC	3 cut(s)	209, 241, 283
HindIII	AAGCTT	1 cut(s)	497
HinfI	GANTC	1 cut(s)	452
HphI	GGTGA	2 cut(s)	37, 469
Hpy166II	GTNNAC	4 cut(s)	209, 241, 283, 520
Hpy188I	TCNGA	4 cut(s)	67, 223, 360, 504
Hpy188III	TCNNGA	4 cut(s)	40, 233, 340, 530
Hpy8I	GTNNAC	4 cut(s)	209, 241, 283, 520
HpyAV	CCTTC	2 cut(s)	16, 112
HpyCH4III	ACNGT	3 cut(s)	230, 386, 556
HpyCH4IV	ACGT	2 cut(s)	46, 399
HpyCH4V	TGCA	3 cut(s)	91, 246, 512
HpyF10VI	GCNNNNNNNGC	3 cut(s)	138, 505, 580
HpySE526I	ACGT	2 cut(s)	46, 399
Hsp92II	CATG	1 cut(s)	73
HspAI	GCGC	2 cut(s)	141, 262
LmnI	GCTCC	2 cut(s)	104, 490
Lsp1109I	GCAGC	1 cut(s)	561
LweI	GCATC	2 cut(s)	495, 570
MaeII	ACGT	2 cut(s)	46, 399
MaeIII	GTNAC	2 cut(s)	25, 395
MboII	GAAGA	5 cut(s)	134, 236, 319, 452, 496
MluCI	AATT	3 cut(s)	92, 125, 615
MmeI	TCCRAC	1 cut(s)	90
MnlI	CCTC	6 cut(s)	71, 178, 187, 229, 336, 436
MseI	TTAA	1 cut(s)	540
MspR9I	CCNGG	1 cut(s)	119
MvaI	CCWGG	1 cut(s)	119
MvnI	CGCG	1 cut(s)	141
MwoI	GCNNNNNNNGC	3 cut(s)	138, 505, 580
NlaIII	CATG	1 cut(s)	73
NlaIV	GGNNCC	1 cut(s)	372
NmuCI	GTSAC	2 cut(s)	25, 395
PcsI	WCGNNNNNNNCGW	1 cut(s)	405
PfeI	GAWTC	1 cut(s)	452
PflFI	GACNNNGTC	1 cut(s)	556
PkrI	GCNGC	2 cut(s)	140, 576
Ppu21I	YACGTR	1 cut(s)	400
PshAI	GACNNNNGTC	1 cut(s)	525
Psp6I	CCWGG	1 cut(s)	117
PspGI	CCWGG	1 cut(s)	117
PspN4I	GGNNCC	1 cut(s)	372
PspPI	GGNCC	1 cut(s)	294
PstNI	CAGNNNCTG	1 cut(s)	19
PsyI	GACNNNGTC	1 cut(s)	556
RsaI	GTAC	1 cut(s)	589
RsaNI	GTAC	1 cut(s)	588
SalI	GTCGAC	2 cut(s)	239, 281
SaqAI	TTAA	1 cut(s)	540
SatI	GCNGC	2 cut(s)	139, 575
Sau96I	GGNCC	1 cut(s)	294
ScrFI	CCNGG	1 cut(s)	119
SfaNI	GCATC	2 cut(s)	495, 570
Sse9I	AATT	3 cut(s)	92, 125, 615
SsiI	CCGC	4 cut(s)	130, 139, 174, 577
StyD4I	CCNGG	1 cut(s)	117
StyI	CCWWGG	1 cut(s)	133
TaaI	ACNGT	3 cut(s)	230, 386, 556
TaiI	ACGT	2 cut(s)	49, 402
TaqI	TCGA	4 cut(s)	41, 240, 282, 551
TasI	AATT	3 cut(s)	92, 125, 615
TatI	WGTACW	1 cut(s)	587
TauI	GCSGC	1 cut(s)	141
TfiI	GAWTC	1 cut(s)	452
Tru1I	TTAA	1 cut(s)	540
Tru9I	TTAA	1 cut(s)	540
TscAI	CASTG	1 cut(s)	391
TseFI	GTSAC	2 cut(s)	25, 395
TseI	GCWGC	1 cut(s)	574
Tsp45I	GTSAC	2 cut(s)	25, 395
TspDTI	ATGAA	5 cut(s)	94, 316, 320, 363, 476
TspGWI	ACGGA	1 cut(s)	408
TspRI	CASTG	1 cut(s)	391
Tth111I	GACNNNGTC	1 cut(s)	556
XapI	RAATTY	1 cut(s)	125
XmiI	GTMKAC	2 cut(s)	240, 282

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