Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0007476

Physical Location & Seq

Genomic Coordinates Reverse (-)

1823473 .. 1823892

Gene Structure 420 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG027000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 420 bp

ATGGACACGTTCGAGATTCCGGTATTTCTCCTCTCAAATTCTGATCCATGGGGCATCAAAATTTATGCAGTTTTCAAATATGGCTCAGAAGGTATGGCATTTGATAGTGAAAATTTGGCTAACGCATTGATATATTGGCTGGGTGTCTGGCCGACCGACTTAACCACACTTAAAATGCCATCCGAGAAGTTGAGTTGCGATGACCAGAGAAAAGCAAGAAAATTGTTGAAGAAGGAGTTTGTAACAAGTGATGAGATGTTGGTGAACCAGCTAGACCACATGGTGATGCGCAGAGAAAAGGCAGACATTTTAGCTTTGAATAATTTCGGGCCGCTCTATGGCCTATCTGATTACTTGCTGTATAAGTTGTACAAGGTAATGGGTGATATCATGAAAAAGGGAAATATCAATTTTTCATAG

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

139

Amino Acids

16.03

Weight (kDa)

5.82

Isoelectric Point (pI)

26.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	2 - 123	3.2e-27	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: OG0007476)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g02062 FvH4_7g23893
rosa_chinensis	RchiOBHm_Chr3g0447681 RchiOBHm_Chr5g0062071
rosa_laevigata	RLG00000015854 RLG00000025979 RLG00000035529
rosa_multiflora	Rmu_sc0002296.1_g000012 Rmu_sc0006064.1_g000010 Rmu_sc0017669.1_g000013
rosa_roxburghii	Rroxscaffold_2G00153710
rosa_rugosa	Rorug01G0475300 Rorug05G0345800
rosa_samantha	Rh2BG027000 Rh2BG028800 Rh3AG004200 Rh3BG003800 Rh3CG004200 Rh3DG004100 Rh5AG407400 Rh5BG420600 Rh5BG420700 Rh5CG444600 Rh5CG444800 Rh5DG435800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	290
AccBSI	CCGCTC	1 cut(s)	334
AciI	CCGC	1 cut(s)	332
AclWI	GGATC	1 cut(s)	38
AcoI	YGGCCR	1 cut(s)	149
AcsI	RAATTY	3 cut(s)	37, 60, 112
AdeI	CACNNNGTG	1 cut(s)	283
AfaI	GTAC	1 cut(s)	371
AfiI	CCNNNNNNNGG	1 cut(s)	338
AflIII	ACRYGT	1 cut(s)	6
AgsI	TTSAA	3 cut(s)	76, 229, 319
AluBI	AGCT	2 cut(s)	271, 314
AluI	AGCT	2 cut(s)	271, 314
AlwI	GGATC	1 cut(s)	38
AoxI	GGCC	3 cut(s)	149, 329, 340
ApoI	RAATTY	3 cut(s)	37, 60, 112
Asp700I	GAANNNNTTC	1 cut(s)	323
AspLEI	GCGC	1 cut(s)	291
AspS9I	GGNCC	1 cut(s)	329
AsuHPI	GGTGA	3 cut(s)	274, 295, 395
BccI	CCATC	1 cut(s)	187
BfaI	CTAG	1 cut(s)	272
BisI	GCNGC	1 cut(s)	332
BlsI	GCNGC	1 cut(s)	333
BmgT120I	GGNCC	1 cut(s)	329
BmsI	GCATC	2 cut(s)	63, 276
BsaJI	CCNNGG	1 cut(s)	47
BsaWI	WCCGGW	1 cut(s)	19
Bsc4I	CCNNNNNNNGG	1 cut(s)	338
BseDI	CCNNGG	1 cut(s)	47
BseGI	GGATG	1 cut(s)	179
BseLI	CCNNNNNNNGG	1 cut(s)	338
BseMII	CTCAG	1 cut(s)	99
BseRI	GAGGAG	1 cut(s)	20
BseYI	CCCAGC	1 cut(s)	139
Bsh1285I	CGRYCG	1 cut(s)	156
BshFI	GGCC	3 cut(s)	151, 331, 342
BsiEI	CGRYCG	1 cut(s)	156
BsiSI	CCGG	1 cut(s)	20
BslI	CCNNNNNNNGG	1 cut(s)	338
BsnI	GGCC	3 cut(s)	151, 331, 342
Bsp1407I	TGTACA	1 cut(s)	369
Bsp143I	GATC	1 cut(s)	43
Bsp19I	CCATGG	1 cut(s)	47
BspACI	CCGC	1 cut(s)	332
BspANI	GGCC	3 cut(s)	151, 331, 342
BspCNI	CTCAG	1 cut(s)	98
BspHI	TCATGA	1 cut(s)	390
BspPI	GGATC	1 cut(s)	38
BsrBI	CCGCTC	1 cut(s)	334
BsrGI	TGTACA	1 cut(s)	369
BssECI	CCNNGG	1 cut(s)	47
BssMI	GATC	1 cut(s)	43
BssT1I	CCWWGG	1 cut(s)	47
BstAUI	TGTACA	1 cut(s)	369
BstDEI	CTNAG	1 cut(s)	85
BstDSI	CCRYGG	1 cut(s)	47
BstF5I	GGATG	1 cut(s)	179
BstHHI	GCGC	1 cut(s)	291
BstKTI	GATC	1 cut(s)	46
BstMBI	GATC	1 cut(s)	43
BstMCI	CGRYCG	1 cut(s)	156
BsuRI	GGCC	3 cut(s)	151, 331, 342
BtgI	CCRYGG	1 cut(s)	47
BtgZI	GCGATG	1 cut(s)	213
BtsCI	GGATG	1 cut(s)	179
CciI	TCATGA	1 cut(s)	390
CfoI	GCGC	1 cut(s)	291
Cfr13I	GGNCC	1 cut(s)	329
Csp6I	GTAC	1 cut(s)	370
CviAII	CATG	3 cut(s)	48, 280, 391
CviJI	RGCY	8 cut(s)	84, 119, 139, 151, 271, 314, 331, 342
CviKI_1	RGCY	8 cut(s)	84, 119, 139, 151, 271, 314, 331, 342
CviQI	GTAC	1 cut(s)	370
DdeI	CTNAG	1 cut(s)	85
DpnI	GATC	1 cut(s)	45
DpnII	GATC	1 cut(s)	43
DraIII	CACNNNGTG	1 cut(s)	283
EaeI	YGGCCR	1 cut(s)	149
Eco130I	CCWWGG	1 cut(s)	47
Eco32I	GATATC	1 cut(s)	388
EcoRV	GATATC	1 cut(s)	388
EcoT14I	CCWWGG	1 cut(s)	47
ErhI	CCWWGG	1 cut(s)	47
FaeI	CATG	3 cut(s)	51, 283, 394
FatI	CATG	3 cut(s)	47, 279, 390
Fnu4HI	GCNGC	1 cut(s)	332
FokI	GGATG	1 cut(s)	166
Fsp4HI	GCNGC	1 cut(s)	332
FspBI	CTAG	1 cut(s)	272
FspI	TGCGCA	1 cut(s)	290
GlaI	GCGC	1 cut(s)	290
GluI	GCNGC	1 cut(s)	332
GsaI	CCCAGC	1 cut(s)	143
HaeIII	GGCC	3 cut(s)	151, 331, 342
HapII	CCGG	1 cut(s)	20
HhaI	GCGC	1 cut(s)	291
Hin1II	CATG	3 cut(s)	51, 283, 394
Hin6I	GCGC	1 cut(s)	289
HinP1I	GCGC	1 cut(s)	289
HinfI	GANTC	1 cut(s)	16
HpaII	CCGG	1 cut(s)	20
HphI	GGTGA	3 cut(s)	274, 295, 395
Hpy166II	GTNNAC	1 cut(s)	265
Hpy188I	TCNGA	4 cut(s)	43, 88, 184, 349
Hpy188III	TCNNGA	2 cut(s)	13, 391
Hpy8I	GTNNAC	1 cut(s)	265
HpyAV	CCTTC	2 cut(s)	83, 226
HpyCH4IV	ACGT	1 cut(s)	8
HpyCH4V	TGCA	1 cut(s)	68
HpyF3I	CTNAG	1 cut(s)	85
HpySE526I	ACGT	1 cut(s)	8
Hsp92II	CATG	3 cut(s)	51, 283, 394
HspAI	GCGC	1 cut(s)	289
Kzo9I	GATC	1 cut(s)	43
LpnPI	CCDG	5 cut(s)	33, 125, 133, 218, 281
LweI	GCATC	2 cut(s)	63, 276
MaeI	CTAG	1 cut(s)	272
MaeII	ACGT	1 cut(s)	8
MaeIII	GTNAC	1 cut(s)	241
MalI	GATC	1 cut(s)	45
MbiI	CCGCTC	1 cut(s)	334
MboI	GATC	1 cut(s)	43
MboII	GAAGA	1 cut(s)	241
MluCI	AATT	6 cut(s)	37, 60, 112, 221, 322, 409
MnlI	CCTC	1 cut(s)	41
MroXI	GAANNNNTTC	1 cut(s)	323
MseI	TTAA	2 cut(s)	161, 171
MslI	CAYNNNNRTG	1 cut(s)	284
MspI	CCGG	1 cut(s)	20
NcoI	CCATGG	1 cut(s)	47
NdeII	GATC	1 cut(s)	43
NlaIII	CATG	3 cut(s)	51, 283, 394
NsbI	TGCGCA	1 cut(s)	290
PagI	TCATGA	1 cut(s)	390
PdmI	GAANNNNTTC	1 cut(s)	323
PfeI	GAWTC	1 cut(s)	16
PkrI	GCNGC	1 cut(s)	333
PspFI	CCCAGC	1 cut(s)	139
PspPI	GGNCC	1 cut(s)	329
RsaI	GTAC	1 cut(s)	371
RsaNI	GTAC	1 cut(s)	370
RseI	CAYNNNNRTG	1 cut(s)	284
SaqAI	TTAA	2 cut(s)	161, 171
SatI	GCNGC	1 cut(s)	332
Sau3AI	GATC	1 cut(s)	43
Sau96I	GGNCC	1 cut(s)	329
SetI	ASST	5 cut(s)	11, 94, 273, 316, 378
SfaNI	GCATC	2 cut(s)	63, 276
SmiMI	CAYNNNNRTG	1 cut(s)	284
Sse9I	AATT	6 cut(s)	37, 60, 112, 221, 322, 409
SsiI	CCGC	1 cut(s)	332
SspMI	CTAG	1 cut(s)	272
StyI	CCWWGG	1 cut(s)	47
TaiI	ACGT	1 cut(s)	11
TaqI	TCGA	1 cut(s)	12
TaqII	GACCGA	1 cut(s)	170
TasI	AATT	6 cut(s)	37, 60, 112, 221, 322, 409
TatI	WGTACW	1 cut(s)	369
TauI	GCSGC	1 cut(s)	334
TfiI	GAWTC	1 cut(s)	16
Tru1I	TTAA	2 cut(s)	161, 171
Tru9I	TTAA	2 cut(s)	161, 171
TspDTI	ATGAA	2 cut(s)	405, 407
XapI	RAATTY	3 cut(s)	37, 60, 112
XmnI	GAANNNNTTC	1 cut(s)	323
XspI	CTAG	1 cut(s)	272

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