Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0017998

Physical Location & Seq

Genomic Coordinates Forward (+)

45528413 .. 45529396

Gene Structure 984 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00251590.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 984 bp

ATGGCTAATCACCAGAAACTGAAGGTGACACCAGAGTTCTCGAAACGTATAGAGTTATTCCTCTCCGACATGGACGACAGCCTGAAACTGCAATTATGCTCCTTCGTCCTTGAAAACCTGGAAGAATTCCGCCGTGGCTGCGCCACCAAAACATATTCTCATTGCTCTATCCCCGCCTCCATTGAGGAACGGCGTGTCGTTGGGGGTCAACTTCAGTTCTCCGAAGACGGCCAAGAGGTCGACTGCACTAAAACGCAGGGGCGCAAAATCATCCCCAATGTCGACAAGGTTAGGGTCGATGATATGAAGAGTAGTTCTGGTAAGTTCATCATAGTAGTGCAGAGGTATGAAATTTATCGGAGATTGGCGGTGCCTGCTAATGACAGTGATGTTGGTCACGTATTTTACGAGAGTCATCCGTGTATAGTTGTGAATGTTGAAGAGGAACTTGATTCGGTGACGAAGTTCTTTCTGTGTAAGCTGAAGATGGAGCTGAAGCTTCCGATGCTTGCACTTGTGGACAGCAGTCCAGACGGGGTCAAGATTATTTCGACTGTGTCTCAATGCTGCAGGTGCGATGTAAATTGGCTTGGGATGCTACCAAGCGAATTGGATAAGGGTATGTTTGCCATAGCCAACGACCCTATGATCAGGATCCCCATGACTGACAGTGATTTGAAGACATTGGAAGATCTGATGGAGAATGACGACTTTGTGAAGGAGAAGATGAGGAATCCTAAATGTTTGGAGGAGCCGGCTCTGATGGAGAATGATGATTTGATTGAGAAGGTGAAGAATCTGGAGCTGAGTAATCTGATGGGGAATGATTTTTCGAAGGAGAATAGGAAGAATCCGACATGGTTTGAGGAGCTGACTCTGATGAAGAAGACCAAGGTAGAGGATTTTGACGATTTCATGAGCATGCTCTTTTCTATGTTGATAGTAGCCTATGAACGTAGCAACGCACGAGGTGATCAAGAGTAG

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

327

Amino Acids

37.55

Weight (kDa)

4.92

Isoelectric Point (pI)

39.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	109 - 245	1.9e-12	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

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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)
AarI	CACCTGC	1 cut(s)	561
Acc36I	ACCTGC	1 cut(s)	561
AccB1I	GGYRCC	1 cut(s)	370
AccI	GTMKAC	2 cut(s)	240, 282
AciI	CCGC	3 cut(s)	130, 174, 368
AclWI	GGATC	2 cut(s)	649, 662
AcoI	YGGCCR	1 cut(s)	229
AcsI	RAATTY	2 cut(s)	125, 351
AcuI	CTGAAG	4 cut(s)	41, 197, 503, 515
AdeI	CACNNNGTG	1 cut(s)	971
AgsI	TTSAA	3 cut(s)	113, 440, 679
AjnI	CCWGG	1 cut(s)	117
AluBI	AGCT	5 cut(s)	481, 493, 499, 805, 871
AluI	AGCT	5 cut(s)	481, 493, 499, 805, 871
Alw26I	GTCTC	1 cut(s)	564
AlwI	GGATC	2 cut(s)	649, 662
AlwNI	CAGNNNCTG	1 cut(s)	19
AoxI	GGCC	1 cut(s)	229
ApeKI	GCWGC	2 cut(s)	138, 567
ApoI	RAATTY	2 cut(s)	125, 351
AspLEI	GCGC	2 cut(s)	143, 264
AsuHPI	GGTGA	4 cut(s)	37, 469, 802, 983
AsuII	TTCGAA	1 cut(s)	833
BamHI	GGATCC	1 cut(s)	654
BanI	GGYRCC	1 cut(s)	370
BauI	CACGAG	1 cut(s)	966
BbsI	GAAGAC	3 cut(s)	231, 686, 893
BbvI	GCAGC	2 cut(s)	125, 554
BccI	CCATC	4 cut(s)	481, 691, 757, 811
BceAI	ACGGC	3 cut(s)	117, 206, 244
BciT130I	CCWGG	1 cut(s)	119
BclI	TGATCA	2 cut(s)	648, 973
BcoDI	GTCTC	1 cut(s)	564
BfmI	CTRYAG	1 cut(s)	568
BfuAI	ACCTGC	1 cut(s)	561
BglII	AGATCT	1 cut(s)	691
BisI	GCNGC	2 cut(s)	139, 568
BlsI	GCNGC	2 cut(s)	140, 569
Bme1390I	CCNGG	1 cut(s)	119
BmiI	GGNNCC	3 cut(s)	372, 656, 753
BmrFI	CCNGG	1 cut(s)	119
BmsI	GCATC	2 cut(s)	495, 585
BoxI	GACNNNNGTC	1 cut(s)	525
BpiI	GAAGAC	3 cut(s)	231, 686, 893
BpmI	CTGGAG	1 cut(s)	821
Bpu14I	TTCGAA	1 cut(s)	833
BsaAI	YACGTR	1 cut(s)	400
BsaBI	GATNNNNATC	1 cut(s)	653
BsaJI	CCNNGG	2 cut(s)	133, 891
Bse118I	RCCGGY	1 cut(s)	754
Bse3DI	GCAATG	1 cut(s)	160
Bse8I	GATNNNNATC	1 cut(s)	653
BseBI	CCWGG	1 cut(s)	119
BseDI	CCNNGG	2 cut(s)	133, 891
BseGI	GGATG	3 cut(s)	270, 415, 600
BseJI	GATNNNNATC	1 cut(s)	653
BseMI	GCAATG	1 cut(s)	160
BseMII	CTCAG	1 cut(s)	797
BseRI	GAGGAG	2 cut(s)	764, 881
BseXI	GCAGC	2 cut(s)	125, 554
BsgI	GTGCAG	2 cut(s)	229, 359
BshFI	GGCC	1 cut(s)	231
BshNI	GGYRCC	1 cut(s)	370
BsiSI	CCGG	1 cut(s)	755
BsmAI	GTCTC	1 cut(s)	564
BsnI	GGCC	1 cut(s)	231
Bsp119I	TTCGAA	1 cut(s)	833
Bsp143I	GATC	4 cut(s)	648, 654, 691, 973
BspACI	CCGC	3 cut(s)	130, 174, 368
BspANI	GGCC	1 cut(s)	231
BspCNI	CTCAG	1 cut(s)	798
BspHI	TCATGA	1 cut(s)	915
BspLI	GGNNCC	3 cut(s)	372, 656, 753
BspMAI	CTGCAG	1 cut(s)	572
BspMI	ACCTGC	1 cut(s)	561
BspPI	GGATC	2 cut(s)	649, 662
BspT104I	TTCGAA	1 cut(s)	833
BspT107I	GGYRCC	1 cut(s)	370
BsrDI	GCAATG	1 cut(s)	160
BsrFI	RCCGGY	1 cut(s)	754
BssAI	RCCGGY	1 cut(s)	754
BssECI	CCNNGG	2 cut(s)	133, 891
BssMI	GATC	4 cut(s)	648, 654, 691, 973
BssSI	CACGAG	1 cut(s)	966
BssT1I	CCWWGG	1 cut(s)	891
Bst2BI	CACGAG	1 cut(s)	966
Bst2UI	CCWGG	1 cut(s)	119
Bst4CI	ACNGT	3 cut(s)	386, 556, 671
Bst6I	CTCTTC	2 cut(s)	302, 435
BstBAI	YACGTR	1 cut(s)	400
BstBI	TTCGAA	1 cut(s)	833
BstC8I	GCNNGC	4 cut(s)	375, 510, 756, 923
BstDEI	CTNAG	1 cut(s)	806
BstDSI	CCRYGG	1 cut(s)	133
BstF5I	GGATG	3 cut(s)	270, 415, 600
BstHHI	GCGC	2 cut(s)	143, 264
BstKTI	GATC	4 cut(s)	651, 657, 694, 976
BstMAI	GTCTC	1 cut(s)	564
BstMBI	GATC	4 cut(s)	648, 654, 691, 973
BstMWI	GCNNNNNNNGC	5 cut(s)	138, 374, 505, 573, 595
BstNI	CCWGG	1 cut(s)	119
BstNSI	RCATGY	1 cut(s)	925
BstPAI	GACNNNNGTC	1 cut(s)	525
BstSCI	CCNGG	1 cut(s)	117
BstSFI	CTRYAG	1 cut(s)	568
BstV1I	GCAGC	2 cut(s)	125, 554
BstV2I	GAAGAC	3 cut(s)	231, 686, 893
BstX2I	RGATCY	2 cut(s)	654, 691
BstYI	RGATCY	2 cut(s)	654, 691
BsuRI	GGCC	1 cut(s)	231
BtgI	CCRYGG	1 cut(s)	133
BtgZI	GCGATG	1 cut(s)	591
BtsCI	GGATG	3 cut(s)	270, 415, 600
BtsIMutI	CAGTG	2 cut(s)	391, 676
BveI	ACCTGC	1 cut(s)	561
Cac8I	GCNNGC	4 cut(s)	375, 510, 756, 923
CaiI	CAGNNNCTG	1 cut(s)	19
CciI	TCATGA	1 cut(s)	915
CfoI	GCGC	2 cut(s)	143, 264
Cfr10I	RCCGGY	1 cut(s)	754
CviAII	CATG	5 cut(s)	70, 661, 858, 916, 922
DdeI	CTNAG	1 cut(s)	806
DpnI	GATC	4 cut(s)	650, 656, 693, 975
DpnII	GATC	4 cut(s)	648, 654, 691, 973
DraIII	CACNNNGTG	1 cut(s)	971
EaeI	YGGCCR	1 cut(s)	229
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)	891
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)	891
ErhI	CCWWGG	1 cut(s)	891
FaeI	CATG	5 cut(s)	73, 664, 861, 919, 925
FalI	AAGNNNNNCTT	2 cut(s)	432, 464
FatI	CATG	5 cut(s)	69, 660, 857, 915, 921
FauI	CCCGC	1 cut(s)	181
FbaI	TGATCA	2 cut(s)	648, 973
FblI	GTMKAC	2 cut(s)	240, 282
Fnu4HI	GCNGC	2 cut(s)	139, 568
FokI	GGATG	3 cut(s)	257, 402, 607
Fsp4HI	GCNGC	2 cut(s)	139, 568
GlaI	GCGC	2 cut(s)	142, 263
GluI	GCNGC	2 cut(s)	139, 568
GsuI	CTGGAG	1 cut(s)	821
HaeIII	GGCC	1 cut(s)	231
HapII	CCGG	1 cut(s)	755
HhaI	GCGC	2 cut(s)	143, 264
Hin1II	CATG	5 cut(s)	73, 664, 861, 919, 925
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	6 cut(s)	412, 452, 733, 796, 850, 874
HpaII	CCGG	1 cut(s)	755
HphI	GGTGA	4 cut(s)	37, 469, 802, 983
Hpy166II	GTNNAC	4 cut(s)	209, 241, 283, 520
Hpy188I	TCNGA	9 cut(s)	67, 223, 360, 504, 696, 762, 816, 855, 879
Hpy188III	TCNNGA	7 cut(s)	40, 530, 541, 652, 800, 916, 977
Hpy8I	GTNNAC	4 cut(s)	209, 241, 283, 520
HpyAV	CCTTC	5 cut(s)	16, 112, 712, 781, 829
HpyCH4III	ACNGT	3 cut(s)	386, 556, 671
HpyCH4IV	ACGT	3 cut(s)	46, 399, 955
HpyCH4V	TGCA	5 cut(s)	91, 246, 340, 512, 570
HpyF10VI	GCNNNNNNNGC	5 cut(s)	138, 374, 505, 573, 595
HpyF3I	CTNAG	1 cut(s)	806
HpySE526I	ACGT	3 cut(s)	46, 399, 955
Hsp92II	CATG	5 cut(s)	73, 664, 861, 919, 925
HspAI	GCGC	2 cut(s)	141, 262
KroI	GCCGGC	1 cut(s)	754
KroNI	GCCGGC	1 cut(s)	756
Ksp22I	TGATCA	2 cut(s)	648, 973
Kzo9I	GATC	4 cut(s)	648, 654, 691, 973
LmnI	GCTCC	5 cut(s)	104, 490, 751, 802, 868
Lsp1109I	GCAGC	2 cut(s)	125, 554
LweI	GCATC	2 cut(s)	495, 585
MaeII	ACGT	3 cut(s)	46, 399, 955
MaeIII	GTNAC	3 cut(s)	25, 395, 457
MalI	GATC	4 cut(s)	650, 656, 693, 975
MboI	GATC	4 cut(s)	648, 654, 691, 973
MflI	RGATCY	2 cut(s)	654, 691
MluCI	AATT	5 cut(s)	92, 125, 351, 583, 608
MlyI	GAGTC	2 cut(s)	421, 868
MmeI	TCCRAC	2 cut(s)	90, 878
MroNI	GCCGGC	1 cut(s)	754
MslI	CAYNNNNRTG	2 cut(s)	335, 920
MspI	CCGG	1 cut(s)	755
MspR9I	CCNGG	1 cut(s)	119
MvaI	CCWGG	1 cut(s)	119
MwoI	GCNNNNNNNGC	5 cut(s)	138, 374, 505, 573, 595
NaeI	GCCGGC	1 cut(s)	756
NdeII	GATC	4 cut(s)	648, 654, 691, 973
NgoMIV	GCCGGC	1 cut(s)	754
NlaIII	CATG	5 cut(s)	73, 664, 861, 919, 925
NlaIV	GGNNCC	3 cut(s)	372, 656, 753
NmuCI	GTSAC	3 cut(s)	25, 395, 457
NspI	RCATGY	1 cut(s)	925
NspV	TTCGAA	1 cut(s)	833
PaeI	GCATGC	1 cut(s)	925
PagI	TCATGA	1 cut(s)	915
PaqCI	CACCTGC	1 cut(s)	561
PcsI	WCGNNNNNNNCGW	1 cut(s)	405
PdiI	GCCGGC	1 cut(s)	756
PfeI	GAWTC	4 cut(s)	452, 733, 796, 850
PflFI	GACNNNGTC	2 cut(s)	536, 556
PkrI	GCNGC	2 cut(s)	140, 569
PleI	GAGTC	2 cut(s)	420, 868
PpsI	GAGTC	2 cut(s)	420, 868
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	3 cut(s)	372, 656, 753
PstI	CTGCAG	1 cut(s)	572
PstNI	CAGNNNCTG	1 cut(s)	19
PsuI	RGATCY	2 cut(s)	654, 691
PsyI	GACNNNGTC	2 cut(s)	536, 556
RseI	CAYNNNNRTG	2 cut(s)	335, 920
SalI	GTCGAC	2 cut(s)	239, 281
SatI	GCNGC	2 cut(s)	139, 568
Sau3AI	GATC	4 cut(s)	648, 654, 691, 973
SchI	GAGTC	2 cut(s)	421, 868
ScrFI	CCNGG	1 cut(s)	119
SfaNI	GCATC	2 cut(s)	495, 585
SfcI	CTRYAG	1 cut(s)	568
SfuI	TTCGAA	1 cut(s)	833
SmiMI	CAYNNNNRTG	2 cut(s)	335, 920
SphI	GCATGC	1 cut(s)	925
Sse9I	AATT	5 cut(s)	92, 125, 351, 583, 608
SsiI	CCGC	3 cut(s)	130, 174, 368
StyD4I	CCNGG	1 cut(s)	117
StyI	CCWWGG	1 cut(s)	891
TaaI	ACNGT	3 cut(s)	386, 556, 671
TaiI	ACGT	3 cut(s)	49, 402, 958
TaqI	TCGA	6 cut(s)	41, 240, 282, 297, 551, 833
TasI	AATT	5 cut(s)	92, 125, 351, 583, 608
TfiI	GAWTC	4 cut(s)	452, 733, 796, 850
TscAI	CASTG	2 cut(s)	391, 676
TseFI	GTSAC	3 cut(s)	25, 395, 457
TseI	GCWGC	2 cut(s)	138, 567
Tsp45I	GTSAC	3 cut(s)	25, 395, 457
TspDTI	ATGAA	6 cut(s)	316, 320, 363, 896, 904, 966
TspGWI	ACGGA	1 cut(s)	408
TspRI	CASTG	2 cut(s)	391, 676
Tth111I	GACNNNGTC	2 cut(s)	536, 556
XapI	RAATTY	2 cut(s)	125, 351
XceI	RCATGY	1 cut(s)	925
XmiI	GTMKAC	2 cut(s)	240, 282

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