Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0004028

Physical Location & Seq

Genomic Coordinates Reverse (-)

9434036 .. 9440021

Gene Structure 5986 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001029

Sequence Viewer

CDS Protein Promoter (2k)

Length: 816 bp

ATGATTGGCTCTCTCTCTCACTGCCAATTTGAGAATAAACAAATTAATACCAAACAAGAGTCATTTATATGTGCAGTGATGCCAGGAGTAGCTCTACACAGGTTCAAAGAACACCCAGTGGACTTCTCTTTATTAGTAAGAAGAATTGGTGGGGAGAGTTTGGGTTGGCTGAGCTCCCAAGGGTTTCCAAGTAGGGATTTGGGTATATGGGACTATAATGTGCCGTTGCCTGAAAATTTTGGCATATCAATGATCAAGTGTGCATATGACAAAGGAATAACATTCTTCGATACATCTGATGTTTATGGACCACATGCTAATGAAGTTTTTATCGGAAAGACAGGGCAGTGTCTTCTCCACCAGAAAATTACCAACCTGACCCTTAGCCCAAGTATTGTATTTGGTTATTTACTAAAATCCCCCTTTGGCGGAGAAGAATGGATCGTTAGTGTGGACGATTTGGAAGATATAATCGGAGGGCATGTATGGTTAGAACCTCTAAGGGGTCCTAATGGTTTGGACTTGAGTAGGCTGAAAAAAGACATACAGCCTTGGCAAGAGCGGCGTTCTGCGGAATATATGACCCATGCTCCTTTAGGTTCTTTAAATTCCGTGGGTGGCGTAGCTACCGAGATCAATGCAGTCAATTATGTCTCTCCTAGAAGTTGGTTAGCTACTTCTCATTTTGTTCTAGGATTCTTCATATTCGTGGGGCATTTATGGCATGCGGGAAGGGCTCGTGCAGCTGCTGCCGGATTTGAAAAAGGAATTGATCGTGATTTTGAACCTGTTCTTTCCATGACTCCTCTTAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009521 GO:0009523 GO:0009532 GO:0009533 GO:0009534 GO:0009535 GO:0009536 GO:0009539 GO:0009570 GO:0009579 GO:0010287 GO:0016020 GO:0031976 GO:0031984 GO:0032991 GO:0034357 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0055035 GO:0098796

KEGG Pathways

Metabolic & Signaling

ko00195 ko01100 map00195 map01100

Pfam Domains

Protein Families

PSII

Protein Analysis

272

Amino Acids

30.11

Weight (kDa)

6.05

Isoelectric Point (pI)

40.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PSII	PF00421	166 - 267	2.6e-28	Photosystem II protein

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: OG0004028)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00270
malus_domestica	MD08G1154700.v1.1 MD09G1235700.v1.1
rosa_chinensis	RchiOBHm_Chr6g0258011 RchiOBHm_CPg0502321 RchiOBHm_CPg0502341 RchiOBHm_MTg0498861
rosa_laevigata	RLG00000000046 RLG00000000114 RLG00000000115 RLG00000000229 RLG00000000230 RLG00000000245 RLG00000000265 RLG00000000285 RLG00000000286 RLG00000000298 RLG00000000319 RLG00000000320 RLG00000000336 RLG00000000341 RLG00000000342 RLG00000001029
rosa_multiflora	Rmu_sc0000861.1_g000070 Rmu_sc0009742.1_g000009
rosa_roxburghii	Rroxscaffold_2G00119060 Rroxscaffold_2G00119340 Rroxscaffold_4G00315040
rosa_rugosa	Rorug06G0354500.1 RorugMtG0002000
rosa_samantha	Rh1BG017300 Rh5BG294500 Rh5DG304300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	562
AciI	CCGC	4 cut(s)	429, 562, 572, 728
AclWI	GGATC	1 cut(s)	449
AcsI	RAATTY	2 cut(s)	235, 607
AdeI	CACNNNGTG	1 cut(s)	118
AfiI	CCNNNNNNNGG	2 cut(s)	428, 503
AgsI	TTSAA	3 cut(s)	106, 761, 785
AjnI	CCWGG	1 cut(s)	82
AluBI	AGCT	5 cut(s)	92, 174, 626, 674, 746
AluI	AGCT	5 cut(s)	92, 174, 626, 674, 746
Alw21I	GWGCWC	1 cut(s)	176
Alw26I	GTCTC	1 cut(s)	658
AlwI	GGATC	1 cut(s)	449
AlwNI	CAGNNNCTG	1 cut(s)	749
ApeKI	GCWGC	3 cut(s)	743, 746, 749
ApoI	RAATTY	2 cut(s)	235, 607
AseI	ATTAAT	1 cut(s)	45
Asp700I	GAANNNNTTC	1 cut(s)	789
AspS9I	GGNCC	2 cut(s)	308, 506
AvaII	GGWCC	2 cut(s)	308, 506
BanII	GRGCYC	2 cut(s)	176, 739
BauI	CACGAG	1 cut(s)	738
BbsI	GAAGAC	1 cut(s)	344
Bbv12I	GWGCWC	1 cut(s)	176
BbvI	GCAGC	3 cut(s)	733, 736, 755
BceAI	ACGGC	1 cut(s)	208
BcgI	CGANNNNNNTGC	2 cut(s)	620, 654
BciT130I	CCWGG	1 cut(s)	84
BclI	TGATCA	1 cut(s)	252
BcoDI	GTCTC	1 cut(s)	658
BfaI	CTAG	2 cut(s)	660, 692
BisI	GCNGC	4 cut(s)	563, 744, 747, 750
BlpI	GCTNAGC	1 cut(s)	170
BlsI	GCNGC	4 cut(s)	564, 745, 748, 751
Bme1390I	CCNGG	1 cut(s)	84
Bme18I	GGWCC	2 cut(s)	308, 506
BmgT120I	GGNCC	2 cut(s)	308, 506
BmiI	GGNNCC	1 cut(s)	507
BmrFI	CCNGG	1 cut(s)	84
BmrI	ACTGGG	1 cut(s)	110
BmsI	GCATC	1 cut(s)	69
BmuI	ACTGGG	1 cut(s)	110
BpiI	GAAGAC	1 cut(s)	344
Bpu10I	CCTNAGC	1 cut(s)	383
Bpu1102I	GCTNAGC	1 cut(s)	170
BpuEI	CTTGAG	1 cut(s)	544
BsaJI	CCNNGG	3 cut(s)	178, 551, 612
BsaXI	ACNNNNNCTCC	4 cut(s)	468, 498, 574, 604
Bsc4I	CCNNNNNNNGG	2 cut(s)	428, 503
Bse1I	ACTGG	1 cut(s)	116
BseBI	CCWGG	1 cut(s)	84
BseDI	CCNNGG	3 cut(s)	178, 551, 612
BseLI	CCNNNNNNNGG	2 cut(s)	428, 503
BseMII	CTCAG	1 cut(s)	161
BseNI	ACTGG	1 cut(s)	116
BseRI	GAGGAG	1 cut(s)	795
BseXI	GCAGC	3 cut(s)	733, 736, 755
BsgI	GTGCAG	2 cut(s)	93, 762
BsiHKAI	GWGCWC	1 cut(s)	176
BsiSI	CCGG	1 cut(s)	753
BslFI	GGGAC	1 cut(s)	224
BslI	CCNNNNNNNGG	2 cut(s)	428, 503
BsmAI	GTCTC	1 cut(s)	658
BsmFI	GGGAC	1 cut(s)	224
Bsp1286I	GDGCHC	2 cut(s)	176, 739
Bsp143I	GATC	4 cut(s)	252, 441, 633, 772
Bsp1720I	GCTNAGC	1 cut(s)	170
BspACI	CCGC	4 cut(s)	429, 562, 572, 728
BspCNI	CTCAG	1 cut(s)	162
BspLI	GGNNCC	1 cut(s)	507
BspPI	GGATC	1 cut(s)	449
BsrBI	CCGCTC	1 cut(s)	562
BsrI	ACTGG	1 cut(s)	116
BssECI	CCNNGG	3 cut(s)	178, 551, 612
BssMI	GATC	4 cut(s)	252, 441, 633, 772
BssSI	CACGAG	1 cut(s)	738
BssT1I	CCWWGG	2 cut(s)	178, 551
Bst2BI	CACGAG	1 cut(s)	738
Bst2UI	CCWGG	1 cut(s)	84
BstAPI	GCANNNNNTGC	1 cut(s)	749
BstC8I	GCNNGC	1 cut(s)	726
BstDEI	CTNAG	3 cut(s)	170, 383, 500
BstDSI	CCRYGG	1 cut(s)	612
BstKTI	GATC	4 cut(s)	255, 444, 636, 775
BstMAI	GTCTC	1 cut(s)	658
BstMBI	GATC	4 cut(s)	252, 441, 633, 772
BstMWI	GCNNNNNNNGC	5 cut(s)	562, 721, 734, 743, 749
BstNI	CCWGG	1 cut(s)	84
BstNSI	RCATGY	3 cut(s)	317, 485, 728
BstSCI	CCNGG	1 cut(s)	82
BstV1I	GCAGC	3 cut(s)	733, 736, 755
BstV2I	GAAGAC	1 cut(s)	344
BtgI	CCRYGG	1 cut(s)	612
BtsI	GCAGTG	3 cut(s)	19, 81, 353
BtsIMutI	CAGTG	4 cut(s)	19, 81, 123, 353
Cac8I	GCNNGC	1 cut(s)	726
CaiI	CAGNNNCTG	1 cut(s)	749
Cfr13I	GGNCC	2 cut(s)	308, 506
CviAII	CATG	5 cut(s)	314, 482, 587, 725, 799
DdeI	CTNAG	3 cut(s)	170, 383, 500
DpnI	GATC	4 cut(s)	254, 443, 635, 774
DpnII	GATC	4 cut(s)	252, 441, 633, 772
DraI	TTTAAA	1 cut(s)	606
DraIII	CACNNNGTG	1 cut(s)	118
EciI	GGCGGA	1 cut(s)	444
Ecl136II	GAGCTC	1 cut(s)	174
Eco130I	CCWWGG	2 cut(s)	178, 551
Eco24I	GRGCYC	2 cut(s)	176, 739
Eco47I	GGWCC	2 cut(s)	308, 506
Eco53kI	GAGCTC	1 cut(s)	174
EcoICRI	GAGCTC	1 cut(s)	174
EcoO109I	RGGNCCY	1 cut(s)	506
EcoRII	CCWGG	1 cut(s)	82
EcoT14I	CCWWGG	2 cut(s)	178, 551
EcoT38I	GRGCYC	2 cut(s)	176, 739
ErhI	CCWWGG	2 cut(s)	178, 551
FaeI	CATG	5 cut(s)	317, 485, 590, 728, 802
FaqI	GGGAC	1 cut(s)	224
FatI	CATG	5 cut(s)	313, 481, 586, 724, 798
FauI	CCCGC	1 cut(s)	721
FauNDI	CATATG	1 cut(s)	265
FbaI	TGATCA	1 cut(s)	252
Fnu4HI	GCNGC	4 cut(s)	563, 744, 747, 750
FriOI	GRGCYC	2 cut(s)	176, 739
Fsp4HI	GCNGC	4 cut(s)	563, 744, 747, 750
FspBI	CTAG	2 cut(s)	660, 692
GluI	GCNGC	4 cut(s)	563, 744, 747, 750
HapII	CCGG	1 cut(s)	753
Hin1II	CATG	5 cut(s)	317, 485, 590, 728, 802
HinfI	GANTC	3 cut(s)	59, 696, 802
HpaII	CCGG	1 cut(s)	753
Hpy166II	GTNNAC	2 cut(s)	121, 454
Hpy188I	TCNGA	3 cut(s)	298, 335, 476
Hpy188III	TCNNGA	1 cut(s)	776
Hpy8I	GTNNAC	2 cut(s)	121, 454
HpyAV	CCTTC	1 cut(s)	726
HpyCH4V	TGCA	4 cut(s)	74, 263, 641, 743
HpyF10VI	GCNNNNNNNGC	5 cut(s)	562, 721, 734, 743, 749
HpyF3I	CTNAG	3 cut(s)	170, 383, 500
Hsp92II	CATG	5 cut(s)	317, 485, 590, 728, 802
Ksp22I	TGATCA	1 cut(s)	252
Kzo9I	GATC	4 cut(s)	252, 441, 633, 772
LmnI	GCTCC	2 cut(s)	179, 595
Lsp1109I	GCAGC	3 cut(s)	733, 736, 755
LweI	GCATC	1 cut(s)	69
MaeI	CTAG	2 cut(s)	660, 692
MalI	GATC	4 cut(s)	254, 443, 635, 774
MbiI	CCGCTC	1 cut(s)	562
MboI	GATC	4 cut(s)	252, 441, 633, 772
MboII	GAAGA	6 cut(s)	153, 277, 344, 446, 476, 691
MhlI	GDGCHC	2 cut(s)	176, 739
MluCI	AATT	8 cut(s)	26, 42, 144, 235, 366, 607, 646, 768
MlyI	GAGTC	2 cut(s)	68, 796
MnlI	CCTC	3 cut(s)	470, 507, 816
MroXI	GAANNNNTTC	1 cut(s)	789
MseI	TTAA	3 cut(s)	45, 605, 810
MslI	CAYNNNNRTG	4 cut(s)	67, 248, 318, 707
MspA1I	CMGCKG	1 cut(s)	746
MspI	CCGG	1 cut(s)	753
MspR9I	CCNGG	1 cut(s)	84
MvaI	CCWGG	1 cut(s)	84
MwoI	GCNNNNNNNGC	5 cut(s)	562, 721, 734, 743, 749
NdeI	CATATG	1 cut(s)	265
NdeII	GATC	4 cut(s)	252, 441, 633, 772
NlaIII	CATG	5 cut(s)	317, 485, 590, 728, 802
NlaIV	GGNNCC	1 cut(s)	507
NspI	RCATGY	3 cut(s)	317, 485, 728
PaeI	GCATGC	1 cut(s)	728
PdmI	GAANNNNTTC	1 cut(s)	789
PfeI	GAWTC	1 cut(s)	696
PkrI	GCNGC	4 cut(s)	564, 745, 748, 751
PleI	GAGTC	2 cut(s)	67, 796
PpsI	GAGTC	2 cut(s)	67, 796
PpuMI	RGGWCCY	1 cut(s)	506
PshBI	ATTAAT	1 cut(s)	45
Psp124BI	GAGCTC	1 cut(s)	176
Psp5II	RGGWCCY	1 cut(s)	506
Psp6I	CCWGG	1 cut(s)	82
PspGI	CCWGG	1 cut(s)	82
PspN4I	GGNNCC	1 cut(s)	507
PspPI	GGNCC	2 cut(s)	308, 506
PspPPI	RGGWCCY	1 cut(s)	506
PstNI	CAGNNNCTG	1 cut(s)	749
PvuII	CAGCTG	1 cut(s)	746
RseI	CAYNNNNRTG	4 cut(s)	67, 248, 318, 707
SacI	GAGCTC	1 cut(s)	176
SaqAI	TTAA	3 cut(s)	45, 605, 810
SatI	GCNGC	4 cut(s)	563, 744, 747, 750
Sau3AI	GATC	4 cut(s)	252, 441, 633, 772
Sau96I	GGNCC	2 cut(s)	308, 506
SchI	GAGTC	2 cut(s)	68, 796
ScrFI	CCNGG	1 cut(s)	84
SduI	GDGCHC	2 cut(s)	176, 739
SfaNI	GCATC	1 cut(s)	69
SinI	GGWCC	2 cut(s)	308, 506
SmiMI	CAYNNNNRTG	4 cut(s)	67, 248, 318, 707
SmlI	CTYRAG	1 cut(s)	523
SmoI	CTYRAG	1 cut(s)	523
SphI	GCATGC	1 cut(s)	728
Sse9I	AATT	8 cut(s)	26, 42, 144, 235, 366, 607, 646, 768
SsiI	CCGC	4 cut(s)	429, 562, 572, 728
SspMI	CTAG	2 cut(s)	660, 692
SstI	GAGCTC	1 cut(s)	176
StyD4I	CCNGG	1 cut(s)	82
StyI	CCWWGG	2 cut(s)	178, 551
TaqI	TCGA	1 cut(s)	288
TasI	AATT	8 cut(s)	26, 42, 144, 235, 366, 607, 646, 768
TauI	GCSGC	1 cut(s)	565
TfiI	GAWTC	1 cut(s)	696
Tru1I	TTAA	3 cut(s)	45, 605, 810
Tru9I	TTAA	3 cut(s)	45, 605, 810
TscAI	CASTG	4 cut(s)	26, 81, 123, 353
TseI	GCWGC	3 cut(s)	743, 746, 749
TspDTI	ATGAA	2 cut(s)	336, 691
TspGWI	ACGGA	1 cut(s)	601
TspRI	CASTG	4 cut(s)	26, 81, 123, 353
VpaK11BI	GGWCC	2 cut(s)	308, 506
VspI	ATTAAT	1 cut(s)	45
XapI	RAATTY	2 cut(s)	235, 607
XceI	RCATGY	3 cut(s)	317, 485, 728
XmnI	GAANNNNTTC	1 cut(s)	789
XspI	CTAG	2 cut(s)	660, 692

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