Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Forward (+)

82701770 .. 82702939

Gene Structure 1170 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG583600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGGCTTCTTGTTTTGGTCTACATAGCAAACCAAGCTGGAAAGTACCGGATAGAGAAAACGTCCTCGAATTAATAAACGTACAGAGCGCAATATACACCGGGCTGATGGATGAGACCGCCCCAACATCCTCCTCTATACTTGAAGATGGCGATTATCATGAGGTCAAAGACCTCTCTGTCTCTGAAGTTGTGGAGAGATGTGAAGCTCTCTTGAAAAAATTAGATGATGAGAACTTCAGTTTGATTTCACGAGACAAGTCTAACCAGACCTATTGTGCTTGTAGTGATGGCGTCAAACGTTATGCGCTGAAGGATATAAATAAATGCTCAAAACCAAGTGCAAAGAAAAGAGAAGTCATCCGTTATATAATTAATGTTGTTATTGAGTCCTGCGAACAAGGAAAACGACCTATGTTCGAACAACAAAAAATATTGAACTCAGCTCTTGATGACATTTGTTGCGCTATAAACTGCAGCAGATCCAACCTCAACATAGATGCTAGTGCAAGAGGCGTTGTTGGAGGTCTGCTTTCGATCAAGATTGGAAATTACAAAACCTTGTGTACACGCAGGGATGATGGGGAACCCATCCCGCCTTTTATGCATTCAGATATTATTTTGAAGAATCGTGGAGCCAAGTTCGTATTGGTGGTGGAAAAGAAATCCGCTTTTAATACTCTCATGCAAGACAAGTTTTACGTTGATTATCCATGTATAATCATCACCGGAATGGGAATGCCGGAGGTGGGGAGCAGAAGTTTTCTAAACGTAATGTCGGAGAAGTTTAAGATTCCAGTGTATGGCCTTTTCGACTGTGATCCAGCTGGCATCGAAATTTTTTCGGTTTATGCTGCGGGGTCGTACAATAAATCGTACGATAATGTGAATTTGACTTGCCCGTATATGATGTGGTTGGGTGTTTGGCCGAGTGACCTACATGCACTTAAAATACCCTGCCAGGATTTAACTCGATACGAGATTAAGAAAGTAGACCTTCTTTTGGAAAAAGATTTTGTGAAAGAGTATCCGACATTGCTTGAGGAGCTGCAACTTATGAAGAAGAAGAAGAAGAAGGCGAACCTTGAAGCTTTGGAGAAGTTTGGGCGCACTTGTTTGACCGAGTACTATTTGCCATATAAGTTGAAGTATCTCTTAACCGACACCGACTAA

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

389

Amino Acids

44.16

Weight (kDa)

6.88

Isoelectric Point (pI)

42.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	214 - 381	9.6e-53	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: OG0004536)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43731 FvH4_3g43753
rosa_chinensis	RchiOBHm_Chr2g0086091 RchiOBHm_Chr2g0089291 RchiOBHm_Chr2g0089851 RchiOBHm_Chr5g0083311
rosa_laevigata	RLG00000015741 RLG00000016061 RLG00000017209
rosa_multiflora	Rmu_co8293021.1_g000001 Rmu_co8360049.1_g000001 Rmu_sc0000388.1_g000047 Rmu_sc0002384.1_g000009 Rmu_sc0003382.1_g000021 Rmu_sc0017765.1_g000002 Rmu_ssc0000355.1_g000016
rosa_roxburghii	Rroxscaffold_2G00140180 Rroxscaffold_2G00151540
rosa_rugosa	Rorug01G0465600 Rorug01G0488800 Rorug02G0003700
rosa_samantha	Rh2AG015000 Rh2AG045100 Rh2AG048900 Rh2BG047800 Rh2CG016000 Rh2CG016100 Rh2CG045000 Rh2CG049900 Rh5BG561000 Rh5CG583600
rosa_wichuraiana	Rw2G001320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	176
AccB7I	CCANNNNNTGG	1 cut(s)	800
AccI	GTMKAC	2 cut(s)	19, 990
AciI	CCGC	4 cut(s)	117, 593, 666, 854
AclI	AACGTT	1 cut(s)	298
AclWI	GGATC	2 cut(s)	474, 812
AcoI	YGGCCR	1 cut(s)	923
AcsI	RAATTY	2 cut(s)	834, 886
AcuI	CTGAAG	3 cut(s)	204, 220, 329
AcyI	GRCGYC	1 cut(s)	291
AfaI	GTAC	6 cut(s)	45, 81, 565, 863, 875, 1124
AfiI	CCNNNNNNNGG	3 cut(s)	746, 800, 1000
AgsI	TTSAA	6 cut(s)	143, 214, 436, 622, 1085, 1144
AjnI	CCWGG	1 cut(s)	957
AluBI	AGCT	6 cut(s)	36, 206, 443, 824, 1045, 1088
AluI	AGCT	6 cut(s)	36, 206, 443, 824, 1045, 1088
Alw26I	GTCTC	3 cut(s)	107, 184, 246
AlwI	GGATC	2 cut(s)	474, 812
AoxI	GGCC	2 cut(s)	802, 923
ApeKI	GCWGC	3 cut(s)	474, 851, 1045
ApoI	RAATTY	2 cut(s)	834, 886
AseI	ATTAAT	2 cut(s)	71, 372
AspLEI	GCGC	4 cut(s)	89, 307, 464, 1107
AsuC2I	CCSGG	1 cut(s)	100
AsuHPI	GGTGA	1 cut(s)	715
AsuII	TTCGAA	1 cut(s)	417
BauI	CACGAG	1 cut(s)	249
BbvI	GCAGC	3 cut(s)	486, 838, 1032
BccI	CCATC	5 cut(s)	100, 140, 281, 572, 596
BciT130I	CCWGG	1 cut(s)	959
BciVI	GTATCC	1 cut(s)	1035
BcnI	CCSGG	1 cut(s)	100
BcoDI	GTCTC	3 cut(s)	107, 184, 246
BfaI	CTAG	1 cut(s)	501
BfmI	CTRYAG	1 cut(s)	472
BfuI	GTATCC	1 cut(s)	1035
BisI	GCNGC	3 cut(s)	475, 852, 1046
BlsI	GCNGC	3 cut(s)	476, 853, 1047
BmcAI	AGTACT	1 cut(s)	1124
Bme1390I	CCNGG	2 cut(s)	100, 959
BmiI	GGNNCC	2 cut(s)	585, 634
BmrFI	CCNGG	2 cut(s)	100, 959
BmsI	GCATC	2 cut(s)	487, 837
Bpu14I	TTCGAA	1 cut(s)	417
BpuEI	CTTGAG	1 cut(s)	1058
BpuMI	CCSGG	1 cut(s)	100
BsaHI	GRCGYC	1 cut(s)	291
BsaI	GGTCTC	1 cut(s)	107
BsaWI	WCCGGW	2 cut(s)	46, 725
BsaXI	ACNNNNNCTCC	2 cut(s)	742, 772
Bsc4I	CCNNNNNNNGG	3 cut(s)	746, 800, 1000
Bse1I	ACTGG	1 cut(s)	794
Bse3DI	GCAATG	1 cut(s)	1031
BseBI	CCWGG	1 cut(s)	959
BseGI	GGATG	5 cut(s)	115, 125, 357, 580, 588
BseLI	CCNNNNNNNGG	3 cut(s)	746, 800, 1000
BseMI	GCAATG	1 cut(s)	1031
BseMII	CTCAG	1 cut(s)	453
BseNI	ACTGG	1 cut(s)	794
BseRI	GAGGAG	2 cut(s)	121, 1055
BseXI	GCAGC	3 cut(s)	486, 838, 1032
BshFI	GGCC	2 cut(s)	804, 925
BsiSI	CCGG	4 cut(s)	47, 99, 726, 740
BsiWI	CGTACG	1 cut(s)	873
BslI	CCNNNNNNNGG	3 cut(s)	746, 800, 1000
BsmAI	GTCTC	3 cut(s)	107, 184, 246
BsmI	GAATGC	2 cut(s)	604, 741
BsnI	GGCC	2 cut(s)	804, 925
Bso31I	GGTCTC	1 cut(s)	107
Bsp119I	TTCGAA	1 cut(s)	417
Bsp1407I	TGTACA	1 cut(s)	563
Bsp143I	GATC	3 cut(s)	479, 534, 817
BspACI	CCGC	4 cut(s)	117, 593, 666, 854
BspANI	GGCC	2 cut(s)	804, 925
BspCNI	CTCAG	1 cut(s)	452
BspHI	TCATGA	1 cut(s)	157
BspLI	GGNNCC	2 cut(s)	585, 634
BspMAI	CTGCAG	1 cut(s)	476
BspPI	GGATC	2 cut(s)	474, 812
BspT104I	TTCGAA	1 cut(s)	417
BspTNI	GGTCTC	1 cut(s)	107
BsrDI	GCAATG	1 cut(s)	1031
BsrGI	TGTACA	1 cut(s)	563
BsrI	ACTGG	1 cut(s)	794
BssMI	GATC	3 cut(s)	479, 534, 817
BssNI	GRCGYC	1 cut(s)	291
BssSI	CACGAG	1 cut(s)	249
Bst2BI	CACGAG	1 cut(s)	249
Bst2UI	CCWGG	1 cut(s)	959
Bst4CI	ACNGT	1 cut(s)	815
BstACI	GRCGYC	1 cut(s)	291
BstAUI	TGTACA	1 cut(s)	563
BstBI	TTCGAA	1 cut(s)	417
BstC8I	GCNNGC	1 cut(s)	826
BstDEI	CTNAG	1 cut(s)	439
BstF5I	GGATG	5 cut(s)	115, 125, 357, 580, 588
BstHHI	GCGC	4 cut(s)	89, 307, 464, 1107
BstKTI	GATC	3 cut(s)	482, 537, 820
BstMAI	GTCTC	3 cut(s)	107, 184, 246
BstMBI	GATC	3 cut(s)	479, 534, 817
BstMWI	GCNNNNNNNGC	3 cut(s)	33, 601, 1042
BstNI	CCWGG	1 cut(s)	959
BstNSI	RCATGY	1 cut(s)	941
BstSCI	CCNGG	2 cut(s)	98, 957
BstSFI	CTRYAG	1 cut(s)	472
BstV1I	GCAGC	3 cut(s)	486, 838, 1032
BstX2I	RGATCY	1 cut(s)	479
BstYI	RGATCY	1 cut(s)	479
BsuI	GTATCC	1 cut(s)	1035
BsuRI	GGCC	2 cut(s)	804, 925
BtsCI	GGATG	5 cut(s)	115, 125, 357, 580, 588
BtsIMutI	CAGTG	1 cut(s)	801
Cac8I	GCNNGC	1 cut(s)	826
CciI	TCATGA	1 cut(s)	157
CfoI	GCGC	4 cut(s)	89, 307, 464, 1107
CseI	GACGC	1 cut(s)	280
Csp6I	GTAC	6 cut(s)	44, 80, 564, 862, 874, 1123
CviAII	CATG	4 cut(s)	158, 682, 711, 938
CviQI	GTAC	6 cut(s)	44, 80, 564, 862, 874, 1123
DdeI	CTNAG	1 cut(s)	439
DpnI	GATC	3 cut(s)	481, 536, 819
DpnII	GATC	3 cut(s)	479, 534, 817
DrdI	GACNNNNNNGTC	1 cut(s)	176
DseDI	GACNNNNNNGTC	1 cut(s)	176
EaeI	YGGCCR	1 cut(s)	923
Eco31I	GGTCTC	1 cut(s)	107
Eco57I	CTGAAG	3 cut(s)	204, 220, 329
EcoRII	CCWGG	1 cut(s)	957
EcoT22I	ATGCAT	1 cut(s)	606
FaeI	CATG	4 cut(s)	161, 685, 714, 941
FalI	AAGNNNNNCTT	4 cut(s)	978, 1010, 1136, 1168
FatI	CATG	4 cut(s)	157, 681, 710, 937
FauI	CCCGC	2 cut(s)	600, 847
FblI	GTMKAC	2 cut(s)	19, 990
Fnu4HI	GCNGC	3 cut(s)	475, 852, 1046
FokI	GGATG	5 cut(s)	112, 122, 344, 575, 587
Fsp4HI	GCNGC	3 cut(s)	475, 852, 1046
FspBI	CTAG	1 cut(s)	501
GlaI	GCGC	4 cut(s)	88, 306, 463, 1106
GluI	GCNGC	3 cut(s)	475, 852, 1046
HaeIII	GGCC	2 cut(s)	804, 925
HapII	CCGG	4 cut(s)	47, 99, 726, 740
HgaI	GACGC	1 cut(s)	280
HhaI	GCGC	4 cut(s)	89, 307, 464, 1107
Hin1I	GRCGYC	1 cut(s)	291
Hin1II	CATG	4 cut(s)	161, 685, 714, 941
Hin6I	GCGC	4 cut(s)	87, 305, 462, 1105
HinP1I	GCGC	4 cut(s)	87, 305, 462, 1105
HindIII	AAGCTT	1 cut(s)	1086
HinfI	GANTC	3 cut(s)	386, 625, 790
HpaII	CCGG	4 cut(s)	47, 99, 726, 740
HphI	GGTGA	1 cut(s)	715
Hpy166II	GTNNAC	4 cut(s)	20, 564, 566, 991
Hpy188I	TCNGA	4 cut(s)	184, 610, 778, 1029
Hpy188III	TCNNGA	5 cut(s)	158, 211, 249, 446, 538
Hpy8I	GTNNAC	4 cut(s)	20, 564, 566, 991
HpyAV	CCTTC	3 cut(s)	304, 1004, 1066
HpyCH4III	ACNGT	1 cut(s)	815
HpyCH4IV	ACGT	5 cut(s)	60, 78, 298, 699, 768
HpyCH4V	TGCA	7 cut(s)	341, 474, 506, 604, 685, 941, 1048
HpyF10VI	GCNNNNNNNGC	3 cut(s)	33, 601, 1042
HpyF3I	CTNAG	1 cut(s)	439
HpySE526I	ACGT	5 cut(s)	60, 78, 298, 699, 768
Hsp92I	GRCGYC	1 cut(s)	291
Hsp92II	CATG	4 cut(s)	161, 685, 714, 941
HspAI	GCGC	4 cut(s)	87, 305, 462, 1105
Kzo9I	GATC	3 cut(s)	479, 534, 817
LmnI	GCTCC	3 cut(s)	632, 750, 1042
Lsp1109I	GCAGC	3 cut(s)	486, 838, 1032
LweI	GCATC	2 cut(s)	487, 837
MaeI	CTAG	1 cut(s)	501
MaeII	ACGT	5 cut(s)	60, 78, 298, 699, 768
MaeIII	GTNAC	1 cut(s)	929
MalI	GATC	3 cut(s)	481, 536, 819
MboI	GATC	3 cut(s)	479, 534, 817
MboII	GAAGA	7 cut(s)	155, 634, 1069, 1072, 1075, 1078, 1081
MflI	RGATCY	1 cut(s)	479
MluCI	AATT	6 cut(s)	68, 218, 369, 547, 834, 886
MlyI	GAGTC	1 cut(s)	395
MmeI	TCCRAC	4 cut(s)	499, 507, 756, 1052
Mph1103I	ATGCAT	1 cut(s)	606
MseI	TTAA	8 cut(s)	71, 372, 672, 786, 945, 965, 981, 1154
MslI	CAYNNNNRTG	1 cut(s)	728
MspA1I	CMGCKG	1 cut(s)	824
MspI	CCGG	4 cut(s)	47, 99, 726, 740
MspR9I	CCNGG	2 cut(s)	100, 959
Mva1269I	GAATGC	2 cut(s)	604, 741
MvaI	CCWGG	1 cut(s)	959
MwoI	GCNNNNNNNGC	3 cut(s)	33, 601, 1042
NciI	CCSGG	1 cut(s)	100
NdeII	GATC	3 cut(s)	479, 534, 817
NlaIII	CATG	4 cut(s)	161, 685, 714, 941
NlaIV	GGNNCC	2 cut(s)	585, 634
NmeAIII	GCCGAG	1 cut(s)	951
NmuCI	GTSAC	1 cut(s)	929
NsiI	ATGCAT	1 cut(s)	606
NspI	RCATGY	1 cut(s)	941
NspV	TTCGAA	1 cut(s)	417
PagI	TCATGA	1 cut(s)	157
PctI	GAATGC	2 cut(s)	604, 741
PfeI	GAWTC	2 cut(s)	625, 790
Pfl23II	CGTACG	1 cut(s)	873
PflMI	CCANNNNNTGG	1 cut(s)	800
PkrI	GCNGC	3 cut(s)	476, 853, 1047
PleI	GAGTC	1 cut(s)	394
PpsI	GAGTC	1 cut(s)	394
PshBI	ATTAAT	2 cut(s)	71, 372
Psp1406I	AACGTT	1 cut(s)	298
Psp6I	CCWGG	1 cut(s)	957
PspGI	CCWGG	1 cut(s)	957
PspLI	CGTACG	1 cut(s)	873
PspN4I	GGNNCC	2 cut(s)	585, 634
PstI	CTGCAG	1 cut(s)	476
PsuI	RGATCY	1 cut(s)	479
PvuII	CAGCTG	1 cut(s)	824
RsaI	GTAC	6 cut(s)	45, 81, 565, 863, 875, 1124
RsaNI	GTAC	6 cut(s)	44, 80, 564, 862, 874, 1123
RseI	CAYNNNNRTG	1 cut(s)	728
SaqAI	TTAA	8 cut(s)	71, 372, 672, 786, 945, 965, 981, 1154
SatI	GCNGC	3 cut(s)	475, 852, 1046
Sau3AI	GATC	3 cut(s)	479, 534, 817
ScaI	AGTACT	1 cut(s)	1124
SchI	GAGTC	1 cut(s)	395
ScrFI	CCNGG	2 cut(s)	100, 959
SfaNI	GCATC	2 cut(s)	487, 837
SfcI	CTRYAG	1 cut(s)	472
SfuI	TTCGAA	1 cut(s)	417
SmiMI	CAYNNNNRTG	1 cut(s)	728
SmlI	CTYRAG	1 cut(s)	1037
SmoI	CTYRAG	1 cut(s)	1037
Sse9I	AATT	6 cut(s)	68, 218, 369, 547, 834, 886
SsiI	CCGC	4 cut(s)	117, 593, 666, 854
SspI	AATATT	1 cut(s)	432
SspMI	CTAG	1 cut(s)	501
StyD4I	CCNGG	2 cut(s)	98, 957
TaaI	ACNGT	1 cut(s)	815
TaiI	ACGT	5 cut(s)	63, 81, 301, 702, 771
TaqI	TCGA	6 cut(s)	66, 417, 533, 810, 831, 970
TaqII	GACCGA	1 cut(s)	1133
TasI	AATT	6 cut(s)	68, 218, 369, 547, 834, 886
TatI	WGTACW	2 cut(s)	563, 1122
TfiI	GAWTC	2 cut(s)	625, 790
Tru1I	TTAA	8 cut(s)	71, 372, 672, 786, 945, 965, 981, 1154
Tru9I	TTAA	8 cut(s)	71, 372, 672, 786, 945, 965, 981, 1154
TscAI	CASTG	1 cut(s)	801
TseFI	GTSAC	1 cut(s)	929
TseI	GCWGC	3 cut(s)	474, 851, 1045
Tsp45I	GTSAC	1 cut(s)	929
TspDTI	ATGAA	1 cut(s)	1070
TspGWI	ACGGA	1 cut(s)	350
TspRI	CASTG	1 cut(s)	801
Van91I	CCANNNNNTGG	1 cut(s)	800
VspI	ATTAAT	2 cut(s)	71, 372
XapI	RAATTY	2 cut(s)	834, 886
XceI	RCATGY	1 cut(s)	941
XcmI	CCANNNNNNNNNTGG	1 cut(s)	643
XmiI	GTMKAC	2 cut(s)	19, 990
XspI	CTAG	1 cut(s)	501
ZrmI	AGTACT	1 cut(s)	1124
Zsp2I	ATGCAT	1 cut(s)	606

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