Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Reverse (-)

3597587 .. 3598681

Gene Structure 1095 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016061

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGTACACCATACTGATGGCTTATGAGAACGCTCCAATAGAAGATCCCAATCGTTACGAGGTCAAAGACCTCTCTACAGAGGAAGTACAGGAGAAACTTGAAGCTCTCAAGAAAAAATTAGATGATGGGAGCTTTAGTTGCATTTCACTAGACAAGTCCAACGTGACCTATGGTGAGTGTAGCGATGGCGTCAAACGTCTTACAGTGAAGGATATAAATAAACGCTCTAAACCAGGAGATGAAAAAAGAAAAAATATCCTTTCGATGGTTGATCTTATTCTCAAGTTCTTCCAAGCAACCAAGCTAGAAACACATCGTGGGGTGTTTTACGTAGGGAATAATACCAGTTCATTGTTCCGACAAAAAGAGTACGAAATTCTTGATGACATCTGTTGCACTATAGGCTACAGCAGTTCAAGTCTCTACGTAGATGCTAGGGTAAGAGGCGTTGTTGCAGGTCTGCTTTCTTTCGAGCTTGGAGGGCACGAAACCTTTTGTATGAGCCGGGATGATGGGGTACCCATCCCGCTGAATTCAGATATTAAAATGAAGAATCGTGGAGCCAAGTTCATATTGGTGGTGGAAAAGAAATCCGCTTTCAATACATTGATGCAAGATAAGTTTTACAATGATTATCCATGTATAATCATCTCCGGAATGGGAATGCCGGAGGTGGCGACCAGAAGATTTTTAAAGCTATTATCGAATAATTTTGGGCTTCCAGTGTATGGCCTTTTCGACTGTGATCCAGAAGGCATCAAAATGTTTACAATTTATACTGTTGGATCATATGAAGAGGCCTTCGATAGTGTAAACTTAACTTGGCCGTATATGACGTGGTTGGGTGTTTGGCCGAGTGACCTATGCGCGCTTGATATACCCTGCAAGGATTTGAGTCCGAATGAGATTGGATTGGTAGATTATCTTTTGATAGAAGATTTTGTGAAAGAGCATCCTAGGTTGGTTGAGGAGCTGGAACCTATGAAAATAACGGAGAAAAAAGCGAATCTTGAAGCTTTGAAGGAGTTTGGGCCCACTTGTTTGTCCAAGTGCTACTTGCCATATAAGTTGAATTATCTTTTGACCGCCCCGTGA

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

365

Amino Acids

41.36

Weight (kDa)

5.16

Isoelectric Point (pI)

41.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	190 - 357	4.5e-46	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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Publication-ready

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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)
Acc36I	ACCTGC	1 cut(s)	446
Acc65I	GGTACC	1 cut(s)	517
AccB1I	GGYRCC	1 cut(s)	517
AccB7I	CCANNNNNTGG	1 cut(s)	728
AccII	CGCG	1 cut(s)	869
AccIII	TCCGGA	1 cut(s)	653
AciI	CCGC	3 cut(s)	527, 594, 1086
AclWI	GGATC	3 cut(s)	38, 740, 793
AcoI	YGGCCR	2 cut(s)	824, 851
AcsI	RAATTY	2 cut(s)	375, 532
AcyI	GRCGYC	1 cut(s)	189
AdeI	CACNNNGTG	1 cut(s)	317
AfaI	GTAC	4 cut(s)	5, 87, 371, 519
AfiI	CCNNNNNNNGG	2 cut(s)	265, 728
AgsI	TTSAA	6 cut(s)	101, 417, 601, 1013, 1021, 1072
AjiI	CACGTC	1 cut(s)	837
AjnI	CCWGG	1 cut(s)	232
AluBI	AGCT	7 cut(s)	104, 132, 304, 475, 697, 973, 1016
AluI	AGCT	7 cut(s)	104, 132, 304, 475, 697, 973, 1016
Alw26I	GTCTC	1 cut(s)	425
AlwI	GGATC	3 cut(s)	38, 740, 793
Aor13HI	TCCGGA	1 cut(s)	653
AoxI	GGCC	5 cut(s)	730, 798, 824, 851, 1031
ApaI	GGGCCC	1 cut(s)	1035
ApoI	RAATTY	2 cut(s)	375, 532
Asp718I	GGTACC	1 cut(s)	517
AspA2I	CCTAGG	1 cut(s)	956
AspLEI	GCGC	2 cut(s)	869, 871
AspS9I	GGNCC	2 cut(s)	1031, 1032
AsuC2I	CCSGG	1 cut(s)	506
AsuHPI	GGTGA	1 cut(s)	185
AvrII	CCTAGG	1 cut(s)	956
BaeGI	GKGCMC	2 cut(s)	486, 1035
BanI	GGYRCC	1 cut(s)	517
BanII	GRGCYC	1 cut(s)	1035
BccI	CCATC	6 cut(s)	10, 119, 179, 259, 506, 530
BceAI	ACGGC	1 cut(s)	811
BciT130I	CCWGG	1 cut(s)	234
BcnI	CCSGG	1 cut(s)	506
BcoDI	GTCTC	1 cut(s)	425
BfaI	CTAG	4 cut(s)	149, 305, 435, 957
BfmI	CTRYAG	3 cut(s)	75, 399, 406
BfuAI	ACCTGC	1 cut(s)	446
BlnI	CCTAGG	1 cut(s)	956
Bme1390I	CCNGG	2 cut(s)	234, 506
BmgBI	CACGTC	1 cut(s)	837
BmgT120I	GGNCC	2 cut(s)	1031, 1032
BmiI	GGNNCC	4 cut(s)	519, 562, 978, 1033
BmrFI	CCNGG	2 cut(s)	234, 506
BmsI	GCATC	4 cut(s)	421, 600, 765, 961
BpuEI	CTTGAG	2 cut(s)	92, 266
BpuMI	CCSGG	1 cut(s)	506
BsaAI	YACGTR	2 cut(s)	331, 427
BsaBI	GATNNNNATC	1 cut(s)	48
BsaHI	GRCGYC	1 cut(s)	189
BsaJI	CCNNGG	1 cut(s)	956
BsaWI	WCCGGW	1 cut(s)	653
BsaXI	ACNNNNNCTCC	2 cut(s)	121, 151
Bsc4I	CCNNNNNNNGG	2 cut(s)	265, 728
Bse1I	ACTGG	2 cut(s)	345, 722
Bse8I	GATNNNNATC	1 cut(s)	48
BseAI	TCCGGA	1 cut(s)	653
BseBI	CCWGG	1 cut(s)	234
BseDI	CCNNGG	1 cut(s)	956
BseGI	GGATG	3 cut(s)	514, 522, 952
BseJI	GATNNNNATC	1 cut(s)	48
BseLI	CCNNNNNNNGG	2 cut(s)	265, 728
BseNI	ACTGG	2 cut(s)	345, 722
BsePI	GCGCGC	1 cut(s)	867
BseRI	GAGGAG	1 cut(s)	983
BseSI	GKGCMC	2 cut(s)	486, 1035
Bsh1236I	CGCG	1 cut(s)	869
BshFI	GGCC	5 cut(s)	732, 800, 826, 853, 1033
BshNI	GGYRCC	1 cut(s)	517
BsiSI	CCGG	3 cut(s)	505, 654, 668
BslI	CCNNNNNNNGG	2 cut(s)	265, 728
BsmAI	GTCTC	1 cut(s)	425
BsmI	GAATGC	1 cut(s)	669
BsnI	GGCC	5 cut(s)	732, 800, 826, 853, 1033
Bsp120I	GGGCCC	1 cut(s)	1031
Bsp1286I	GDGCHC	2 cut(s)	486, 1035
Bsp13I	TCCGGA	1 cut(s)	653
Bsp1407I	TGTACA	1 cut(s)	3
Bsp143I	GATC	4 cut(s)	43, 271, 745, 785
BspACI	CCGC	3 cut(s)	527, 594, 1086
BspANI	GGCC	5 cut(s)	732, 800, 826, 853, 1033
BspEI	TCCGGA	1 cut(s)	653
BspFNI	CGCG	1 cut(s)	869
BspLI	GGNNCC	4 cut(s)	519, 562, 978, 1033
BspMI	ACCTGC	1 cut(s)	446
BspPI	GGATC	3 cut(s)	38, 740, 793
BspT107I	GGYRCC	1 cut(s)	517
BsrGI	TGTACA	1 cut(s)	3
BsrI	ACTGG	2 cut(s)	345, 722
BssECI	CCNNGG	1 cut(s)	956
BssHII	GCGCGC	1 cut(s)	867
BssMI	GATC	4 cut(s)	43, 271, 745, 785
BssNI	GRCGYC	1 cut(s)	189
BssT1I	CCWWGG	1 cut(s)	956
Bst2UI	CCWGG	1 cut(s)	234
Bst4CI	ACNGT	3 cut(s)	205, 743, 781
Bst6I	CTCTTC	1 cut(s)	789
BstACI	GRCGYC	1 cut(s)	189
BstAUI	TGTACA	1 cut(s)	3
BstBAI	YACGTR	2 cut(s)	331, 427
BstC8I	GCNNGC	1 cut(s)	869
BstF5I	GGATG	3 cut(s)	514, 522, 952
BstFNI	CGCG	1 cut(s)	869
BstHHI	GCGC	2 cut(s)	869, 871
BstKTI	GATC	4 cut(s)	46, 274, 748, 788
BstMAI	GTCTC	1 cut(s)	425
BstMBI	GATC	4 cut(s)	43, 271, 745, 785
BstMWI	GCNNNNNNNGC	3 cut(s)	138, 402, 481
BstNI	CCWGG	1 cut(s)	234
BstSCI	CCNGG	2 cut(s)	232, 504
BstSFI	CTRYAG	3 cut(s)	75, 399, 406
BstSLI	GKGCMC	2 cut(s)	486, 1035
BstSNI	TACGTA	2 cut(s)	331, 427
BstUI	CGCG	1 cut(s)	869
BstX2I	RGATCY	1 cut(s)	43
BstXI	CCANNNNNNTGG	1 cut(s)	16
BstYI	RGATCY	1 cut(s)	43
BsuRI	GGCC	5 cut(s)	732, 800, 826, 853, 1033
BtgZI	GCGATG	1 cut(s)	198
BtrI	CACGTC	1 cut(s)	837
BtsCI	GGATG	3 cut(s)	514, 522, 952
BtsIMutI	CAGTG	2 cut(s)	210, 729
BveI	ACCTGC	1 cut(s)	446
Cac8I	GCNNGC	1 cut(s)	869
CfoI	GCGC	2 cut(s)	869, 871
Cfr13I	GGNCC	2 cut(s)	1031, 1032
CseI	GACGC	1 cut(s)	178
Csp6I	GTAC	4 cut(s)	4, 86, 370, 518
CviAII	CATG	1 cut(s)	639
CviQI	GTAC	4 cut(s)	4, 86, 370, 518
DpnI	GATC	4 cut(s)	45, 273, 747, 787
DpnII	GATC	4 cut(s)	43, 271, 745, 785
DraI	TTTAAA	1 cut(s)	693
DraIII	CACNNNGTG	1 cut(s)	317
EaeI	YGGCCR	2 cut(s)	824, 851
Eam1104I	CTCTTC	1 cut(s)	789
EarI	CTCTTC	1 cut(s)	789
Eco105I	TACGTA	2 cut(s)	331, 427
Eco130I	CCWWGG	1 cut(s)	956
Eco147I	AGGCCT	1 cut(s)	800
Eco24I	GRGCYC	1 cut(s)	1035
EcoRI	GAATTC	1 cut(s)	532
EcoRII	CCWGG	1 cut(s)	232
EcoT14I	CCWWGG	1 cut(s)	956
EcoT38I	GRGCYC	1 cut(s)	1035
ErhI	CCWWGG	1 cut(s)	956
FaeI	CATG	1 cut(s)	642
FalI	AAGNNNNNCTT	4 cut(s)	993, 1025, 1040, 1072
FatI	CATG	1 cut(s)	638
FauI	CCCGC	1 cut(s)	534
FauNDI	CATATG	1 cut(s)	790
FokI	GGATG	3 cut(s)	509, 521, 939
FriOI	GRGCYC	1 cut(s)	1035
FspBI	CTAG	4 cut(s)	149, 305, 435, 957
GlaI	GCGC	2 cut(s)	868, 870
HaeIII	GGCC	5 cut(s)	732, 800, 826, 853, 1033
HapII	CCGG	3 cut(s)	505, 654, 668
HgaI	GACGC	1 cut(s)	178
HhaI	GCGC	2 cut(s)	869, 871
Hin1I	GRCGYC	1 cut(s)	189
Hin1II	CATG	1 cut(s)	642
Hin6I	GCGC	2 cut(s)	867, 869
HinP1I	GCGC	2 cut(s)	867, 869
HindIII	AAGCTT	1 cut(s)	1014
HinfI	GANTC	3 cut(s)	553, 895, 1006
HpaII	CCGG	3 cut(s)	505, 654, 668
HphI	GGTGA	1 cut(s)	185
Hpy166II	GTNNAC	3 cut(s)	6, 768, 814
Hpy188I	TCNGA	3 cut(s)	359, 538, 900
Hpy188III	TCNNGA	5 cut(s)	109, 380, 654, 749, 1010
Hpy8I	GTNNAC	3 cut(s)	6, 768, 814
HpyAV	CCTTC	4 cut(s)	202, 746, 811, 1015
HpyCH4III	ACNGT	3 cut(s)	205, 743, 781
HpyCH4IV	ACGT	5 cut(s)	162, 196, 330, 426, 836
HpyCH4V	TGCA	5 cut(s)	141, 396, 455, 613, 885
HpyF10VI	GCNNNNNNNGC	3 cut(s)	138, 402, 481
HpySE526I	ACGT	5 cut(s)	162, 196, 330, 426, 836
Hsp92I	GRCGYC	1 cut(s)	189
Hsp92II	CATG	1 cut(s)	642
HspAI	GCGC	2 cut(s)	867, 869
Kpn2I	TCCGGA	1 cut(s)	653
KpnI	GGTACC	1 cut(s)	521
Kzo9I	GATC	4 cut(s)	43, 271, 745, 785
LmnI	GCTCC	4 cut(s)	37, 129, 560, 970
LweI	GCATC	4 cut(s)	421, 600, 765, 961
MaeI	CTAG	4 cut(s)	149, 305, 435, 957
MaeII	ACGT	5 cut(s)	162, 196, 330, 426, 836
MaeIII	GTNAC	3 cut(s)	53, 163, 857
MalI	GATC	4 cut(s)	45, 273, 747, 787
MboI	GATC	4 cut(s)	43, 271, 745, 785
MboII	GAAGA	6 cut(s)	53, 280, 562, 696, 806, 947
MflI	RGATCY	1 cut(s)	43
MhlI	GDGCHC	2 cut(s)	486, 1035
MluCI	AATT	6 cut(s)	116, 375, 532, 709, 771, 1072
MlyI	GAGTC	1 cut(s)	904
MmeI	TCCRAC	3 cut(s)	183, 382, 763
MnlI	CCTC	8 cut(s)	52, 73, 80, 437, 473, 664, 790, 961
MroI	TCCGGA	1 cut(s)	653
MseI	TTAA	3 cut(s)	543, 692, 818
MslI	CAYNNNNRTG	3 cut(s)	14, 575, 761
MspA1I	CMGCKG	1 cut(s)	529
MspI	CCGG	3 cut(s)	505, 654, 668
MspR9I	CCNGG	2 cut(s)	234, 506
Mva1269I	GAATGC	1 cut(s)	669
MvaI	CCWGG	1 cut(s)	234
MvnI	CGCG	1 cut(s)	869
MwoI	GCNNNNNNNGC	3 cut(s)	138, 402, 481
NciI	CCSGG	1 cut(s)	506
NdeI	CATATG	1 cut(s)	790
NdeII	GATC	4 cut(s)	43, 271, 745, 785
NlaIII	CATG	1 cut(s)	642
NlaIV	GGNNCC	4 cut(s)	519, 562, 978, 1033
NmeAIII	GCCGAG	1 cut(s)	879
NmuCI	GTSAC	2 cut(s)	163, 857
PauI	GCGCGC	1 cut(s)	867
PceI	AGGCCT	1 cut(s)	800
PctI	GAATGC	1 cut(s)	669
PfeI	GAWTC	2 cut(s)	553, 1006
PflMI	CCANNNNNTGG	1 cut(s)	728
PleI	GAGTC	1 cut(s)	903
PpsI	GAGTC	1 cut(s)	903
Ppu21I	YACGTR	2 cut(s)	331, 427
Psp6I	CCWGG	1 cut(s)	232
PspGI	CCWGG	1 cut(s)	232
PspN4I	GGNNCC	4 cut(s)	519, 562, 978, 1033
PspOMI	GGGCCC	1 cut(s)	1031
PspPI	GGNCC	2 cut(s)	1031, 1032
PsuI	RGATCY	1 cut(s)	43
PteI	GCGCGC	1 cut(s)	867
RsaI	GTAC	4 cut(s)	5, 87, 371, 519
RsaNI	GTAC	4 cut(s)	4, 86, 370, 518
RseI	CAYNNNNRTG	3 cut(s)	14, 575, 761
SaqAI	TTAA	3 cut(s)	543, 692, 818
Sau3AI	GATC	4 cut(s)	43, 271, 745, 785
Sau96I	GGNCC	2 cut(s)	1031, 1032
SchI	GAGTC	1 cut(s)	904
ScrFI	CCNGG	2 cut(s)	234, 506
SduI	GDGCHC	2 cut(s)	486, 1035
SfaNI	GCATC	4 cut(s)	421, 600, 765, 961
SfcI	CTRYAG	3 cut(s)	75, 399, 406
SmiMI	CAYNNNNRTG	3 cut(s)	14, 575, 761
SmlI	CTYRAG	2 cut(s)	107, 281
SmoI	CTYRAG	2 cut(s)	107, 281
SnaBI	TACGTA	2 cut(s)	331, 427
Sse9I	AATT	6 cut(s)	116, 375, 532, 709, 771, 1072
SseBI	AGGCCT	1 cut(s)	800
SsiI	CCGC	3 cut(s)	527, 594, 1086
SspMI	CTAG	4 cut(s)	149, 305, 435, 957
StuI	AGGCCT	1 cut(s)	800
StyD4I	CCNGG	2 cut(s)	232, 504
StyI	CCWWGG	1 cut(s)	956
TaaI	ACNGT	3 cut(s)	205, 743, 781
TaiI	ACGT	5 cut(s)	165, 199, 333, 429, 839
TaqI	TCGA	5 cut(s)	263, 471, 704, 738, 804
TasI	AATT	6 cut(s)	116, 375, 532, 709, 771, 1072
TatI	WGTACW	2 cut(s)	3, 85
TfiI	GAWTC	2 cut(s)	553, 1006
Tru1I	TTAA	3 cut(s)	543, 692, 818
Tru9I	TTAA	3 cut(s)	543, 692, 818
TscAI	CASTG	2 cut(s)	210, 729
TseFI	GTSAC	2 cut(s)	163, 857
Tsp45I	GTSAC	2 cut(s)	163, 857
TspDTI	ATGAA	6 cut(s)	255, 339, 559, 563, 807, 998
TspGWI	ACGGA	1 cut(s)	1007
TspRI	CASTG	2 cut(s)	210, 729
Van91I	CCANNNNNTGG	1 cut(s)	728
XapI	RAATTY	2 cut(s)	375, 532
XcmI	CCANNNNNNNNNTGG	1 cut(s)	571
XmaJI	CCTAGG	1 cut(s)	956
XspI	CTAG	4 cut(s)	149, 305, 435, 957

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