Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0008541

Physical Location & Seq

Genomic Coordinates Reverse (-)

72610068 .. 72614753

Gene Structure 4686 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG452400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGGCGACGACGAGCGCTGTCTACATCAGTGTCATCGAGGACGTCATCAACAAGGTCAAAGAAGAGTTCGTCAATGGCGCCGGAGAAGACGTTCTCAAGGAGCTTCAAGGAACTTGGGAGGCGAAGATGATGCAAGCTGGTGTTGTAACTGCTCCGATTGAGAGGTCTGCGGCTGCAAAGCCCACACCTGGAGTTACTCCAGTTCATGATCTCAACGTACCGTATGAGGGGACTGAGGAGTATGAAACTCCTACTGCTGATTTACTCTTCCCTCCAACCCCGTTACAAACTCCAATGCCACAAACTCCTATTCCAACTCCCATCCCACAAACTCCAATTCAAACACCAGGAACTGCAGAGAATTATAATATTCCTACCGGAGCTAGTGATGATTCTGGTGGCGGCAACGCAGGTGGAAATACAGAGTTGAAACCGGGAAGACCTAGCCCATACATGCAACCTCCTTCTCCGTGGATGACTCAGCGGCCCCCACTTGATGTTAATATTGCTTACGTGGAAGGGCGGGATGAGGTGGACAGAGGAACCTCTCATCAACCCCCGACACAGGACTTTTTCACAATGTCTGCTGGAAAGCGAAAACGTGAAGAAATCCCCCCACAATATCAAGCTGGTGGGTTTATACCCCAGCAAGATGGAGCCGGAGATGCTATACCTGAACTTTTTGAGATTGAGGTTTGTTCCTTTTGTTCTTTTTTATGGCCCAAGTGCCATACTTCATCAAGTTTTAAGTGGAAAGATGAAAGGTGGAAAGATCAGAGATATACTTATGGGAATGTGCTGAAAGATGGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000976 GO:0000977 GO:0000979 GO:0001012 GO:0001046 GO:0001047 GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005672 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019438 GO:0022607 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0043933 GO:0044085 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0051123 GO:0055029 GO:0061695 GO:0065003 GO:0065004 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090575 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234 GO:1990837

KEGG Pathways

Metabolic & Signaling

ko03022 ko05203 map03022 map05203

Pfam Domains

Protein Families

TFIIA

Protein Analysis

270

Amino Acids

29.58

Weight (kDa)

4.65

Isoelectric Point (pI)

53.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIA	PF03153	7 - 139	1.3e-15	Transcription factor IIA, alpha/beta subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008541)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G07470 AT1G07470 AT1G07480 AT1G07480 AT1G07480
fragaria_vesca	FvH4_3g36940
malus_domestica	MD03G1086200.v1.1 MD11G1094800.v1.1
prunus_persica	Prupe.6G070500_v2.0.a1 Prupe.6G070500_v2.0.a1 Prupe.6G070500_v2.0.a1
pyrus_communis	pycom03g06830 pycom11g08050
rosa_chinensis	RchiOBHm_Chr5g0066351
rosa_laevigata	RLG00000035853
rosa_multiflora	Rmu_ssc0000249.1_g000006
rosa_roxburghii	Rroxscaffold_1G00014790
rosa_rugosa	Rorug05G0377500
rosa_samantha	Rh5AG436000 Rh5BG452400 Rh5CG474700 Rh5DG467400
rosa_wichuraiana	Rw5G040840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	366
AarI	CACCTGC	1 cut(s)	401
AatII	GACGTC	1 cut(s)	45
Acc36I	ACCTGC	1 cut(s)	401
AccB1I	GGYRCC	1 cut(s)	77
AccI	GTMKAC	1 cut(s)	21
AciI	CCGC	4 cut(s)	170, 402, 484, 523
AcyI	GRCGYC	2 cut(s)	42, 78
AfaI	GTAC	1 cut(s)	219
AfeI	AGCGCT	1 cut(s)	16
AfiI	CCNNNNNNNGG	3 cut(s)	188, 227, 565
AgsI	TTSAA	3 cut(s)	107, 341, 430
AjnI	CCWGG	2 cut(s)	187, 346
AloI	GAACNNNNNNTCC	2 cut(s)	75, 107
AluBI	AGCT	4 cut(s)	103, 137, 383, 629
AluI	AGCT	4 cut(s)	103, 137, 383, 629
AlwNI	CAGNNNCTG	1 cut(s)	353
Aor51HI	AGCGCT	1 cut(s)	16
AoxI	GGCC	2 cut(s)	485, 719
ApeKI	GCWGC	1 cut(s)	173
Asp700I	GAANNNNTTC	1 cut(s)	90
AspLEI	GCGC	2 cut(s)	17, 80
AspS9I	GGNCC	2 cut(s)	486, 720
AsuC2I	CCSGG	1 cut(s)	435
BanI	GGYRCC	1 cut(s)	77
BbsI	GAAGAC	2 cut(s)	93, 445
BbvI	GCAGC	1 cut(s)	160
BccI	CCATC	3 cut(s)	329, 647, 800
BcgI	CGANNNNNNTGC	2 cut(s)	112, 146
BciT130I	CCWGG	2 cut(s)	189, 348
BcnI	CCSGG	1 cut(s)	435
BfaI	CTAG	2 cut(s)	384, 444
BfmI	CTRYAG	1 cut(s)	354
BfoI	RGCGCY	2 cut(s)	18, 81
BfuAI	ACCTGC	1 cut(s)	401
BisI	GCNGC	4 cut(s)	171, 174, 403, 485
BlsI	GCNGC	4 cut(s)	172, 175, 404, 486
Bme1390I	CCNGG	3 cut(s)	189, 348, 435
BmgT120I	GGNCC	2 cut(s)	486, 720
BmiI	GGNNCC	4 cut(s)	79, 488, 544, 658
BmrFI	CCNGG	3 cut(s)	189, 348, 435
BmsI	GCATC	2 cut(s)	120, 655
BpiI	GAAGAC	2 cut(s)	93, 445
BpmI	CTGGAG	2 cut(s)	183, 210
BpuEI	CTTGAG	1 cut(s)	80
BpuMI	CCSGG	1 cut(s)	435
BsaAI	YACGTR	1 cut(s)	514
BsaHI	GRCGYC	2 cut(s)	42, 78
BsaJI	CCNNGG	1 cut(s)	470
BsaWI	WCCGGW	1 cut(s)	377
BsaXI	ACNNNNNCTCC	2 cut(s)	75, 105
Bsc4I	CCNNNNNNNGG	3 cut(s)	188, 227, 565
Bse1I	ACTGG	1 cut(s)	200
BseBI	CCWGG	2 cut(s)	189, 348
BseDI	CCNNGG	1 cut(s)	470
BseGI	GGATG	3 cut(s)	321, 480, 532
BseLI	CCNNNNNNNGG	3 cut(s)	188, 227, 565
BseMII	CTCAG	2 cut(s)	225, 494
BseNI	ACTGG	1 cut(s)	200
BseRI	GAGGAG	1 cut(s)	251
BseXI	GCAGC	1 cut(s)	160
BseYI	CCCAGC	1 cut(s)	645
BshFI	GGCC	2 cut(s)	487, 721
BshNI	GGYRCC	1 cut(s)	77
BsiSI	CCGG	4 cut(s)	81, 378, 434, 660
BslFI	GGGAC	1 cut(s)	244
BslI	CCNNNNNNNGG	3 cut(s)	188, 227, 565
BsmFI	GGGAC	1 cut(s)	244
BsnI	GGCC	2 cut(s)	487, 721
Bsp143I	GATC	2 cut(s)	208, 772
BspACI	CCGC	4 cut(s)	170, 402, 484, 523
BspANI	GGCC	2 cut(s)	487, 721
BspCNI	CTCAG	2 cut(s)	226, 493
BspHI	TCATGA	1 cut(s)	205
BspLI	GGNNCC	4 cut(s)	79, 488, 544, 658
BspMAI	CTGCAG	1 cut(s)	358
BspMI	ACCTGC	1 cut(s)	401
BspT107I	GGYRCC	1 cut(s)	77
BsrI	ACTGG	1 cut(s)	200
BssECI	CCNNGG	1 cut(s)	470
BssMI	GATC	2 cut(s)	208, 772
BssNI	GRCGYC	2 cut(s)	42, 78
Bst2UI	CCWGG	2 cut(s)	189, 348
Bst4CI	ACNGT	1 cut(s)	222
Bst6I	CTCTTC	2 cut(s)	57, 272
BstACI	GRCGYC	2 cut(s)	42, 78
BstBAI	YACGTR	1 cut(s)	514
BstC8I	GCNNGC	1 cut(s)	135
BstDEI	CTNAG	2 cut(s)	234, 480
BstDSI	CCRYGG	1 cut(s)	470
BstF5I	GGATG	3 cut(s)	321, 480, 532
BstH2I	RGCGCY	2 cut(s)	18, 81
BstHHI	GCGC	2 cut(s)	17, 80
BstKTI	GATC	2 cut(s)	211, 775
BstMBI	GATC	2 cut(s)	208, 772
BstMWI	GCNNNNNNNGC	1 cut(s)	665
BstNI	CCWGG	2 cut(s)	189, 348
BstNSI	RCATGY	1 cut(s)	457
BstSCI	CCNGG	3 cut(s)	187, 346, 433
BstSFI	CTRYAG	1 cut(s)	354
BstV1I	GCAGC	1 cut(s)	160
BstV2I	GAAGAC	2 cut(s)	93, 445
BstXI	CCANNNNNNTGG	1 cut(s)	653
BsuRI	GGCC	2 cut(s)	487, 721
BtgI	CCRYGG	1 cut(s)	470
BtsCI	GGATG	3 cut(s)	321, 480, 532
BtsIMutI	CAGTG	1 cut(s)	34
BveI	ACCTGC	1 cut(s)	401
Cac8I	GCNNGC	1 cut(s)	135
CaiI	CAGNNNCTG	1 cut(s)	353
CciI	TCATGA	1 cut(s)	205
CfoI	GCGC	2 cut(s)	17, 80
Cfr13I	GGNCC	2 cut(s)	486, 720
Csp6I	GTAC	1 cut(s)	218
CspCI	CAANNNNNGTGG	2 cut(s)	394, 429
CviAII	CATG	2 cut(s)	206, 454
CviQI	GTAC	1 cut(s)	218
DdeI	CTNAG	2 cut(s)	234, 480
DinI	GGCGCC	1 cut(s)	79
DpnI	GATC	2 cut(s)	210, 774
DpnII	GATC	2 cut(s)	208, 772
Eam1104I	CTCTTC	2 cut(s)	57, 272
EarI	CTCTTC	2 cut(s)	57, 272
Eco47III	AGCGCT	1 cut(s)	16
EcoRII	CCWGG	2 cut(s)	187, 346
EgeI	GGCGCC	1 cut(s)	79
EheI	GGCGCC	1 cut(s)	79
FaeI	CATG	2 cut(s)	209, 457
FaqI	GGGAC	1 cut(s)	244
FatI	CATG	2 cut(s)	205, 453
FauI	CCCGC	1 cut(s)	516
FblI	GTMKAC	1 cut(s)	21
Fnu4HI	GCNGC	4 cut(s)	171, 174, 403, 485
FokI	GGATG	3 cut(s)	308, 487, 539
Fsp4HI	GCNGC	4 cut(s)	171, 174, 403, 485
FspBI	CTAG	2 cut(s)	384, 444
GlaI	GCGC	2 cut(s)	16, 79
GluI	GCNGC	4 cut(s)	171, 174, 403, 485
GsaI	CCCAGC	1 cut(s)	649
GsuI	CTGGAG	2 cut(s)	183, 210
HaeII	RGCGCY	2 cut(s)	18, 81
HaeIII	GGCC	2 cut(s)	487, 721
HapII	CCGG	4 cut(s)	81, 378, 434, 660
HhaI	GCGC	2 cut(s)	17, 80
Hin1I	GRCGYC	2 cut(s)	42, 78
Hin1II	CATG	2 cut(s)	209, 457
Hin6I	GCGC	2 cut(s)	15, 78
HinP1I	GCGC	2 cut(s)	15, 78
HinfI	GANTC	2 cut(s)	392, 478
HpaII	CCGG	4 cut(s)	81, 378, 434, 660
Hpy166II	GTNNAC	2 cut(s)	22, 535
Hpy188I	TCNGA	2 cut(s)	156, 777
Hpy188III	TCNNGA	1 cut(s)	206
Hpy8I	GTNNAC	2 cut(s)	22, 535
Hpy99I	CGWCG	2 cut(s)	10, 13
HpyAV	CCTTC	2 cut(s)	474, 512
HpyCH4III	ACNGT	1 cut(s)	222
HpyCH4IV	ACGT	5 cut(s)	42, 90, 216, 513, 601
HpyCH4V	TGCA	4 cut(s)	133, 176, 356, 457
HpyF10VI	GCNNNNNNNGC	1 cut(s)	665
HpyF3I	CTNAG	2 cut(s)	234, 480
HpySE526I	ACGT	5 cut(s)	42, 90, 216, 513, 601
Hsp92I	GRCGYC	2 cut(s)	42, 78
Hsp92II	CATG	2 cut(s)	209, 457
HspAI	GCGC	2 cut(s)	15, 78
KasI	GGCGCC	1 cut(s)	77
Kzo9I	GATC	2 cut(s)	208, 772
LmnI	GCTCC	4 cut(s)	100, 157, 380, 656
Lsp1109I	GCAGC	1 cut(s)	160
LweI	GCATC	2 cut(s)	120, 655
MaeI	CTAG	2 cut(s)	384, 444
MaeII	ACGT	5 cut(s)	42, 90, 216, 513, 601
MaeIII	GTNAC	3 cut(s)	145, 193, 282
MalI	GATC	2 cut(s)	210, 774
MboI	GATC	2 cut(s)	208, 772
MboII	GAAGA	6 cut(s)	74, 98, 136, 259, 450, 617
MluCI	AATT	2 cut(s)	336, 361
Mly113I	GGCGCC	1 cut(s)	78
MlyI	GAGTC	1 cut(s)	472
MmeI	TCCRAC	2 cut(s)	299, 338
MroXI	GAANNNNTTC	1 cut(s)	90
MseI	TTAA	2 cut(s)	501, 747
MspA1I	CMGCKG	1 cut(s)	484
MspI	CCGG	4 cut(s)	81, 378, 434, 660
MspR9I	CCNGG	3 cut(s)	189, 348, 435
MvaI	CCWGG	2 cut(s)	189, 348
MwoI	GCNNNNNNNGC	1 cut(s)	665
NarI	GGCGCC	1 cut(s)	78
NciI	CCSGG	1 cut(s)	435
NdeII	GATC	2 cut(s)	208, 772
NlaIII	CATG	2 cut(s)	209, 457
NlaIV	GGNNCC	4 cut(s)	79, 488, 544, 658
NspI	RCATGY	1 cut(s)	457
PagI	TCATGA	1 cut(s)	205
PaqCI	CACCTGC	1 cut(s)	401
PdmI	GAANNNNTTC	1 cut(s)	90
PfeI	GAWTC	1 cut(s)	392
PkrI	GCNGC	4 cut(s)	172, 175, 404, 486
PleI	GAGTC	1 cut(s)	472
PluTI	GGCGCC	1 cut(s)	81
PpsI	GAGTC	1 cut(s)	472
Ppu21I	YACGTR	1 cut(s)	514
PsiI	TTATAA	1 cut(s)	366
Psp6I	CCWGG	2 cut(s)	187, 346
PspFI	CCCAGC	1 cut(s)	645
PspGI	CCWGG	2 cut(s)	187, 346
PspN4I	GGNNCC	4 cut(s)	79, 488, 544, 658
PspPI	GGNCC	2 cut(s)	486, 720
PstI	CTGCAG	1 cut(s)	358
PstNI	CAGNNNCTG	1 cut(s)	353
RsaI	GTAC	1 cut(s)	219
RsaNI	GTAC	1 cut(s)	218
SaqAI	TTAA	2 cut(s)	501, 747
SatI	GCNGC	4 cut(s)	171, 174, 403, 485
Sau3AI	GATC	2 cut(s)	208, 772
Sau96I	GGNCC	2 cut(s)	486, 720
SchI	GAGTC	1 cut(s)	472
ScrFI	CCNGG	3 cut(s)	189, 348, 435
SfaNI	GCATC	2 cut(s)	120, 655
SfcI	CTRYAG	1 cut(s)	354
SfoI	GGCGCC	1 cut(s)	79
SmlI	CTYRAG	1 cut(s)	95
SmoI	CTYRAG	1 cut(s)	95
Sse9I	AATT	2 cut(s)	336, 361
SsiI	CCGC	4 cut(s)	170, 402, 484, 523
SspDI	GGCGCC	1 cut(s)	77
SspI	AATATT	2 cut(s)	370, 505
SspMI	CTAG	2 cut(s)	384, 444
StyD4I	CCNGG	3 cut(s)	187, 346, 433
TaaI	ACNGT	1 cut(s)	222
TaiI	ACGT	5 cut(s)	45, 93, 219, 516, 604
TaqI	TCGA	1 cut(s)	36
TasI	AATT	2 cut(s)	336, 361
TauI	GCSGC	3 cut(s)	173, 405, 487
TfiI	GAWTC	1 cut(s)	392
Tru1I	TTAA	2 cut(s)	501, 747
Tru9I	TTAA	2 cut(s)	501, 747
TscAI	CASTG	1 cut(s)	34
TseI	GCWGC	1 cut(s)	173
TspDTI	ATGAA	4 cut(s)	194, 258, 726, 774
TspGWI	ACGGA	1 cut(s)	459
TspRI	CASTG	1 cut(s)	34
XceI	RCATGY	1 cut(s)	457
XmiI	GTMKAC	1 cut(s)	21
XmnI	GAANNNNTTC	1 cut(s)	90
XspI	CTAG	2 cut(s)	384, 444
ZraI	GACGTC	1 cut(s)	43

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