Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0019347

Physical Location & Seq

Genomic Coordinates Forward (+)

54661146 .. 54661730

Gene Structure 585 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG313800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGAAGATGAATTGTCGGACATATAGGGTTACCATCCCCCACGACCTTAATATGGTTAGTGAAATAAATAGTGATGCATTGTTCATCTTGCTGATTGACCAATCATCTAATGCTTATATACTGGAAAGAGAGCTGGCTCGGTTTGCAGAGCGCTTTCCATGCATCATTGTGTTTATCAATCAAGTACATGGACAGCCTGCTAACACTACGGGGCTTTTCTTGATGGAGATGAAGATGAAGTTTCCTAACGTGCCGATGCTGGCTCTTGTCAGTCCAGAAGGAGTGAAGATGTTACTTTCACTCGAGGGACTTGATGTCAAGTGGTTAGGAATCAGAAGGGACGATTTTGCCAAATATAAAATACCTACCAATGTCGACGCGCCACTGACTGAAGTTGACATCAAGTTGGCGAGACATCTCTTGGAGGAAGAACGTGTCCAAAAGAATCCGGTATTGCGTGATGAGCTGAATCACATGGTAGCCACGGAGAGTATGGTAGAATCTGATGCTCTGCTAGCTTTGGGGGCACCCTTCTTGTATCAGGTTTATTTACCACTCAAACTCCAGTATATGGATTGGCAATGA

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

194

Amino Acids

22.34

Weight (kDa)

5.41

Isoelectric Point (pI)

39.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	29 - 188	1.2e-14	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)

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Orthologous Genes (Group: OG0019347)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0363151
rosa_laevigata	RLG00000027588
rosa_multiflora	Rmu_sc0002925.1_g000001
rosa_roxburghii	Rroxscaffold_4G00293410
rosa_rugosa	Rorug01G0305100.1
rosa_samantha	Rh1AG313800 Rh1BG277300 Rh1DG308000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	526
AccB7I	CCANNNNNTGG	1 cut(s)	571
AccI	GTMKAC	1 cut(s)	375
AccII	CGCG	1 cut(s)	380
AcuI	CTGAAG	1 cut(s)	411
AfaI	GTAC	1 cut(s)	186
AfeI	AGCGCT	1 cut(s)	152
AfiI	CCNNNNNNNGG	2 cut(s)	52, 571
AflIII	ACRYGT	1 cut(s)	433
AhdI	GACNNNNNGTC	1 cut(s)	314
AluBI	AGCT	3 cut(s)	133, 466, 518
AluI	AGCT	3 cut(s)	133, 466, 518
Alw26I	GTCTC	1 cut(s)	406
Ama87I	CYCGRG	1 cut(s)	302
Aor51HI	AGCGCT	1 cut(s)	152
AspLEI	GCGC	2 cut(s)	153, 382
AsuNHI	GCTAGC	1 cut(s)	514
AvaI	CYCGRG	1 cut(s)	302
BaeGI	GKGCMC	1 cut(s)	529
BanI	GGYRCC	1 cut(s)	526
BccI	CCATC	2 cut(s)	41, 217
BcoDI	GTCTC	1 cut(s)	406
BfaI	CTAG	1 cut(s)	515
BfoI	RGCGCY	1 cut(s)	154
BmeRI	GACNNNNNGTC	1 cut(s)	314
BmeT110I	CYCGRG	1 cut(s)	302
BmiI	GGNNCC	1 cut(s)	528
BmsI	GCATC	4 cut(s)	64, 171, 246, 496
BmtI	GCTAGC	1 cut(s)	518
BpmI	CTGGAG	1 cut(s)	548
BsaJI	CCNNGG	1 cut(s)	483
BsaWI	WCCGGW	1 cut(s)	448
BsaXI	ACNNNNNCTCC	2 cut(s)	546, 576
Bsc4I	CCNNNNNNNGG	2 cut(s)	52, 571
Bse1I	ACTGG	2 cut(s)	126, 565
BseDI	CCNNGG	1 cut(s)	483
BseGI	GGATG	1 cut(s)	33
BseLI	CCNNNNNNNGG	2 cut(s)	52, 571
BseNI	ACTGG	2 cut(s)	126, 565
BseSI	GKGCMC	1 cut(s)	529
Bsh1236I	CGCG	1 cut(s)	380
BshNI	GGYRCC	1 cut(s)	526
BsiHKCI	CYCGRG	1 cut(s)	302
BsiSI	CCGG	1 cut(s)	449
BslFI	GGGAC	2 cut(s)	321, 353
BslI	CCNNNNNNNGG	2 cut(s)	52, 571
BsmAI	GTCTC	1 cut(s)	406
BsmFI	GGGAC	2 cut(s)	321, 353
BsoBI	CYCGRG	1 cut(s)	302
Bsp1286I	GDGCHC	1 cut(s)	529
BspFNI	CGCG	1 cut(s)	380
BspLI	GGNNCC	1 cut(s)	528
BspOI	GCTAGC	1 cut(s)	518
BspT107I	GGYRCC	1 cut(s)	526
BsrI	ACTGG	2 cut(s)	126, 565
BssECI	CCNNGG	1 cut(s)	483
BstC8I	GCNNGC	4 cut(s)	135, 198, 261, 516
BstDSI	CCRYGG	1 cut(s)	483
BstEII	GGTNACC	1 cut(s)	28
BstF5I	GGATG	1 cut(s)	33
BstFNI	CGCG	1 cut(s)	380
BstH2I	RGCGCY	1 cut(s)	154
BstHHI	GCGC	2 cut(s)	153, 382
BstMAI	GTCTC	1 cut(s)	406
BstMWI	GCNNNNNNNGC	5 cut(s)	143, 159, 463, 515, 524
BstPI	GGTNACC	1 cut(s)	28
BstSLI	GKGCMC	1 cut(s)	529
BstUI	CGCG	1 cut(s)	380
BtgI	CCRYGG	1 cut(s)	483
BtsCI	GGATG	1 cut(s)	33
BtsIMutI	CAGTG	1 cut(s)	383
Cac8I	GCNNGC	4 cut(s)	135, 198, 261, 516
CfoI	GCGC	2 cut(s)	153, 382
CseI	GACGC	1 cut(s)	386
Csp6I	GTAC	1 cut(s)	185
CviAII	CATG	3 cut(s)	159, 188, 475
CviJI	RGCY	8 cut(s)	133, 137, 196, 214, 263, 466, 482, 518
CviKI_1	RGCY	8 cut(s)	133, 137, 196, 214, 263, 466, 482, 518
CviQI	GTAC	1 cut(s)	185
DriI	GACNNNNNGTC	1 cut(s)	314
Eam1105I	GACNNNNNGTC	1 cut(s)	314
Eco47III	AGCGCT	1 cut(s)	152
Eco57I	CTGAAG	1 cut(s)	411
Eco88I	CYCGRG	1 cut(s)	302
Eco91I	GGTNACC	1 cut(s)	28
EcoO65I	GGTNACC	1 cut(s)	28
EcoT22I	ATGCAT	2 cut(s)	79, 164
FaeI	CATG	3 cut(s)	162, 191, 478
FaqI	GGGAC	2 cut(s)	321, 353
FatI	CATG	3 cut(s)	158, 187, 474
FblI	GTMKAC	1 cut(s)	375
FokI	GGATG	1 cut(s)	20
FspBI	CTAG	1 cut(s)	515
GlaI	GCGC	2 cut(s)	152, 381
GsuI	CTGGAG	1 cut(s)	548
HaeII	RGCGCY	1 cut(s)	154
HapII	CCGG	1 cut(s)	449
HgaI	GACGC	1 cut(s)	386
HhaI	GCGC	2 cut(s)	153, 382
Hin1II	CATG	3 cut(s)	162, 191, 478
Hin6I	GCGC	2 cut(s)	151, 380
HinP1I	GCGC	2 cut(s)	151, 380
HincII	GTYRAC	2 cut(s)	376, 397
HindII	GTYRAC	2 cut(s)	376, 397
HinfI	GANTC	4 cut(s)	330, 445, 469, 500
HpaII	CCGG	1 cut(s)	449
Hpy166II	GTNNAC	2 cut(s)	376, 397
Hpy188I	TCNGA	3 cut(s)	18, 335, 505
Hpy188III	TCNNGA	2 cut(s)	220, 275
Hpy8I	GTNNAC	2 cut(s)	376, 397
Hpy99I	CGWCG	1 cut(s)	380
HpyAV	CCTTC	3 cut(s)	272, 330, 541
HpyCH4IV	ACGT	2 cut(s)	249, 433
HpyCH4V	TGCA	3 cut(s)	77, 146, 162
HpyF10VI	GCNNNNNNNGC	5 cut(s)	143, 159, 463, 515, 524
HpySE526I	ACGT	2 cut(s)	249, 433
Hsp92II	CATG	3 cut(s)	162, 191, 478
HspAI	GCGC	2 cut(s)	151, 380
LpnPI	CCDG	8 cut(s)	107, 119, 210, 245, 288, 462, 527, 578
LweI	GCATC	4 cut(s)	64, 171, 246, 496
MaeI	CTAG	1 cut(s)	515
MaeII	ACGT	2 cut(s)	249, 433
MaeIII	GTNAC	2 cut(s)	28, 291
MboII	GAAGA	4 cut(s)	16, 244, 298, 440
MhlI	GDGCHC	1 cut(s)	529
MluCI	AATT	1 cut(s)	10
MnlI	CCTC	2 cut(s)	298, 418
Mph1103I	ATGCAT	2 cut(s)	79, 164
MseI	TTAA	1 cut(s)	48
MslI	CAYNNNNRTG	1 cut(s)	167
MspI	CCGG	1 cut(s)	449
MvnI	CGCG	1 cut(s)	380
MwoI	GCNNNNNNNGC	5 cut(s)	143, 159, 463, 515, 524
NheI	GCTAGC	1 cut(s)	514
NlaIII	CATG	3 cut(s)	162, 191, 478
NlaIV	GGNNCC	1 cut(s)	528
NsiI	ATGCAT	2 cut(s)	79, 164
PaeR7I	CTCGAG	1 cut(s)	302
PfeI	GAWTC	4 cut(s)	330, 445, 469, 500
PflMI	CCANNNNNTGG	1 cut(s)	571
PspEI	GGTNACC	1 cut(s)	28
PspN4I	GGNNCC	1 cut(s)	528
PspXI	VCTCGAGB	1 cut(s)	302
RsaI	GTAC	1 cut(s)	186
RsaNI	GTAC	1 cut(s)	185
RseI	CAYNNNNRTG	1 cut(s)	167
SalI	GTCGAC	1 cut(s)	374
SaqAI	TTAA	1 cut(s)	48
SduI	GDGCHC	1 cut(s)	529
SetI	ASST	8 cut(s)	48, 135, 252, 367, 436, 468, 520, 546
SfaNI	GCATC	4 cut(s)	64, 171, 246, 496
Sfr274I	CTCGAG	1 cut(s)	302
SlaI	CTCGAG	1 cut(s)	302
SmiMI	CAYNNNNRTG	1 cut(s)	167
SmlI	CTYRAG	1 cut(s)	302
SmoI	CTYRAG	1 cut(s)	302
Sse9I	AATT	1 cut(s)	10
SspMI	CTAG	1 cut(s)	515
TaiI	ACGT	2 cut(s)	252, 436
TaqI	TCGA	2 cut(s)	303, 375
TasI	AATT	1 cut(s)	10
TatI	WGTACW	1 cut(s)	184
TfiI	GAWTC	4 cut(s)	330, 445, 469, 500
Tru1I	TTAA	1 cut(s)	48
Tru9I	TTAA	1 cut(s)	48
TscAI	CASTG	1 cut(s)	390
TspDTI	ATGAA	5 cut(s)	17, 23, 73, 245, 251
TspGWI	ACGGA	1 cut(s)	500
TspRI	CASTG	1 cut(s)	390
Van91I	CCANNNNNTGG	1 cut(s)	571
XcmI	CCANNNNNNNNNTGG	1 cut(s)	490
XhoI	CTCGAG	1 cut(s)	302
XmiI	GTMKAC	1 cut(s)	375
XspI	CTAG	1 cut(s)	515
Zsp2I	ATGCAT	2 cut(s)	79, 164

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