Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0007079

Physical Location & Seq

Genomic Coordinates Reverse (-)

61638722 .. 61641660

Gene Structure 2939 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG423800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGGAGGAGAAGCCGTCGGCGAGGAGAGTCAAGTCGGAGGAAGACCACGTGGCGAAGAAGGTGAAGACGGAGGAGGACCATGGCGGTACCAAAAGCTTGGATACTGCGAAAGCCGATAAGCTGGTGTGGCTGATGAAGCTGCCGCAGGCGGTGGCCAAGTCTTGGAACTCGCACCCTTCCTCCGATCCTCACCCCGTCGCCAAAGTCGTCCTCTCCCTTGATCCGCTCGAAACCGATGAGACCTCTGCGGTGCAGTTCAAAATGGAGGTTGCTCCCACTGAGGCTGGGATGAAGCCGAAGAATTATTCTATGAACATGTCGAAAGACTTTATTCCTATGTGCGTTTTCTCGGAGGGAAATCAAGGCAAGATTGCCGTGGAGGGAAAAGTAGAGCACAAGTTTGACATGAAGCCCCATGGTACAAACTTTGAAGAGTATGGGAAGATGTGTCGTGAAAGGACAAACAAGTCCATGATCAAGAATAGACAAATACAGGTTATTGATAATGACCGAGGAGTACATATGAGGCCCATGCCTGGTATGATTGGCTTGATTTCTACCAATGCCAAGGTATCAACTTCCTTCAATCCTTTTTTTTTTTTTTTTGCACAAACTAATGTGAGAATGTTAGAAGTGTGTCCTGCTTATTTGCTTGTTGTTTCCTACCCCCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 map03022

Pfam Domains

Protein Families

TFIIF_beta

Protein Analysis

224

Amino Acids

25.25

Weight (kDa)

8.64

Isoelectric Point (pI)

27.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIF_beta_N	PF17683	40 - 138	2.5e-08	TFIIF, beta subunit N-terminus

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)

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Publication-ready

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Orthologous Genes (Group: OG0007079)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52270
rosa_chinensis	RchiOBHm_Chr1g0318621 RchiOBHm_Chr2g0111291 RchiOBHm_Chr6g0302021
rosa_laevigata	RLG00000011202 RLG00000017882
rosa_multiflora	Rmu_co8206050.1_g000001 Rmu_sc0005033.1_g000009 Rmu_sc0040640.1_g000001 Rmu_sc0040770.1_g000002
rosa_roxburghii	Rroxscaffold_7G00166180
rosa_rugosa	Rorug05G0494200 Rorug05G0591000.1 Rorug06G0311100
rosa_samantha	Rh1AG035400 Rh1DG171200 Rh2CG228600 Rh2DG233100 Rh6AG423800 Rh6BG478500 Rh6CG436800 Rh6DG423900
rosa_wichuraiana	Rw2G009110 Rw2G017410 Rw6G036710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	466
Acc65I	GGTACC	1 cut(s)	86
AccB1I	GGYRCC	1 cut(s)	86
AccB7I	CCANNNNNTGG	1 cut(s)	162
AccBSI	CCGCTC	1 cut(s)	226
AciI	CCGC	5 cut(s)	84, 143, 149, 224, 248
AclWI	GGATC	2 cut(s)	179, 215
AcoI	YGGCCR	1 cut(s)	153
AcvI	CACGTG	1 cut(s)	49
AfaI	GTAC	3 cut(s)	88, 421, 519
AfiI	CCNNNNNNNGG	2 cut(s)	162, 536
AflIII	ACRYGT	1 cut(s)	315
AgsI	TTSAA	3 cut(s)	259, 431, 586
AjnI	CCWGG	1 cut(s)	535
AluBI	AGCT	3 cut(s)	96, 121, 139
AluI	AGCT	3 cut(s)	96, 121, 139
Alw21I	GWGCWC	1 cut(s)	396
Alw26I	GTCTC	1 cut(s)	233
AlwI	GGATC	2 cut(s)	179, 215
AoxI	GGCC	2 cut(s)	153, 527
ApeKI	GCWGC	1 cut(s)	139
Asp718I	GGTACC	1 cut(s)	86
AspS9I	GGNCC	2 cut(s)	76, 528
AsuHPI	GGTGA	2 cut(s)	73, 182
AvaII	GGWCC	1 cut(s)	76
BalI	TGGCCA	1 cut(s)	155
BanI	GGYRCC	1 cut(s)	86
BbrPI	CACGTG	1 cut(s)	49
BbsI	GAAGAC	2 cut(s)	48, 71
Bbv12I	GWGCWC	1 cut(s)	396
BbvI	GCAGC	1 cut(s)	126
BceAI	ACGGC	1 cut(s)	359
BciT130I	CCWGG	1 cut(s)	537
BciVI	GTATCC	1 cut(s)	94
BclI	TGATCA	1 cut(s)	474
BcoDI	GTCTC	1 cut(s)	233
BfuI	GTATCC	1 cut(s)	94
BisI	GCNGC	2 cut(s)	140, 143
BlsI	GCNGC	2 cut(s)	141, 144
Bme1390I	CCNGG	1 cut(s)	537
Bme18I	GGWCC	1 cut(s)	76
BmgT120I	GGNCC	2 cut(s)	76, 528
BmiI	GGNNCC	1 cut(s)	88
BmrFI	CCNGG	1 cut(s)	537
BpiI	GAAGAC	2 cut(s)	48, 71
BsaAI	YACGTR	1 cut(s)	49
BsaI	GGTCTC	1 cut(s)	233
BsaJI	CCNNGG	5 cut(s)	79, 375, 415, 511, 567
BsaXI	ACNNNNNCTCC	3 cut(s)	29, 164, 194
Bsc4I	CCNNNNNNNGG	2 cut(s)	162, 536
BseBI	CCWGG	1 cut(s)	537
BseDI	CCNNGG	5 cut(s)	79, 375, 415, 511, 567
BseGI	GGATG	1 cut(s)	294
BseLI	CCNNNNNNNGG	2 cut(s)	162, 536
BseMII	CTCAG	1 cut(s)	270
BseRI	GAGGAG	4 cut(s)	20, 37, 86, 528
BseXI	GCAGC	1 cut(s)	126
BseYI	CCCAGC	1 cut(s)	284
BsgI	GTGCAG	1 cut(s)	272
BshFI	GGCC	2 cut(s)	155, 529
BshNI	GGYRCC	1 cut(s)	86
BsiHKAI	GWGCWC	1 cut(s)	396
BslI	CCNNNNNNNGG	2 cut(s)	162, 536
BsmAI	GTCTC	1 cut(s)	233
BsnI	GGCC	2 cut(s)	155, 529
Bso31I	GGTCTC	1 cut(s)	233
Bsp1286I	GDGCHC	1 cut(s)	396
Bsp143I	GATC	3 cut(s)	184, 220, 474
Bsp19I	CCATGG	2 cut(s)	79, 415
BspACI	CCGC	5 cut(s)	84, 143, 149, 224, 248
BspANI	GGCC	2 cut(s)	155, 529
BspCNI	CTCAG	1 cut(s)	271
BspLI	GGNNCC	1 cut(s)	88
BspPI	GGATC	2 cut(s)	179, 215
BspT107I	GGYRCC	1 cut(s)	86
BspTNI	GGTCTC	1 cut(s)	233
BsrBI	CCGCTC	1 cut(s)	226
BssECI	CCNNGG	5 cut(s)	79, 375, 415, 511, 567
BssMI	GATC	3 cut(s)	184, 220, 474
BssT1I	CCWWGG	3 cut(s)	79, 415, 567
Bst2UI	CCWGG	1 cut(s)	537
Bst6I	CTCTTC	1 cut(s)	426
BstBAI	YACGTR	1 cut(s)	49
BstC8I	GCNNGC	1 cut(s)	147
BstDEI	CTNAG	1 cut(s)	279
BstDSI	CCRYGG	3 cut(s)	79, 375, 415
BstF5I	GGATG	1 cut(s)	294
BstKTI	GATC	3 cut(s)	187, 223, 477
BstMAI	GTCTC	1 cut(s)	233
BstMBI	GATC	3 cut(s)	184, 220, 474
BstMWI	GCNNNNNNNGC	2 cut(s)	127, 136
BstNI	CCWGG	1 cut(s)	537
BstNSI	RCATGY	1 cut(s)	319
BstSCI	CCNGG	1 cut(s)	535
BstV1I	GCAGC	1 cut(s)	126
BstV2I	GAAGAC	2 cut(s)	48, 71
BstXI	CCANNNNNNTGG	1 cut(s)	97
BsuI	GTATCC	1 cut(s)	94
BsuRI	GGCC	2 cut(s)	155, 529
BtgI	CCRYGG	3 cut(s)	79, 375, 415
BtsCI	GGATG	1 cut(s)	294
BtsIMutI	CAGTG	1 cut(s)	276
Cac8I	GCNNGC	1 cut(s)	147
Cfr13I	GGNCC	2 cut(s)	76, 528
Csp6I	GTAC	3 cut(s)	87, 420, 518
CviAII	CATG	6 cut(s)	80, 316, 406, 416, 472, 532
CviQI	GTAC	3 cut(s)	87, 420, 518
DdeI	CTNAG	1 cut(s)	279
DpnI	GATC	3 cut(s)	186, 222, 476
DpnII	GATC	3 cut(s)	184, 220, 474
DrdI	GACNNNNNNGTC	1 cut(s)	466
DseDI	GACNNNNNNGTC	1 cut(s)	466
EaeI	YGGCCR	1 cut(s)	153
Eam1104I	CTCTTC	1 cut(s)	426
EarI	CTCTTC	1 cut(s)	426
Eco130I	CCWWGG	3 cut(s)	79, 415, 567
Eco31I	GGTCTC	1 cut(s)	233
Eco47I	GGWCC	1 cut(s)	76
Eco72I	CACGTG	1 cut(s)	49
EcoRII	CCWGG	1 cut(s)	535
EcoT14I	CCWWGG	3 cut(s)	79, 415, 567
ErhI	CCWWGG	3 cut(s)	79, 415, 567
FaeI	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
FatI	CATG	6 cut(s)	79, 315, 405, 415, 471, 531
FauNDI	CATATG	1 cut(s)	522
FbaI	TGATCA	1 cut(s)	474
Fnu4HI	GCNGC	2 cut(s)	140, 143
FokI	GGATG	1 cut(s)	301
Fsp4HI	GCNGC	2 cut(s)	140, 143
GluI	GCNGC	2 cut(s)	140, 143
GsaI	CCCAGC	1 cut(s)	288
HaeIII	GGCC	2 cut(s)	155, 529
Hin1II	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
HindIII	AAGCTT	1 cut(s)	94
HinfI	GANTC	1 cut(s)	27
HphI	GGTGA	2 cut(s)	73, 182
Hpy188I	TCNGA	3 cut(s)	37, 184, 352
Hpy188III	TCNNGA	2 cut(s)	452, 478
Hpy99I	CGWCG	2 cut(s)	19, 200
HpyAV	CCTTC	3 cut(s)	52, 186, 592
HpyCH4IV	ACGT	1 cut(s)	48
HpyCH4V	TGCA	2 cut(s)	253, 608
HpyF10VI	GCNNNNNNNGC	2 cut(s)	127, 136
HpyF3I	CTNAG	1 cut(s)	279
HpySE526I	ACGT	1 cut(s)	48
Hsp92II	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
KpnI	GGTACC	1 cut(s)	90
Ksp22I	TGATCA	1 cut(s)	474
Kzo9I	GATC	3 cut(s)	184, 220, 474
LmnI	GCTCC	1 cut(s)	277
LpnPI	CCDG	7 cut(s)	107, 131, 270, 479, 522, 549, 654
Lsp1109I	GCAGC	1 cut(s)	126
MaeII	ACGT	1 cut(s)	48
MalI	GATC	3 cut(s)	186, 222, 476
MbiI	CCGCTC	1 cut(s)	226
MboI	GATC	3 cut(s)	184, 220, 474
MboII	GAAGA	6 cut(s)	53, 67, 76, 310, 443, 454
MhlI	GDGCHC	1 cut(s)	396
MlsI	TGGCCA	1 cut(s)	155
MluCI	AATT	1 cut(s)	301
MluNI	TGGCCA	1 cut(s)	155
MlyI	GAGTC	1 cut(s)	36
MmeI	TCCRAC	1 cut(s)	15
Mox20I	TGGCCA	1 cut(s)	155
MscI	TGGCCA	1 cut(s)	155
Msp20I	TGGCCA	1 cut(s)	155
MspR9I	CCNGG	1 cut(s)	537
MvaI	CCWGG	1 cut(s)	537
MwoI	GCNNNNNNNGC	2 cut(s)	127, 136
NcoI	CCATGG	2 cut(s)	79, 415
NdeI	CATATG	1 cut(s)	522
NdeII	GATC	3 cut(s)	184, 220, 474
NlaIII	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
NlaIV	GGNNCC	1 cut(s)	88
NspI	RCATGY	1 cut(s)	319
PciI	ACATGT	1 cut(s)	315
PcsI	WCGNNNNNNNCGW	1 cut(s)	204
PflMI	CCANNNNNTGG	1 cut(s)	162
PkrI	GCNGC	2 cut(s)	141, 144
PleI	GAGTC	1 cut(s)	35
PmaCI	CACGTG	1 cut(s)	49
PmlI	CACGTG	1 cut(s)	49
PpsI	GAGTC	1 cut(s)	35
Ppu21I	YACGTR	1 cut(s)	49
PscI	ACATGT	1 cut(s)	315
Psp6I	CCWGG	1 cut(s)	535
PspCI	CACGTG	1 cut(s)	49
PspFI	CCCAGC	1 cut(s)	284
PspGI	CCWGG	1 cut(s)	535
PspN4I	GGNNCC	1 cut(s)	88
PspPI	GGNCC	2 cut(s)	76, 528
RsaI	GTAC	3 cut(s)	88, 421, 519
RsaNI	GTAC	3 cut(s)	87, 420, 518
SatI	GCNGC	2 cut(s)	140, 143
Sau3AI	GATC	3 cut(s)	184, 220, 474
Sau96I	GGNCC	2 cut(s)	76, 528
SchI	GAGTC	1 cut(s)	36
ScrFI	CCNGG	1 cut(s)	537
SduI	GDGCHC	1 cut(s)	396
SetI	ASST	9 cut(s)	51, 63, 98, 123, 141, 245, 270, 498, 573
SinI	GGWCC	1 cut(s)	76
Sse9I	AATT	1 cut(s)	301
SsiI	CCGC	5 cut(s)	84, 143, 149, 224, 248
StyD4I	CCNGG	1 cut(s)	535
StyI	CCWWGG	3 cut(s)	79, 415, 567
TaiI	ACGT	1 cut(s)	51
TaqI	TCGA	2 cut(s)	228, 320
TaqII	GACCGA	1 cut(s)	525
TasI	AATT	1 cut(s)	301
TatI	WGTACW	1 cut(s)	517
TauI	GCSGC	1 cut(s)	145
TscAI	CASTG	1 cut(s)	283
TseI	GCWGC	1 cut(s)	139
TspDTI	ATGAA	4 cut(s)	149, 305, 326, 422
TspGWI	ACGGA	1 cut(s)	83
TspRI	CASTG	1 cut(s)	283
Van91I	CCANNNNNTGG	1 cut(s)	162
VpaK11BI	GGWCC	1 cut(s)	76
XceI	RCATGY	1 cut(s)	319

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