Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0007476

Physical Location & Seq

Genomic Coordinates Forward (+)

68055448 .. 68056526

Gene Structure 1079 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000035529

Sequence Viewer

CDS Protein Promoter (2k)

Length: 879 bp

ATGCATGATACCTTGTCTCGCGAAGAAGTATTGGAGAAAATTAGGGAGGAGAAGAAACGTATTGAAGATGATTGTTCCTTTGAGTTGGTTGATCAATCAGCCTCCAACAAATTGTTCGATGACGGTGCCCAACGTTTAGTTCTAAAAGACGGCAAAAAACTTTACACGCTGCAACAGGCTACAAAAGAAGCCTATGGTCGTGTTCTAAATGAGTTAACGATATGTGTGAGCACAACAAGTCCCGCACGTACCCTCCGTGATATCTTTTACACGACGGAAGATCGGTCGCTTGTAACAGTGAATTTGGTCCAGATAATAAGGTCAGGGTTGGACATGCAAGTCGTTCCGCCTTGTATAATTTCTGTTAGTGATATGAAGAACAATGGTGCAAAGTTCGTGTTAGGAGTGGAAAGTGCATCTGCTTATCAAAGATTGACGGCGGACAACTTTCATAATGATTGTAAGTGTATAATCATGACCGGAAAAGGCATGTCTGATCTAGCACTTAGAGAATTCGGAAAGCATATAATGGACACGTTCGAGATTCCAATATTTCTCCTCTCAGATTCTGATTCATGGGGCATCGAAATTTATGCAGTCTTCAAATATGGCTCAGAAAGTATGGCGTTTGATAGTGAAAATTTGGCTAACCCATTGAAGTTGAGTTGCGATGACCTGAGAAAAGCAAGAAAATTGTTGAAGAAGGAGTTTGTAACAAGTGATGAGATGCTGGTGAACCAGCTGGACCACATGATCATGCACAAAGAAAAGGCAGCCATTTTAGCTCATAATTTCGGGCCGCTCTATGGTCTATCTGATTACTTGCTGTATAAGTTGTACAAGGTGATGGGTGATATCATGAAAAAAGGAAAATTTTAA

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

293

Amino Acids

33.17

Weight (kDa)

5.93

Isoelectric Point (pI)

38.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	132 - 218	1.4e-25	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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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)
AasI	GACNNNNNNGTC	1 cut(s)	338
AccB1I	GGYRCC	1 cut(s)	125
AccBSI	CCGCTC	1 cut(s)	802
AccII	CGCG	1 cut(s)	21
AciI	CCGC	4 cut(s)	243, 347, 440, 800
AclI	AACGTT	1 cut(s)	133
AcsI	RAATTY	5 cut(s)	301, 512, 588, 640, 872
AfaI	GTAC	2 cut(s)	250, 839
AfiI	CCNNNNNNNGG	1 cut(s)	806
AflIII	ACRYGT	1 cut(s)	534
AgsI	TTSAA	4 cut(s)	65, 604, 658, 700
AjuI	GAANNNNNNNTTGG	4 cut(s)	98, 123, 130, 155
AluBI	AGCT	2 cut(s)	742, 785
AluI	AGCT	2 cut(s)	742, 785
Alw21I	GWGCWC	1 cut(s)	233
Alw26I	GTCTC	1 cut(s)	21
AlwNI	CAGNNNCTG	1 cut(s)	569
AoxI	GGCC	1 cut(s)	797
ApeKI	GCWGC	2 cut(s)	169, 773
ApoI	RAATTY	5 cut(s)	301, 512, 588, 640, 872
AspS9I	GGNCC	3 cut(s)	307, 745, 797
AsuHPI	GGTGA	3 cut(s)	745, 856, 863
AvaII	GGWCC	2 cut(s)	307, 745
BaeGI	GKGCMC	1 cut(s)	130
BanI	GGYRCC	1 cut(s)	125
BbsI	GAAGAC	1 cut(s)	592
Bbv12I	GWGCWC	1 cut(s)	233
BbvI	GCAGC	2 cut(s)	156, 785
BccI	CCATC	1 cut(s)	841
BceAI	ACGGC	2 cut(s)	166, 453
BcgI	CGANNNNNNTGC	4 cut(s)	107, 141, 575, 609
BclI	TGATCA	2 cut(s)	91, 753
BcoDI	GTCTC	1 cut(s)	21
BfaI	CTAG	1 cut(s)	500
BisI	GCNGC	3 cut(s)	170, 774, 800
BlsI	GCNGC	3 cut(s)	171, 775, 801
Bme18I	GGWCC	2 cut(s)	307, 745
BmgT120I	GGNCC	3 cut(s)	307, 745, 797
BmiI	GGNNCC	1 cut(s)	127
BmsI	GCATC	3 cut(s)	425, 591, 717
BpiI	GAAGAC	1 cut(s)	592
BsaAI	YACGTR	1 cut(s)	248
BsaWI	WCCGGW	1 cut(s)	479
BsaXI	ACNNNNNCTCC	2 cut(s)	237, 267
Bsc4I	CCNNNNNNNGG	1 cut(s)	806
BseLI	CCNNNNNNNGG	1 cut(s)	806
BseMII	CTCAG	3 cut(s)	576, 627, 668
BseRI	GAGGAG	2 cut(s)	62, 548
BseSI	GKGCMC	1 cut(s)	130
BseXI	GCAGC	2 cut(s)	156, 785
Bsh1236I	CGCG	1 cut(s)	21
Bsh1285I	CGRYCG	1 cut(s)	287
BshFI	GGCC	1 cut(s)	799
BshNI	GGYRCC	1 cut(s)	125
BsiEI	CGRYCG	1 cut(s)	287
BsiHKAI	GWGCWC	1 cut(s)	233
BsiSI	CCGG	1 cut(s)	480
BslFI	GGGAC	1 cut(s)	225
BslI	CCNNNNNNNGG	1 cut(s)	806
BsmAI	GTCTC	1 cut(s)	21
BsmFI	GGGAC	1 cut(s)	225
BsnI	GGCC	1 cut(s)	799
Bsp1286I	GDGCHC	2 cut(s)	130, 233
Bsp1407I	TGTACA	1 cut(s)	837
Bsp143I	GATC	4 cut(s)	91, 280, 496, 753
Bsp68I	TCGCGA	1 cut(s)	21
BspACI	CCGC	4 cut(s)	243, 347, 440, 800
BspANI	GGCC	1 cut(s)	799
BspCNI	CTCAG	3 cut(s)	575, 626, 669
BspFNI	CGCG	1 cut(s)	21
BspHI	TCATGA	2 cut(s)	474, 858
BspLI	GGNNCC	1 cut(s)	127
BspT107I	GGYRCC	1 cut(s)	125
BsrBI	CCGCTC	1 cut(s)	802
BsrGI	TGTACA	1 cut(s)	837
BssMI	GATC	4 cut(s)	91, 280, 496, 753
Bst4CI	ACNGT	2 cut(s)	125, 298
BstAUI	TGTACA	1 cut(s)	837
BstBAI	YACGTR	1 cut(s)	248
BstDEI	CTNAG	4 cut(s)	506, 562, 613, 677
BstFNI	CGCG	1 cut(s)	21
BstKTI	GATC	4 cut(s)	94, 283, 499, 756
BstMAI	GTCTC	1 cut(s)	21
BstMBI	GATC	4 cut(s)	91, 280, 496, 753
BstMCI	CGRYCG	1 cut(s)	287
BstMWI	GCNNNNNNNGC	1 cut(s)	782
BstNSI	RCATGY	2 cut(s)	337, 493
BstSLI	GKGCMC	1 cut(s)	130
BstUI	CGCG	1 cut(s)	21
BstV1I	GCAGC	2 cut(s)	156, 785
BstV2I	GAAGAC	1 cut(s)	592
BsuRI	GGCC	1 cut(s)	799
BtgZI	GCGATG	1 cut(s)	684
BtsIMutI	CAGTG	1 cut(s)	303
BtuMI	TCGCGA	1 cut(s)	21
CaiI	CAGNNNCTG	1 cut(s)	569
CciI	TCATGA	2 cut(s)	474, 858
Cfr13I	GGNCC	3 cut(s)	307, 745, 797
Csp6I	GTAC	2 cut(s)	249, 838
CviAII	CATG	8 cut(s)	5, 334, 475, 490, 576, 751, 757, 859
CviJI	RGCY	9 cut(s)	101, 179, 191, 612, 647, 742, 776, 785, 799
CviKI_1	RGCY	9 cut(s)	101, 179, 191, 612, 647, 742, 776, 785, 799
CviQI	GTAC	2 cut(s)	249, 838
DdeI	CTNAG	4 cut(s)	506, 562, 613, 677
DpnI	GATC	4 cut(s)	93, 282, 498, 755
DpnII	GATC	4 cut(s)	91, 280, 496, 753
DrdI	GACNNNNNNGTC	1 cut(s)	338
DseDI	GACNNNNNNGTC	1 cut(s)	338
EciI	GGCGGA	2 cut(s)	336, 455
Eco32I	GATATC	2 cut(s)	262, 856
Eco47I	GGWCC	2 cut(s)	307, 745
EcoRI	GAATTC	1 cut(s)	512
EcoRV	GATATC	2 cut(s)	262, 856
EcoT22I	ATGCAT	1 cut(s)	6
FaeI	CATG	8 cut(s)	8, 337, 478, 493, 579, 754, 760, 862
FaqI	GGGAC	1 cut(s)	225
FatI	CATG	8 cut(s)	4, 333, 474, 489, 575, 750, 756, 858
FauI	CCCGC	1 cut(s)	250
FbaI	TGATCA	2 cut(s)	91, 753
Fnu4HI	GCNGC	3 cut(s)	170, 774, 800
Fsp4HI	GCNGC	3 cut(s)	170, 774, 800
FspBI	CTAG	1 cut(s)	500
GluI	GCNGC	3 cut(s)	170, 774, 800
HaeIII	GGCC	1 cut(s)	799
HapII	CCGG	1 cut(s)	480
Hin1II	CATG	8 cut(s)	8, 337, 478, 493, 579, 754, 760, 862
HincII	GTYRAC	1 cut(s)	216
HindII	GTYRAC	1 cut(s)	216
HinfI	GANTC	3 cut(s)	544, 566, 572
HpaI	GTTAAC	1 cut(s)	216
HpaII	CCGG	1 cut(s)	480
HphI	GGTGA	3 cut(s)	745, 856, 863
Hpy166II	GTNNAC	2 cut(s)	216, 736
Hpy188I	TCNGA	6 cut(s)	496, 518, 565, 571, 616, 817
Hpy188III	TCNNGA	5 cut(s)	20, 310, 475, 541, 859
Hpy8I	GTNNAC	2 cut(s)	216, 736
Hpy99I	CGWCG	1 cut(s)	277
HpyAV	CCTTC	1 cut(s)	697
HpyCH4III	ACNGT	2 cut(s)	125, 298
HpyCH4IV	ACGT	4 cut(s)	58, 133, 247, 536
HpyCH4V	TGCA	7 cut(s)	4, 172, 337, 389, 416, 596, 760
HpyF10VI	GCNNNNNNNGC	1 cut(s)	782
HpyF3I	CTNAG	4 cut(s)	506, 562, 613, 677
HpySE526I	ACGT	4 cut(s)	58, 133, 247, 536
Hsp92II	CATG	8 cut(s)	8, 337, 478, 493, 579, 754, 760, 862
Ksp22I	TGATCA	2 cut(s)	91, 753
KspAI	GTTAAC	1 cut(s)	216
Kzo9I	GATC	4 cut(s)	91, 280, 496, 753
LpnPI	CCDG	8 cut(s)	161, 309, 323, 493, 689, 716, 728, 752
Lsp1109I	GCAGC	2 cut(s)	156, 785
LweI	GCATC	3 cut(s)	425, 591, 717
MaeI	CTAG	1 cut(s)	500
MaeII	ACGT	4 cut(s)	58, 133, 247, 536
MaeIII	GTNAC	2 cut(s)	292, 712
MalI	GATC	4 cut(s)	93, 282, 498, 755
MbiI	CCGCTC	1 cut(s)	802
MboI	GATC	4 cut(s)	91, 280, 496, 753
MboII	GAAGA	7 cut(s)	35, 64, 77, 290, 388, 592, 712
MhlI	GDGCHC	2 cut(s)	130, 233
MmeI	TCCRAC	2 cut(s)	129, 309
MnlI	CCTC	4 cut(s)	40, 112, 263, 569
Mph1103I	ATGCAT	1 cut(s)	6
MseI	TTAA	2 cut(s)	215, 877
MslI	CAYNNNNRTG	1 cut(s)	755
MspA1I	CMGCKG	1 cut(s)	742
MspI	CCGG	1 cut(s)	480
MvnI	CGCG	1 cut(s)	21
MwoI	GCNNNNNNNGC	1 cut(s)	782
NdeII	GATC	4 cut(s)	91, 280, 496, 753
NlaIII	CATG	8 cut(s)	8, 337, 478, 493, 579, 754, 760, 862
NlaIV	GGNNCC	1 cut(s)	127
NruI	TCGCGA	1 cut(s)	21
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	2 cut(s)	337, 493
PagI	TCATGA	2 cut(s)	474, 858
PcsI	WCGNNNNNNNCGW	1 cut(s)	253
PfeI	GAWTC	3 cut(s)	544, 566, 572
PkrI	GCNGC	3 cut(s)	171, 775, 801
Ppu21I	YACGTR	1 cut(s)	248
Psp1406I	AACGTT	1 cut(s)	133
PspN4I	GGNNCC	1 cut(s)	127
PspPI	GGNCC	3 cut(s)	307, 745, 797
PstNI	CAGNNNCTG	1 cut(s)	569
PvuII	CAGCTG	1 cut(s)	742
RruI	TCGCGA	1 cut(s)	21
RsaI	GTAC	2 cut(s)	250, 839
RsaNI	GTAC	2 cut(s)	249, 838
RseI	CAYNNNNRTG	1 cut(s)	755
SaqAI	TTAA	2 cut(s)	215, 877
SatI	GCNGC	3 cut(s)	170, 774, 800
Sau3AI	GATC	4 cut(s)	91, 280, 496, 753
Sau96I	GGNCC	3 cut(s)	307, 745, 797
SduI	GDGCHC	2 cut(s)	130, 233
SfaNI	GCATC	3 cut(s)	425, 591, 717
SinI	GGWCC	2 cut(s)	307, 745
SmiMI	CAYNNNNRTG	1 cut(s)	755
SsiI	CCGC	4 cut(s)	243, 347, 440, 800
SspI	AATATT	1 cut(s)	552
SspMI	CTAG	1 cut(s)	500
TaaI	ACNGT	2 cut(s)	125, 298
TaiI	ACGT	4 cut(s)	61, 136, 250, 539
TaqI	TCGA	3 cut(s)	117, 540, 585
TaqII	GACCGA	1 cut(s)	273
TatI	WGTACW	1 cut(s)	837
TauI	GCSGC	1 cut(s)	802
TfiI	GAWTC	3 cut(s)	544, 566, 572
Tru1I	TTAA	2 cut(s)	215, 877
Tru9I	TTAA	2 cut(s)	215, 877
TscAI	CASTG	1 cut(s)	303
TseI	GCWGC	2 cut(s)	169, 773
TspDTI	ATGAA	4 cut(s)	389, 440, 564, 875
TspGWI	ACGGA	2 cut(s)	245, 290
TspRI	CASTG	1 cut(s)	303
VpaK11BI	GGWCC	2 cut(s)	307, 745
XapI	RAATTY	5 cut(s)	301, 512, 588, 640, 872
XceI	RCATGY	2 cut(s)	337, 493
XspI	CTAG	1 cut(s)	500
Zsp2I	ATGCAT	1 cut(s)	6

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