Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0007079

Physical Location & Seq

Genomic Coordinates Reverse (-)

61629257 .. 61632284

Gene Structure 3028 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG436800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGGAGGAGAAGCCGTCGGCGAGGAGAGTCAAGTCGGAGGAAGACCACGTGGCGAAGAAGGTGAAGACGGAGGAGGACCATGGCGGTACCAAAAGCTTGGATACTGCGAAAGCCGATAAGCTGGTGTGGCTGATGAAGCTGCCGCAGGCGGTGGCCAAGTCTTGGAACTCGCACCCTTCCTCCGATCCTCACCCCGTCGCCAAAGTCGTCCTCTCCCTTGATCCGCTCGAAACCGATGAGACCTCTGCGGTGCAGTTCAAAATGGAGGTTGCTCCCACTGAGGCTGGGATGAAGCCGAAGAATTATTCTATGAACATGTCGAAAGACTTTATTCCTATGTGCGTTTTCTCGGAGGGAAATCAAGGCAAGATTGCCGTGGAAGGAAAAGTAGAGCACAAGTTTGACATGAAGCCCCATGGTACAAACTTTGAAGAGTATGGGAAGATGTGTCGTGAAAGGACAAACAAGTCCATGATCAAGAATAGACAAATACAGGTTATTGATAATGACCGAGGAGTACATATGAGGCCCATGCCTGGTATGATTGGCTTGATTTCTACCAATGCCAAGGATAAGAAGAAACCTGTACCAGTTAAACAATCAGATGTGAAAAGGACTAGAAGGGATCGTGGGGAACTGGAGGATATAATGTTCAAGTTATTTGAAAGACAACCAAATTGGGCATTGAAGCAGCTTGTGCAAGAGACTGATCAACCTGCGCAATTCTTGAAAGAGATACTAAATGAGCTCTGTGTATACAACAAAAGGGGAACCAACCAGGGTACTTATGAGCTTAAGCCAGAGTACAAGAAATCTGTTGATGATACACCTGCAGAATAA

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

279

Amino Acids

31.85

Weight (kDa)

8.87

Isoelectric Point (pI)

31.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIF_beta_N	PF17683	40 - 151	2.9e-08	TFIIF, beta subunit N-terminus
TFIIF_beta	PF02270	207 - 270	6.3e-21	TFIIF, beta subunit HTH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
Acc16I	TGCGCA	1 cut(s)	720
Acc36I	ACCTGC	1 cut(s)	724
Acc65I	GGTACC	1 cut(s)	86
AccB1I	GGYRCC	1 cut(s)	86
AccB7I	CCANNNNNTGG	1 cut(s)	162
AccBSI	CCGCTC	1 cut(s)	226
AccI	GTMKAC	1 cut(s)	756
AciI	CCGC	5 cut(s)	84, 143, 149, 224, 248
AclWI	GGATC	3 cut(s)	179, 215, 633
AcoI	YGGCCR	1 cut(s)	153
AcvI	CACGTG	1 cut(s)	49
AfaI	GTAC	6 cut(s)	88, 421, 519, 588, 784, 806
AfiI	CCNNNNNNNGG	2 cut(s)	162, 536
AflII	CTTAAG	1 cut(s)	794
AflIII	ACRYGT	1 cut(s)	315
AgsI	TTSAA	6 cut(s)	259, 431, 655, 665, 688, 730
AjnI	CCWGG	2 cut(s)	535, 777
AloI	GAACNNNNNNTCC	2 cut(s)	635, 667
AluBI	AGCT	6 cut(s)	96, 121, 139, 694, 748, 793
AluI	AGCT	6 cut(s)	96, 121, 139, 694, 748, 793
Alw21I	GWGCWC	2 cut(s)	396, 750
Alw26I	GTCTC	2 cut(s)	233, 698
AlwI	GGATC	3 cut(s)	179, 215, 633
AoxI	GGCC	2 cut(s)	153, 527
ApeKI	GCWGC	2 cut(s)	139, 691
Asp718I	GGTACC	1 cut(s)	86
AspLEI	GCGC	1 cut(s)	721
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
BanII	GRGCYC	1 cut(s)	750
BbrPI	CACGTG	1 cut(s)	49
BbsI	GAAGAC	2 cut(s)	48, 71
Bbv12I	GWGCWC	2 cut(s)	396, 750
BbvI	GCAGC	2 cut(s)	126, 703
BceAI	ACGGC	1 cut(s)	359
BciT130I	CCWGG	2 cut(s)	537, 779
BciVI	GTATCC	1 cut(s)	94
BclI	TGATCA	2 cut(s)	474, 709
BcoDI	GTCTC	2 cut(s)	233, 698
BfaI	CTAG	1 cut(s)	618
BfmI	CTRYAG	1 cut(s)	831
BfrI	CTTAAG	1 cut(s)	794
BfuAI	ACCTGC	1 cut(s)	724
BfuI	GTATCC	1 cut(s)	94
BisI	GCNGC	3 cut(s)	140, 143, 692
BlsI	GCNGC	3 cut(s)	141, 144, 693
Bme1390I	CCNGG	2 cut(s)	537, 779
Bme18I	GGWCC	1 cut(s)	76
BmgT120I	GGNCC	2 cut(s)	76, 528
BmiI	GGNNCC	2 cut(s)	88, 772
BmrFI	CCNGG	2 cut(s)	537, 779
BpiI	GAAGAC	2 cut(s)	48, 71
BpmI	CTGGAG	1 cut(s)	659
BsaAI	YACGTR	1 cut(s)	49
BsaI	GGTCTC	1 cut(s)	233
BsaJI	CCNNGG	6 cut(s)	79, 375, 415, 511, 567, 778
BsaXI	ACNNNNNCTCC	3 cut(s)	29, 164, 194
Bsc4I	CCNNNNNNNGG	2 cut(s)	162, 536
Bse1I	ACTGG	2 cut(s)	590, 642
BseBI	CCWGG	2 cut(s)	537, 779
BseDI	CCNNGG	6 cut(s)	79, 375, 415, 511, 567, 778
BseGI	GGATG	1 cut(s)	294
BseLI	CCNNNNNNNGG	2 cut(s)	162, 536
BseMII	CTCAG	1 cut(s)	270
BseNI	ACTGG	2 cut(s)	590, 642
BseRI	GAGGAG	4 cut(s)	20, 37, 86, 528
BseXI	GCAGC	2 cut(s)	126, 703
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	2 cut(s)	396, 750
BslI	CCNNNNNNNGG	2 cut(s)	162, 536
BsmAI	GTCTC	2 cut(s)	233, 698
BsnI	GGCC	2 cut(s)	155, 529
Bso31I	GGTCTC	1 cut(s)	233
Bsp1286I	GDGCHC	2 cut(s)	396, 750
Bsp143I	GATC	5 cut(s)	184, 220, 474, 625, 709
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	2 cut(s)	88, 772
BspMAI	CTGCAG	1 cut(s)	835
BspMI	ACCTGC	1 cut(s)	724
BspPI	GGATC	3 cut(s)	179, 215, 633
BspT107I	GGYRCC	1 cut(s)	86
BspTI	CTTAAG	1 cut(s)	794
BspTNI	GGTCTC	1 cut(s)	233
BsrBI	CCGCTC	1 cut(s)	226
BsrI	ACTGG	2 cut(s)	590, 642
BssECI	CCNNGG	6 cut(s)	79, 375, 415, 511, 567, 778
BssMI	GATC	5 cut(s)	184, 220, 474, 625, 709
BssNAI	GTATAC	1 cut(s)	757
BssT1I	CCWWGG	3 cut(s)	79, 415, 567
Bst1107I	GTATAC	1 cut(s)	757
Bst2UI	CCWGG	2 cut(s)	537, 779
Bst6I	CTCTTC	1 cut(s)	426
BstAFI	CTTAAG	1 cut(s)	794
BstAPI	GCANNNNNTGC	1 cut(s)	697
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
BstHHI	GCGC	1 cut(s)	721
BstKTI	GATC	5 cut(s)	187, 223, 477, 628, 712
BstMAI	GTCTC	2 cut(s)	233, 698
BstMBI	GATC	5 cut(s)	184, 220, 474, 625, 709
BstMWI	GCNNNNNNNGC	3 cut(s)	127, 136, 697
BstNI	CCWGG	2 cut(s)	537, 779
BstNSI	RCATGY	1 cut(s)	319
BstSCI	CCNGG	2 cut(s)	535, 777
BstSFI	CTRYAG	1 cut(s)	831
BstV1I	GCAGC	2 cut(s)	126, 703
BstV2I	GAAGAC	2 cut(s)	48, 71
BstXI	CCANNNNNNTGG	1 cut(s)	97
BstZ17I	GTATAC	1 cut(s)	757
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
BveI	ACCTGC	1 cut(s)	724
Cac8I	GCNNGC	1 cut(s)	147
CfoI	GCGC	1 cut(s)	721
Cfr13I	GGNCC	2 cut(s)	76, 528
Csp6I	GTAC	6 cut(s)	87, 420, 518, 587, 783, 805
CviAII	CATG	6 cut(s)	80, 316, 406, 416, 472, 532
CviQI	GTAC	6 cut(s)	87, 420, 518, 587, 783, 805
DdeI	CTNAG	1 cut(s)	279
DpnI	GATC	5 cut(s)	186, 222, 476, 627, 711
DpnII	GATC	5 cut(s)	184, 220, 474, 625, 709
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
Ecl136II	GAGCTC	1 cut(s)	748
Eco130I	CCWWGG	3 cut(s)	79, 415, 567
Eco24I	GRGCYC	1 cut(s)	750
Eco31I	GGTCTC	1 cut(s)	233
Eco47I	GGWCC	1 cut(s)	76
Eco53kI	GAGCTC	1 cut(s)	748
Eco72I	CACGTG	1 cut(s)	49
EcoICRI	GAGCTC	1 cut(s)	748
EcoRII	CCWGG	2 cut(s)	535, 777
EcoT14I	CCWWGG	3 cut(s)	79, 415, 567
EcoT38I	GRGCYC	1 cut(s)	750
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	2 cut(s)	474, 709
FblI	GTMKAC	1 cut(s)	756
Fnu4HI	GCNGC	3 cut(s)	140, 143, 692
FokI	GGATG	1 cut(s)	301
FriOI	GRGCYC	1 cut(s)	750
Fsp4HI	GCNGC	3 cut(s)	140, 143, 692
FspBI	CTAG	1 cut(s)	618
FspI	TGCGCA	1 cut(s)	720
GlaI	GCGC	1 cut(s)	720
GluI	GCNGC	3 cut(s)	140, 143, 692
GsaI	CCCAGC	1 cut(s)	288
GsuI	CTGGAG	1 cut(s)	659
HaeIII	GGCC	2 cut(s)	155, 529
HhaI	GCGC	1 cut(s)	721
Hin1II	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
Hin6I	GCGC	1 cut(s)	719
HinP1I	GCGC	1 cut(s)	719
HindIII	AAGCTT	1 cut(s)	94
HinfI	GANTC	1 cut(s)	27
HphI	GGTGA	2 cut(s)	73, 182
Hpy166II	GTNNAC	1 cut(s)	757
Hpy188I	TCNGA	4 cut(s)	37, 184, 352, 604
Hpy188III	TCNNGA	3 cut(s)	452, 478, 727
Hpy8I	GTNNAC	1 cut(s)	757
Hpy99I	CGWCG	2 cut(s)	19, 200
HpyAV	CCTTC	4 cut(s)	52, 186, 374, 615
HpyCH4IV	ACGT	1 cut(s)	48
HpyCH4V	TGCA	3 cut(s)	253, 700, 833
HpyF10VI	GCNNNNNNNGC	3 cut(s)	127, 136, 697
HpyF3I	CTNAG	1 cut(s)	279
HpySE526I	ACGT	1 cut(s)	48
Hsp92II	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
HspAI	GCGC	1 cut(s)	719
KpnI	GGTACC	1 cut(s)	90
Ksp22I	TGATCA	2 cut(s)	474, 709
Kzo9I	GATC	5 cut(s)	184, 220, 474, 625, 709
LmnI	GCTCC	1 cut(s)	277
Lsp1109I	GCAGC	2 cut(s)	126, 703
MaeI	CTAG	1 cut(s)	618
MaeII	ACGT	1 cut(s)	48
MalI	GATC	5 cut(s)	186, 222, 476, 627, 711
MbiI	CCGCTC	1 cut(s)	226
MboI	GATC	5 cut(s)	184, 220, 474, 625, 709
MboII	GAAGA	7 cut(s)	53, 67, 76, 310, 443, 454, 589
MhlI	GDGCHC	2 cut(s)	396, 750
MlsI	TGGCCA	1 cut(s)	155
MluCI	AATT	3 cut(s)	301, 676, 722
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
MseI	TTAA	2 cut(s)	594, 795
Msp20I	TGGCCA	1 cut(s)	155
MspCI	CTTAAG	1 cut(s)	794
MspR9I	CCNGG	2 cut(s)	537, 779
MvaI	CCWGG	2 cut(s)	537, 779
MwoI	GCNNNNNNNGC	3 cut(s)	127, 136, 697
NcoI	CCATGG	2 cut(s)	79, 415
NdeI	CATATG	1 cut(s)	522
NdeII	GATC	5 cut(s)	184, 220, 474, 625, 709
NlaIII	CATG	6 cut(s)	83, 319, 409, 419, 475, 535
NlaIV	GGNNCC	2 cut(s)	88, 772
NsbI	TGCGCA	1 cut(s)	720
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	3 cut(s)	141, 144, 693
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
Psp124BI	GAGCTC	1 cut(s)	750
Psp6I	CCWGG	2 cut(s)	535, 777
PspCI	CACGTG	1 cut(s)	49
PspFI	CCCAGC	1 cut(s)	284
PspGI	CCWGG	2 cut(s)	535, 777
PspN4I	GGNNCC	2 cut(s)	88, 772
PspPI	GGNCC	2 cut(s)	76, 528
PstI	CTGCAG	1 cut(s)	835
RsaI	GTAC	6 cut(s)	88, 421, 519, 588, 784, 806
RsaNI	GTAC	6 cut(s)	87, 420, 518, 587, 783, 805
SacI	GAGCTC	1 cut(s)	750
SaqAI	TTAA	2 cut(s)	594, 795
SatI	GCNGC	3 cut(s)	140, 143, 692
Sau3AI	GATC	5 cut(s)	184, 220, 474, 625, 709
Sau96I	GGNCC	2 cut(s)	76, 528
SchI	GAGTC	1 cut(s)	36
ScrFI	CCNGG	2 cut(s)	537, 779
SduI	GDGCHC	2 cut(s)	396, 750
SfcI	CTRYAG	1 cut(s)	831
SinI	GGWCC	1 cut(s)	76
SmlI	CTYRAG	1 cut(s)	794
SmoI	CTYRAG	1 cut(s)	794
Sse9I	AATT	3 cut(s)	301, 676, 722
SsiI	CCGC	5 cut(s)	84, 143, 149, 224, 248
SspMI	CTAG	1 cut(s)	618
SstI	GAGCTC	1 cut(s)	750
StyD4I	CCNGG	2 cut(s)	535, 777
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	3 cut(s)	301, 676, 722
TatI	WGTACW	2 cut(s)	517, 804
TauI	GCSGC	1 cut(s)	145
Tru1I	TTAA	2 cut(s)	594, 795
Tru9I	TTAA	2 cut(s)	594, 795
TscAI	CASTG	1 cut(s)	283
TseI	GCWGC	2 cut(s)	139, 691
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
Vha464I	CTTAAG	1 cut(s)	794
VpaK11BI	GGWCC	1 cut(s)	76
XceI	RCATGY	1 cut(s)	319
XmiI	GTMKAC	1 cut(s)	756
XspI	CTAG	1 cut(s)	618

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