Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0013689

Physical Location & Seq

Genomic Coordinates Forward (+)

55668510 .. 55669100

Gene Structure 591 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG472100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 591 bp

ATGGCCTTCAAAACCATCGAGACCATGTGTGATAGGTTGGGCCTTGTGTCAACCATCAAGAACCGGGCAAATGAGATGTACAAGACTCTTGAAGATCACAAGTGTAGCAAGGGAAGAAACCAAGATGCATTATTGGCTGCTTGCCTATACATTGCTTGTAAACAAGAAGACAAGCCCAGAACTCTCAAGGAAATCTTCTCCGTCGCGAATGGAGCCTCAAAGAAAGAGATTGGTAGAGCAAAGGAATACATAATCAAGCAACTGGGGCTAATGGAGAAGCCATTTCAAGTAGCAAATGCTGGGGACTATATGAGGCGATTCTGTTCCTCTCTTGGCTTGAACAATCAAGCAATCAAAGCAGCTCAACAAGCTGTGCACAAGTCGCAAGAAATTGATATAAGGAGGAGCCCTGTATCGATAGCCGCAGCAGTGATTTACATCATCACTCAGCTTTCAGATGATAGTAACAAGAGGCCTCTCAAAGATATCGCAGACGTTACAGGAGTAGCACCAGCAACTATCAAAAATTCATACAAAGACCTTAGTCCTCATGTATCTGAAATAATACCCAACTGGTATCATCTGAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko03022 ko05169 ko05203 map03022 map05169 map05203

Pfam Domains

Protein Families

TFIIB TF_Zn_Ribbon

Protein Analysis

196

Amino Acids

21.92

Weight (kDa)

9.31

Isoelectric Point (pI)

51.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIB	PF00382	2 - 79	1e-19	Transcription factor TFIIB repeat
TFIIB	PF00382	97 - 182	1e-12	Transcription factor TFIIB repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0013689)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g39300
rosa_chinensis	RchiOBHm_Chr7g0241511 RchiOBHm_Chr7g0241691
rosa_laevigata	RLG00000000553 RLG00000000574
rosa_multiflora	Rmu_co8351453.1_g000001 Rmu_sc0002268.1_g000006 Rmu_sc0026340.1_g000001
rosa_roxburghii	Rroxscaffold_3G00218810
rosa_rugosa	Rorug03G0267400 Rorug07G0344500 Rorug07G0346400
rosa_samantha	Rh7AG500900 Rh7BG469700 Rh7BG472100 Rh7CG517300 Rh7DG485800
rosa_wichuraiana	Rw7G042320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	206
AciI	CCGC	1 cut(s)	423
AcsI	RAATTY	1 cut(s)	526
AfaI	GTAC	1 cut(s)	80
AgsI	TTSAA	4 cut(s)	10, 92, 287, 340
AluBI	AGCT	3 cut(s)	362, 371, 451
AluI	AGCT	3 cut(s)	362, 371, 451
Alw21I	GWGCWC	1 cut(s)	378
Alw26I	GTCTC	1 cut(s)	14
Alw44I	GTGCAC	1 cut(s)	374
AoxI	GGCC	3 cut(s)	3, 40, 473
ApaLI	GTGCAC	1 cut(s)	374
ApeKI	GCWGC	3 cut(s)	137, 359, 425
ApoI	RAATTY	1 cut(s)	526
AspS9I	GGNCC	1 cut(s)	40
AsuC2I	CCSGG	1 cut(s)	65
BaeGI	GKGCMC	1 cut(s)	378
BanII	GRGCYC	1 cut(s)	410
BbsI	GAAGAC	1 cut(s)	174
Bbv12I	GWGCWC	1 cut(s)	378
BbvI	GCAGC	3 cut(s)	124, 371, 437
BccI	CCATC	2 cut(s)	23, 62
BcnI	CCSGG	1 cut(s)	65
BcoDI	GTCTC	1 cut(s)	14
BisI	GCNGC	4 cut(s)	138, 360, 423, 426
BlsI	GCNGC	4 cut(s)	139, 361, 424, 427
Bme1390I	CCNGG	1 cut(s)	65
BmgT120I	GGNCC	1 cut(s)	40
BmiI	GGNNCC	2 cut(s)	214, 407
BmrFI	CCNGG	1 cut(s)	65
BmrI	ACTGGG	1 cut(s)	272
BmsI	GCATC	1 cut(s)	115
BmuI	ACTGGG	1 cut(s)	272
BoxI	GACNNNNGTC	1 cut(s)	543
BpiI	GAAGAC	1 cut(s)	174
BpuEI	CTTGAG	1 cut(s)	170
BpuMI	CCSGG	1 cut(s)	65
Bsa29I	ATCGAT	1 cut(s)	416
BsaBI	GATNNNNATC	1 cut(s)	437
BsaI	GGTCTC	1 cut(s)	14
Bse1I	ACTGG	2 cut(s)	267, 578
Bse3DI	GCAATG	1 cut(s)	150
Bse8I	GATNNNNATC	1 cut(s)	437
BseCI	ATCGAT	1 cut(s)	416
BseJI	GATNNNNATC	1 cut(s)	437
BseMI	GCAATG	1 cut(s)	150
BseMII	CTCAG	1 cut(s)	461
BseNI	ACTGG	2 cut(s)	267, 578
BseRI	GAGGAG	1 cut(s)	418
BseSI	GKGCMC	1 cut(s)	378
BseXI	GCAGC	3 cut(s)	124, 371, 437
BseYI	CCCAGC	1 cut(s)	299
Bsh1236I	CGCG	1 cut(s)	206
BshFI	GGCC	3 cut(s)	5, 42, 475
BshVI	ATCGAT	1 cut(s)	416
BsiHKAI	GWGCWC	1 cut(s)	378
BsiSI	CCGG	1 cut(s)	64
BslFI	GGGAC	1 cut(s)	317
BsmAI	GTCTC	1 cut(s)	14
BsmFI	GGGAC	1 cut(s)	317
BsnI	GGCC	3 cut(s)	5, 42, 475
Bso31I	GGTCTC	1 cut(s)	14
Bsp1286I	GDGCHC	2 cut(s)	378, 410
Bsp1407I	TGTACA	1 cut(s)	78
Bsp143I	GATC	1 cut(s)	94
Bsp68I	TCGCGA	1 cut(s)	206
BspACI	CCGC	1 cut(s)	423
BspANI	GGCC	3 cut(s)	5, 42, 475
BspCNI	CTCAG	1 cut(s)	460
BspDI	ATCGAT	1 cut(s)	416
BspFNI	CGCG	1 cut(s)	206
BspLI	GGNNCC	2 cut(s)	214, 407
BspTNI	GGTCTC	1 cut(s)	14
BsrDI	GCAATG	1 cut(s)	150
BsrGI	TGTACA	1 cut(s)	78
BsrI	ACTGG	2 cut(s)	267, 578
BssMI	GATC	1 cut(s)	94
BstAUI	TGTACA	1 cut(s)	78
BstC8I	GCNNGC	1 cut(s)	142
BstDEI	CTNAG	2 cut(s)	447, 542
BstFNI	CGCG	1 cut(s)	206
BstKTI	GATC	1 cut(s)	97
BstMAI	GTCTC	1 cut(s)	14
BstMBI	GATC	1 cut(s)	94
BstMWI	GCNNNNNNNGC	6 cut(s)	134, 212, 265, 356, 368, 382
BstPAI	GACNNNNGTC	1 cut(s)	543
BstSCI	CCNGG	1 cut(s)	63
BstSLI	GKGCMC	1 cut(s)	378
BstUI	CGCG	1 cut(s)	206
BstV1I	GCAGC	3 cut(s)	124, 371, 437
BstV2I	GAAGAC	1 cut(s)	174
Bsu15I	ATCGAT	1 cut(s)	416
BsuRI	GGCC	3 cut(s)	5, 42, 475
BsuTUI	ATCGAT	1 cut(s)	416
BtsI	GCAGTG	1 cut(s)	435
BtsIMutI	CAGTG	1 cut(s)	435
BtuMI	TCGCGA	1 cut(s)	206
Cac8I	GCNNGC	1 cut(s)	142
Cfr13I	GGNCC	1 cut(s)	40
ClaI	ATCGAT	1 cut(s)	416
Csp6I	GTAC	1 cut(s)	79
CviAII	CATG	2 cut(s)	25, 551
CviQI	GTAC	1 cut(s)	79
DdeI	CTNAG	2 cut(s)	447, 542
DpnI	GATC	1 cut(s)	96
DpnII	GATC	1 cut(s)	94
Eco147I	AGGCCT	1 cut(s)	475
Eco24I	GRGCYC	1 cut(s)	410
Eco31I	GGTCTC	1 cut(s)	14
Eco32I	GATATC	1 cut(s)	487
EcoRV	GATATC	1 cut(s)	487
EcoT22I	ATGCAT	1 cut(s)	130
EcoT38I	GRGCYC	1 cut(s)	410
FaeI	CATG	2 cut(s)	28, 554
FaiI	YATR	8 cut(s)	26, 148, 251, 309, 311, 398, 532, 552
FalI	AAGNNNNNCTT	2 cut(s)	179, 211
FaqI	GGGAC	1 cut(s)	317
FatI	CATG	2 cut(s)	24, 550
Fnu4HI	GCNGC	4 cut(s)	138, 360, 423, 426
FriOI	GRGCYC	1 cut(s)	410
Fsp4HI	GCNGC	4 cut(s)	138, 360, 423, 426
GluI	GCNGC	4 cut(s)	138, 360, 423, 426
GsaI	CCCAGC	1 cut(s)	303
HaeIII	GGCC	3 cut(s)	5, 42, 475
HapII	CCGG	1 cut(s)	64
Hin1II	CATG	2 cut(s)	28, 554
HincII	GTYRAC	1 cut(s)	51
HindII	GTYRAC	1 cut(s)	51
HinfI	GANTC	2 cut(s)	85, 318
HpaII	CCGG	1 cut(s)	64
Hpy166II	GTNNAC	3 cut(s)	51, 161, 376
Hpy188I	TCNGA	3 cut(s)	457, 559, 585
Hpy188III	TCNNGA	4 cut(s)	19, 58, 89, 205
Hpy8I	GTNNAC	3 cut(s)	51, 161, 376
Hpy99I	CGWCG	1 cut(s)	206
HpyAV	CCTTC	1 cut(s)	16
HpyCH4IV	ACGT	1 cut(s)	495
HpyCH4V	TGCA	2 cut(s)	128, 376
HpyF10VI	GCNNNNNNNGC	6 cut(s)	134, 212, 265, 356, 368, 382
HpyF3I	CTNAG	2 cut(s)	447, 542
HpySE526I	ACGT	1 cut(s)	495
Hsp92II	CATG	2 cut(s)	28, 554
Kzo9I	GATC	1 cut(s)	94
LmnI	GCTCC	2 cut(s)	212, 405
LpnPI	CCDG	8 cut(s)	77, 190, 248, 285, 423, 486, 525, 559
Lsp1109I	GCAGC	3 cut(s)	124, 371, 437
LweI	GCATC	1 cut(s)	115
MaeII	ACGT	1 cut(s)	495
MaeIII	GTNAC	2 cut(s)	464, 496
MalI	GATC	1 cut(s)	96
MboI	GATC	1 cut(s)	94
MboII	GAAGA	4 cut(s)	104, 126, 179, 187
MhlI	GDGCHC	2 cut(s)	378, 410
MluCI	AATT	2 cut(s)	390, 526
MlyI	GAGTC	1 cut(s)	79
MnlI	CCTC	7 cut(s)	226, 306, 337, 396, 465, 486, 558
Mph1103I	ATGCAT	1 cut(s)	130
MspI	CCGG	1 cut(s)	64
MspR9I	CCNGG	1 cut(s)	65
MvnI	CGCG	1 cut(s)	206
MwoI	GCNNNNNNNGC	6 cut(s)	134, 212, 265, 356, 368, 382
NciI	CCSGG	1 cut(s)	65
NdeII	GATC	1 cut(s)	94
NlaIII	CATG	2 cut(s)	28, 554
NlaIV	GGNNCC	2 cut(s)	214, 407
NruI	TCGCGA	1 cut(s)	206
NsiI	ATGCAT	1 cut(s)	130
PceI	AGGCCT	1 cut(s)	475
PfeI	GAWTC	1 cut(s)	318
PkrI	GCNGC	4 cut(s)	139, 361, 424, 427
PleI	GAGTC	1 cut(s)	79
PpsI	GAGTC	1 cut(s)	79
PshAI	GACNNNNGTC	1 cut(s)	543
PspFI	CCCAGC	1 cut(s)	299
PspN4I	GGNNCC	2 cut(s)	214, 407
PspPI	GGNCC	1 cut(s)	40
RruI	TCGCGA	1 cut(s)	206
RsaI	GTAC	1 cut(s)	80
RsaNI	GTAC	1 cut(s)	79
SatI	GCNGC	4 cut(s)	138, 360, 423, 426
Sau3AI	GATC	1 cut(s)	94
Sau96I	GGNCC	1 cut(s)	40
SchI	GAGTC	1 cut(s)	79
ScrFI	CCNGG	1 cut(s)	65
SduI	GDGCHC	2 cut(s)	378, 410
SetI	ASST	6 cut(s)	38, 364, 373, 453, 498, 543
SfaNI	GCATC	1 cut(s)	115
SmlI	CTYRAG	1 cut(s)	185
SmoI	CTYRAG	1 cut(s)	185
Sse9I	AATT	2 cut(s)	390, 526
SseBI	AGGCCT	1 cut(s)	475
SsiI	CCGC	1 cut(s)	423
StuI	AGGCCT	1 cut(s)	475
StyD4I	CCNGG	1 cut(s)	63
TaiI	ACGT	1 cut(s)	498
TaqI	TCGA	2 cut(s)	18, 416
TasI	AATT	2 cut(s)	390, 526
TatI	WGTACW	1 cut(s)	78
TauI	GCSGC	1 cut(s)	425
TfiI	GAWTC	1 cut(s)	318
TscAI	CASTG	1 cut(s)	435
TseI	GCWGC	3 cut(s)	137, 359, 425
TspDTI	ATGAA	1 cut(s)	519
TspGWI	ACGGA	1 cut(s)	190
TspRI	CASTG	1 cut(s)	435
VneI	GTGCAC	1 cut(s)	374
XapI	RAATTY	1 cut(s)	526
Zsp2I	ATGCAT	1 cut(s)	130

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