Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0017998

Physical Location & Seq

Genomic Coordinates Reverse (-)

19403542 .. 19404537

Gene Structure 996 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG224900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

ATGGCTAATCACCAGAAACTGAAGGTGACACCAGAGTTCTCGAAACATATAGAGTTATTCCTCTCCGACATGGACGACAGCCTGAAACTGCAATTATGCTCCTTCGTCCTTGAAAACCTGGAAGAATTCCGCCGTGGCCGCGCCACCAAAACATATTCTCATTGCCCTATCCCCGCCTCCATTGAGGAACGGCGTGTCGTTGGGGGTCAACTTCAGTTCTCCGAAGACGGTCAAGAGGTTGACTGCACTAAAACGCAGGGGCGCAAAATCATCCCCAATGTCGACAAGGTTAGGGTCGATGATATGAAGAGTAGTTCTGGTAAGTTCATCTTGGTAGTCCAGAGGTACGAAATTTATCGGAGATTGGCAGTGCCTGCTAATGATAGTGATGTTGGTCACGTATTTTACGAGCGTCATCCGTGTATAGTTGTGAATGTTGAAGAGGAACTTGATTTGGTGACGAAGCTCTTTCTGTGTAAGCTGAAGATGGAGCTGAAGCTTCCGATGCTTGCACTTGTGGACAGCAGTCCAGACGGGGTTAAGATTATTTCGACTGTGTCTCAATGCTGCAGGTGCGATGTAAATTGGCTTGGGATGTTACCAAGCGAATTGGATAAAGGTATGTTTGCCATAGCCAAAGACCCTATGATCAGAATCCCCATGACTGACAGTGATTTGAAGACATTGGAAGATCTGATGGAGAATGACGACTTTGTGAAGGAGAAGATGAGGAATCCAAAATGTTTGGAGGAGCCGGCTCTGATGGAGAATGATGATTTGATTGAGAAGGTGAAGAATCTGGAGCTGAGTAATCTGATGGGGAATGATTTTTCGAAGGAGAATAGGAAGAATCCGACATGGTTTGAGGAGCTGACTCTGATGAAGAAGACCAAGACGAAGACCAAGGTTGAGGATTTTGACGATTTCATGAGCATGCTCTTTTCTATGTTGATAGTAGCCTATGAACGTAGCAACGCACGAGGTGATCAAGAGTAG

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

331

Amino Acids

38.13

Weight (kDa)

5.19

Isoelectric Point (pI)

40.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	109 - 245	1.7e-13	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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Align Labels (Cladogram)

Image

Tree File

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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
AccI	GTMKAC	1 cut(s)	282
AccII	CGCG	1 cut(s)	141
AciI	CCGC	3 cut(s)	130, 139, 174
AcoI	YGGCCR	1 cut(s)	136
AcsI	RAATTY	2 cut(s)	125, 351
AcuI	CTGAAG	4 cut(s)	41, 197, 503, 515
AdeI	CACNNNGTG	1 cut(s)	983
AfaI	GTAC	1 cut(s)	347
AgsI	TTSAA	3 cut(s)	113, 440, 679
AjnI	CCWGG	1 cut(s)	117
AluBI	AGCT	6 cut(s)	466, 481, 493, 499, 805, 871
AluI	AGCT	6 cut(s)	466, 481, 493, 499, 805, 871
Alw26I	GTCTC	1 cut(s)	564
AlwNI	CAGNNNCTG	2 cut(s)	19, 374
AoxI	GGCC	1 cut(s)	136
ApeKI	GCWGC	1 cut(s)	567
ApoI	RAATTY	2 cut(s)	125, 351
AspLEI	GCGC	2 cut(s)	143, 264
AsuHPI	GGTGA	4 cut(s)	37, 469, 802, 995
AsuII	TTCGAA	1 cut(s)	833
BauI	CACGAG	1 cut(s)	978
BbsI	GAAGAC	4 cut(s)	231, 686, 893, 905
BbvI	GCAGC	1 cut(s)	554
BccI	CCATC	4 cut(s)	481, 691, 757, 811
BceAI	ACGGC	2 cut(s)	117, 206
BciT130I	CCWGG	1 cut(s)	119
BclI	TGATCA	2 cut(s)	648, 985
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	1 cut(s)	753
BmrFI	CCNGG	1 cut(s)	119
BmsI	GCATC	1 cut(s)	495
BoxI	GACNNNNGTC	1 cut(s)	525
BpiI	GAAGAC	4 cut(s)	231, 686, 893, 905
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, 903
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, 903
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	1 cut(s)	554
BsgI	GTGCAG	1 cut(s)	229
Bsh1236I	CGCG	1 cut(s)	141
BshFI	GGCC	1 cut(s)	138
BsiSI	CCGG	1 cut(s)	755
BsmAI	GTCTC	1 cut(s)	564
BsnI	GGCC	1 cut(s)	138
Bsp119I	TTCGAA	1 cut(s)	833
Bsp143I	GATC	3 cut(s)	648, 691, 985
BspACI	CCGC	3 cut(s)	130, 139, 174
BspANI	GGCC	1 cut(s)	138
BspCNI	CTCAG	1 cut(s)	798
BspFNI	CGCG	1 cut(s)	141
BspHI	TCATGA	1 cut(s)	927
BspLI	GGNNCC	1 cut(s)	753
BspMAI	CTGCAG	1 cut(s)	572
BspMI	ACCTGC	1 cut(s)	561
BspT104I	TTCGAA	1 cut(s)	833
BsrDI	GCAATG	1 cut(s)	160
BsrFI	RCCGGY	1 cut(s)	754
BssAI	RCCGGY	1 cut(s)	754
BssECI	CCNNGG	2 cut(s)	133, 903
BssMI	GATC	3 cut(s)	648, 691, 985
BssSI	CACGAG	1 cut(s)	978
BssT1I	CCWWGG	1 cut(s)	903
Bst2BI	CACGAG	1 cut(s)	978
Bst2UI	CCWGG	1 cut(s)	119
Bst4CI	ACNGT	3 cut(s)	230, 556, 671
Bst6I	CTCTTC	2 cut(s)	302, 435
BstAPI	GCANNNNNTGC	1 cut(s)	374
BstBAI	YACGTR	1 cut(s)	400
BstBI	TTCGAA	1 cut(s)	833
BstC8I	GCNNGC	4 cut(s)	375, 510, 756, 935
BstDEI	CTNAG	1 cut(s)	806
BstDSI	CCRYGG	1 cut(s)	133
BstF5I	GGATG	3 cut(s)	270, 415, 600
BstFNI	CGCG	1 cut(s)	141
BstHHI	GCGC	2 cut(s)	143, 264
BstKTI	GATC	3 cut(s)	651, 694, 988
BstMAI	GTCTC	1 cut(s)	564
BstMBI	GATC	3 cut(s)	648, 691, 985
BstMWI	GCNNNNNNNGC	4 cut(s)	138, 374, 505, 573
BstNI	CCWGG	1 cut(s)	119
BstNSI	RCATGY	1 cut(s)	937
BstPAI	GACNNNNGTC	1 cut(s)	525
BstSCI	CCNGG	1 cut(s)	117
BstSFI	CTRYAG	1 cut(s)	568
BstUI	CGCG	1 cut(s)	141
BstV1I	GCAGC	1 cut(s)	554
BstV2I	GAAGAC	4 cut(s)	231, 686, 893, 905
BstX2I	RGATCY	1 cut(s)	691
BstYI	RGATCY	1 cut(s)	691
BsuRI	GGCC	1 cut(s)	138
BtgI	CCRYGG	1 cut(s)	133
BtgZI	GCGATG	1 cut(s)	591
BtsCI	GGATG	3 cut(s)	270, 415, 600
BtsI	GCAGTG	1 cut(s)	375
BtsIMutI	CAGTG	2 cut(s)	375, 676
BveI	ACCTGC	1 cut(s)	561
Cac8I	GCNNGC	4 cut(s)	375, 510, 756, 935
CaiI	CAGNNNCTG	2 cut(s)	19, 374
CciI	TCATGA	1 cut(s)	927
CfoI	GCGC	2 cut(s)	143, 264
Cfr10I	RCCGGY	1 cut(s)	754
CseI	GACGC	1 cut(s)	401
Csp6I	GTAC	1 cut(s)	346
CviAII	CATG	5 cut(s)	70, 661, 858, 928, 934
CviQI	GTAC	1 cut(s)	346
DdeI	CTNAG	1 cut(s)	806
DpnI	GATC	3 cut(s)	650, 693, 987
DpnII	GATC	3 cut(s)	648, 691, 985
DraIII	CACNNNGTG	1 cut(s)	983
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)	903
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)	903
ErhI	CCWWGG	1 cut(s)	903
FaeI	CATG	5 cut(s)	73, 664, 861, 931, 937
FalI	AAGNNNNNCTT	4 cut(s)	314, 346, 432, 464
FatI	CATG	5 cut(s)	69, 660, 857, 927, 933
FauI	CCCGC	1 cut(s)	181
FbaI	TGATCA	2 cut(s)	648, 985
FblI	GTMKAC	1 cut(s)	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)	138
HapII	CCGG	1 cut(s)	755
HgaI	GACGC	1 cut(s)	401
HhaI	GCGC	2 cut(s)	143, 264
Hin1II	CATG	5 cut(s)	73, 664, 861, 931, 937
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	5 cut(s)	654, 733, 796, 850, 874
HpaII	CCGG	1 cut(s)	755
HphI	GGTGA	4 cut(s)	37, 469, 802, 995
Hpy166II	GTNNAC	4 cut(s)	209, 241, 283, 520
Hpy188III	TCNNGA	7 cut(s)	40, 233, 340, 530, 800, 928, 989
Hpy8I	GTNNAC	4 cut(s)	209, 241, 283, 520
HpyAV	CCTTC	5 cut(s)	16, 112, 712, 781, 829
HpyCH4III	ACNGT	3 cut(s)	230, 556, 671
HpyCH4IV	ACGT	2 cut(s)	399, 967
HpyCH4V	TGCA	4 cut(s)	91, 246, 512, 570
HpyF10VI	GCNNNNNNNGC	4 cut(s)	138, 374, 505, 573
HpyF3I	CTNAG	1 cut(s)	806
HpySE526I	ACGT	2 cut(s)	399, 967
Hsp92II	CATG	5 cut(s)	73, 664, 861, 931, 937
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, 985
Kzo9I	GATC	3 cut(s)	648, 691, 985
LmnI	GCTCC	5 cut(s)	104, 490, 751, 802, 868
Lsp1109I	GCAGC	1 cut(s)	554
LweI	GCATC	1 cut(s)	495
MaeII	ACGT	2 cut(s)	399, 967
MaeIII	GTNAC	4 cut(s)	25, 395, 457, 597
MalI	GATC	3 cut(s)	650, 693, 987
MboI	GATC	3 cut(s)	648, 691, 985
MflI	RGATCY	1 cut(s)	691
MluCI	AATT	5 cut(s)	92, 125, 351, 583, 608
MlyI	GAGTC	1 cut(s)	868
MmeI	TCCRAC	2 cut(s)	90, 878
MroNI	GCCGGC	1 cut(s)	754
MseI	TTAA	1 cut(s)	540
MslI	CAYNNNNRTG	1 cut(s)	932
MspI	CCGG	1 cut(s)	755
MspR9I	CCNGG	1 cut(s)	119
MvaI	CCWGG	1 cut(s)	119
MvnI	CGCG	1 cut(s)	141
MwoI	GCNNNNNNNGC	4 cut(s)	138, 374, 505, 573
NaeI	GCCGGC	1 cut(s)	756
NdeII	GATC	3 cut(s)	648, 691, 985
NgoMIV	GCCGGC	1 cut(s)	754
NlaIII	CATG	5 cut(s)	73, 664, 861, 931, 937
NlaIV	GGNNCC	1 cut(s)	753
NmuCI	GTSAC	3 cut(s)	25, 395, 457
NspI	RCATGY	1 cut(s)	937
NspV	TTCGAA	1 cut(s)	833
PaeI	GCATGC	1 cut(s)	937
PagI	TCATGA	1 cut(s)	927
PaqCI	CACCTGC	1 cut(s)	561
PcsI	WCGNNNNNNNCGW	1 cut(s)	405
PdiI	GCCGGC	1 cut(s)	756
PfeI	GAWTC	4 cut(s)	654, 733, 796, 850
PflFI	GACNNNGTC	1 cut(s)	556
PkrI	GCNGC	2 cut(s)	140, 569
PleI	GAGTC	1 cut(s)	868
PpsI	GAGTC	1 cut(s)	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	1 cut(s)	753
PstI	CTGCAG	1 cut(s)	572
PstNI	CAGNNNCTG	2 cut(s)	19, 374
PsuI	RGATCY	1 cut(s)	691
PsyI	GACNNNGTC	1 cut(s)	556
RsaI	GTAC	1 cut(s)	347
RsaNI	GTAC	1 cut(s)	346
RseI	CAYNNNNRTG	1 cut(s)	932
SalI	GTCGAC	1 cut(s)	281
SaqAI	TTAA	1 cut(s)	540
SatI	GCNGC	2 cut(s)	139, 568
Sau3AI	GATC	3 cut(s)	648, 691, 985
SchI	GAGTC	1 cut(s)	868
ScrFI	CCNGG	1 cut(s)	119
SfaNI	GCATC	1 cut(s)	495
SfcI	CTRYAG	1 cut(s)	568
SfuI	TTCGAA	1 cut(s)	833
SmiMI	CAYNNNNRTG	1 cut(s)	932
SphI	GCATGC	1 cut(s)	937
Sse9I	AATT	5 cut(s)	92, 125, 351, 583, 608
SsiI	CCGC	3 cut(s)	130, 139, 174
StyD4I	CCNGG	1 cut(s)	117
StyI	CCWWGG	1 cut(s)	903
TaaI	ACNGT	3 cut(s)	230, 556, 671
TaiI	ACGT	2 cut(s)	402, 970
TaqI	TCGA	5 cut(s)	41, 282, 297, 551, 833
TasI	AATT	5 cut(s)	92, 125, 351, 583, 608
TauI	GCSGC	1 cut(s)	141
TfiI	GAWTC	4 cut(s)	654, 733, 796, 850
Tru1I	TTAA	1 cut(s)	540
Tru9I	TTAA	1 cut(s)	540
TscAI	CASTG	2 cut(s)	375, 676
TseFI	GTSAC	3 cut(s)	25, 395, 457
TseI	GCWGC	1 cut(s)	567
Tsp45I	GTSAC	3 cut(s)	25, 395, 457
TspDTI	ATGAA	5 cut(s)	316, 320, 896, 916, 978
TspGWI	ACGGA	1 cut(s)	408
TspRI	CASTG	2 cut(s)	375, 676
Tth111I	GACNNNGTC	1 cut(s)	556
XapI	RAATTY	2 cut(s)	125, 351
XceI	RCATGY	1 cut(s)	937
XmiI	GTMKAC	1 cut(s)	282

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