Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr7

Orthogroup ID

OG0013689

Physical Location & Seq

Genomic Coordinates Forward (+)

65957927 .. 65958807

Gene Structure 881 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw7G042320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 804 bp

ATGGATTGCCACGAATGCCGCTTCCAAACCGATGTGGTGTTCGACCACTCCACCGGCGACGCCGTCTGCAAAAACTGCGGCTTAGTGCTCGAGTCCCACTACATCGACGAGACCAACGAGTGGCGAACCTTCGCCGACGACAATACTCGCGACGACCCCAACCGTGTTGGTGCTGCAGCCAACCCACTATTGTCCGGTGGCGGACTGTCCACCGTCATGGCCAAGCCCAACGGAGAGGTTGGCCTTGTTTCCACCATCAAGAACCGGGCAAATGAGATGTACAAGACTCTTGAAGATCATAAGTGTAGCAAGGGAAGAAACCAAGATGCATTATTGGCTGCTTGCCTATACATTGCTTGTAAACATGAAGAAAAGCCCAGAACTCTCAAGGAAATCTTCTCCGTCGCGAATGGAGCCTCAAAGAAAGAGATTGGTAGAGCAAAGGAATACATAATCAAGCAACTGGGGTTAATGGAGAAGCCATTTCAAGTAGCAAATGCTGGGAACTATATGAGGCGATTCTGTTCCTCTCTTGGCTTGAACAATCAAGCAATCAAAGCAGCTCAACAAGCAGTGCACAAGTCGCAAGAATTTGATATAAGGAGGAGCCCTGTATCGATAGCCGCAGCGGTGATTTACATCATCACTCAGCTTTCAGATGATAGTAACAAGAGGCCTCTCAAAGATATCGCAGACGTTACCGGAGTAGCACCAGCAACTATCAAAAATTCATACAAAGACCTTAGTCCTCATGTATCTGAAATAATACCCGACTGGTATCATCTGTATTTGTCAAACACTTGA

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

267

Amino Acids

29.58

Weight (kDa)

7.06

Isoelectric Point (pI)

40.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_Ribbon_TF	PF08271	2 - 44	1.1e-13	TFIIB zinc-binding
TFIIB	PF00382	80 - 146	4.4e-15	Transcription factor TFIIB repeat
TFIIB	PF00382	164 - 249	3.3e-12	Transcription factor TFIIB repeat

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: 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)
AccB7I	CCANNNNNTGG	1 cut(s)	120
AccII	CGCG	2 cut(s)	150, 407
AciI	CCGC	5 cut(s)	19, 78, 201, 624, 629
AcoI	YGGCCR	1 cut(s)	219
AcsI	RAATTY	2 cut(s)	590, 727
AcyI	GRCGYC	1 cut(s)	60
AfaI	GTAC	1 cut(s)	281
AfiI	CCNNNNNNNGG	1 cut(s)	120
AgsI	TTSAA	3 cut(s)	293, 488, 541
AluBI	AGCT	2 cut(s)	563, 652
AluI	AGCT	2 cut(s)	563, 652
Alw21I	GWGCWC	2 cut(s)	90, 579
Alw26I	GTCTC	1 cut(s)	104
Alw44I	GTGCAC	1 cut(s)	575
Ama87I	CYCGRG	1 cut(s)	89
AoxI	GGCC	3 cut(s)	219, 241, 674
ApaLI	GTGCAC	1 cut(s)	575
ApeKI	GCWGC	5 cut(s)	173, 176, 338, 560, 626
ApoI	RAATTY	2 cut(s)	590, 727
AsuC2I	CCSGG	1 cut(s)	266
AsuHPI	GGTGA	1 cut(s)	643
AvaI	CYCGRG	1 cut(s)	89
BaeGI	GKGCMC	1 cut(s)	579
BalI	TGGCCA	1 cut(s)	221
BanII	GRGCYC	1 cut(s)	611
Bbv12I	GWGCWC	2 cut(s)	90, 579
BbvI	GCAGC	5 cut(s)	160, 188, 325, 572, 638
BccI	CCATC	1 cut(s)	263
BceAI	ACGGC	1 cut(s)	47
BcnI	CCSGG	1 cut(s)	266
BcoDI	GTCTC	1 cut(s)	104
BfmI	CTRYAG	1 cut(s)	174
BisI	GCNGC	8 cut(s)	19, 79, 174, 177, 339, 561, 624, 627
BlsI	GCNGC	8 cut(s)	20, 80, 175, 178, 340, 562, 625, 628
Bme1390I	CCNGG	1 cut(s)	266
BmeT110I	CYCGRG	1 cut(s)	89
BmiI	GGNNCC	2 cut(s)	415, 608
BmrFI	CCNGG	1 cut(s)	266
BmrI	ACTGGG	1 cut(s)	473
BmsI	GCATC	1 cut(s)	316
BmuI	ACTGGG	1 cut(s)	473
BoxI	GACNNNNGTC	1 cut(s)	744
BpuEI	CTTGAG	1 cut(s)	371
BpuMI	CCSGG	1 cut(s)	266
Bsa29I	ATCGAT	1 cut(s)	617
BsaBI	GATNNNNATC	1 cut(s)	638
BsaHI	GRCGYC	1 cut(s)	60
BsaI	GGTCTC	1 cut(s)	104
BsaWI	WCCGGW	2 cut(s)	194, 701
Bsc4I	CCNNNNNNNGG	1 cut(s)	120
Bse118I	RCCGGY	1 cut(s)	53
Bse1I	ACTGG	2 cut(s)	468, 779
Bse3DI	GCAATG	1 cut(s)	351
Bse8I	GATNNNNATC	1 cut(s)	638
BseCI	ATCGAT	1 cut(s)	617
BseJI	GATNNNNATC	1 cut(s)	638
BseLI	CCNNNNNNNGG	1 cut(s)	120
BseMI	GCAATG	1 cut(s)	351
BseMII	CTCAG	1 cut(s)	662
BseNI	ACTGG	2 cut(s)	468, 779
BseRI	GAGGAG	1 cut(s)	619
BseSI	GKGCMC	1 cut(s)	579
BseXI	GCAGC	5 cut(s)	160, 188, 325, 572, 638
BseYI	CCCAGC	1 cut(s)	500
Bsh1236I	CGCG	2 cut(s)	150, 407
BshFI	GGCC	3 cut(s)	221, 243, 676
BshVI	ATCGAT	1 cut(s)	617
BsiHKAI	GWGCWC	2 cut(s)	90, 579
BsiHKCI	CYCGRG	1 cut(s)	89
BsiSI	CCGG	4 cut(s)	54, 195, 265, 702
BslFI	GGGAC	1 cut(s)	79
BslI	CCNNNNNNNGG	1 cut(s)	120
BsmAI	GTCTC	1 cut(s)	104
BsmFI	GGGAC	1 cut(s)	79
BsmI	GAATGC	1 cut(s)	20
BsnI	GGCC	3 cut(s)	221, 243, 676
Bso31I	GGTCTC	1 cut(s)	104
BsoBI	CYCGRG	1 cut(s)	89
Bsp1286I	GDGCHC	3 cut(s)	90, 579, 611
Bsp1407I	TGTACA	1 cut(s)	279
Bsp143I	GATC	1 cut(s)	295
Bsp68I	TCGCGA	2 cut(s)	150, 407
BspACI	CCGC	5 cut(s)	19, 78, 201, 624, 629
BspANI	GGCC	3 cut(s)	221, 243, 676
BspCNI	CTCAG	1 cut(s)	661
BspDI	ATCGAT	1 cut(s)	617
BspFNI	CGCG	2 cut(s)	150, 407
BspLI	GGNNCC	2 cut(s)	415, 608
BspMAI	CTGCAG	1 cut(s)	178
BspTNI	GGTCTC	1 cut(s)	104
BsrDI	GCAATG	1 cut(s)	351
BsrFI	RCCGGY	1 cut(s)	53
BsrGI	TGTACA	1 cut(s)	279
BsrI	ACTGG	2 cut(s)	468, 779
BssAI	RCCGGY	1 cut(s)	53
BssMI	GATC	1 cut(s)	295
BssNI	GRCGYC	1 cut(s)	60
Bst4CI	ACNGT	3 cut(s)	164, 207, 214
BstACI	GRCGYC	1 cut(s)	60
BstAPI	GCANNNNNTGC	1 cut(s)	75
BstAUI	TGTACA	1 cut(s)	279
BstC8I	GCNNGC	1 cut(s)	343
BstDEI	CTNAG	3 cut(s)	82, 648, 743
BstFNI	CGCG	2 cut(s)	150, 407
BstKTI	GATC	1 cut(s)	298
BstMAI	GTCTC	1 cut(s)	104
BstMBI	GATC	1 cut(s)	295
BstMWI	GCNNNNNNNGC	7 cut(s)	15, 75, 335, 413, 557, 569, 583
BstPAI	GACNNNNGTC	1 cut(s)	744
BstSCI	CCNGG	1 cut(s)	264
BstSFI	CTRYAG	1 cut(s)	174
BstSLI	GKGCMC	1 cut(s)	579
BstUI	CGCG	2 cut(s)	150, 407
BstV1I	GCAGC	5 cut(s)	160, 188, 325, 572, 638
BstXI	CCANNNNNNTGG	1 cut(s)	217
Bsu15I	ATCGAT	1 cut(s)	617
BsuRI	GGCC	3 cut(s)	221, 243, 676
BsuTUI	ATCGAT	1 cut(s)	617
BtsI	GCAGTG	1 cut(s)	579
BtsIMutI	CAGTG	1 cut(s)	579
BtuMI	TCGCGA	2 cut(s)	150, 407
Cac8I	GCNNGC	1 cut(s)	343
Cfr10I	RCCGGY	1 cut(s)	53
ClaI	ATCGAT	1 cut(s)	617
CseI	GACGC	1 cut(s)	68
Csp6I	GTAC	1 cut(s)	280
CviAII	CATG	3 cut(s)	217, 365, 752
CviQI	GTAC	1 cut(s)	280
DdeI	CTNAG	3 cut(s)	82, 648, 743
DpnI	GATC	1 cut(s)	297
DpnII	GATC	1 cut(s)	295
EaeI	YGGCCR	1 cut(s)	219
EciI	GGCGGA	1 cut(s)	216
Eco147I	AGGCCT	1 cut(s)	676
Eco24I	GRGCYC	1 cut(s)	611
Eco31I	GGTCTC	1 cut(s)	104
Eco32I	GATATC	1 cut(s)	688
Eco88I	CYCGRG	1 cut(s)	89
EcoRV	GATATC	1 cut(s)	688
EcoT22I	ATGCAT	1 cut(s)	331
EcoT38I	GRGCYC	1 cut(s)	611
FaeI	CATG	3 cut(s)	220, 368, 755
FalI	AAGNNNNNCTT	2 cut(s)	380, 412
FaqI	GGGAC	1 cut(s)	79
FatI	CATG	3 cut(s)	216, 364, 751
Fnu4HI	GCNGC	8 cut(s)	19, 79, 174, 177, 339, 561, 624, 627
FriOI	GRGCYC	1 cut(s)	611
Fsp4HI	GCNGC	8 cut(s)	19, 79, 174, 177, 339, 561, 624, 627
GluI	GCNGC	8 cut(s)	19, 79, 174, 177, 339, 561, 624, 627
GsaI	CCCAGC	1 cut(s)	504
HaeIII	GGCC	3 cut(s)	221, 243, 676
HapII	CCGG	4 cut(s)	54, 195, 265, 702
HgaI	GACGC	1 cut(s)	68
Hin1I	GRCGYC	1 cut(s)	60
Hin1II	CATG	3 cut(s)	220, 368, 755
HinfI	GANTC	3 cut(s)	92, 286, 519
HpaII	CCGG	4 cut(s)	54, 195, 265, 702
HphI	GGTGA	1 cut(s)	643
Hpy166II	GTNNAC	3 cut(s)	210, 362, 577
Hpy188I	TCNGA	2 cut(s)	658, 760
Hpy188III	TCNNGA	4 cut(s)	149, 259, 290, 406
Hpy8I	GTNNAC	3 cut(s)	210, 362, 577
Hpy99I	CGWCG	5 cut(s)	62, 110, 140, 155, 407
HpyAV	CCTTC	1 cut(s)	139
HpyCH4III	ACNGT	3 cut(s)	164, 207, 214
HpyCH4IV	ACGT	1 cut(s)	696
HpyCH4V	TGCA	4 cut(s)	69, 176, 329, 577
HpyF10VI	GCNNNNNNNGC	7 cut(s)	15, 75, 335, 413, 557, 569, 583
HpyF3I	CTNAG	3 cut(s)	82, 648, 743
HpySE526I	ACGT	1 cut(s)	696
Hsp92I	GRCGYC	1 cut(s)	60
Hsp92II	CATG	3 cut(s)	220, 368, 755
Kzo9I	GATC	1 cut(s)	295
LmnI	GCTCC	2 cut(s)	413, 606
Lsp1109I	GCAGC	5 cut(s)	160, 188, 325, 572, 638
LweI	GCATC	1 cut(s)	316
MaeII	ACGT	1 cut(s)	696
MaeIII	GTNAC	2 cut(s)	665, 697
MalI	GATC	1 cut(s)	297
MboI	GATC	1 cut(s)	295
MboII	GAAGA	4 cut(s)	305, 327, 380, 388
MhlI	GDGCHC	3 cut(s)	90, 579, 611
MlsI	TGGCCA	1 cut(s)	221
MluCI	AATT	2 cut(s)	590, 727
MluNI	TGGCCA	1 cut(s)	221
MlyI	GAGTC	2 cut(s)	101, 280
MnlI	CCTC	8 cut(s)	229, 427, 507, 538, 597, 666, 687, 759
Mox20I	TGGCCA	1 cut(s)	221
Mph1103I	ATGCAT	1 cut(s)	331
MscI	TGGCCA	1 cut(s)	221
MseI	TTAA	1 cut(s)	470
MslI	CAYNNNNRTG	1 cut(s)	215
Msp20I	TGGCCA	1 cut(s)	221
MspA1I	CMGCKG	1 cut(s)	629
MspI	CCGG	4 cut(s)	54, 195, 265, 702
MspR9I	CCNGG	1 cut(s)	266
Mva1269I	GAATGC	1 cut(s)	20
MvnI	CGCG	2 cut(s)	150, 407
MwoI	GCNNNNNNNGC	7 cut(s)	15, 75, 335, 413, 557, 569, 583
NciI	CCSGG	1 cut(s)	266
NdeII	GATC	1 cut(s)	295
NlaIII	CATG	3 cut(s)	220, 368, 755
NlaIV	GGNNCC	2 cut(s)	415, 608
NruI	TCGCGA	2 cut(s)	150, 407
NsiI	ATGCAT	1 cut(s)	331
PaeR7I	CTCGAG	1 cut(s)	89
PceI	AGGCCT	1 cut(s)	676
PcsI	WCGNNNNNNNCGW	1 cut(s)	114
PctI	GAATGC	1 cut(s)	20
PfeI	GAWTC	1 cut(s)	519
PflFI	GACNNNGTC	1 cut(s)	62
PflMI	CCANNNNNTGG	1 cut(s)	120
PkrI	GCNGC	8 cut(s)	20, 80, 175, 178, 340, 562, 625, 628
PleI	GAGTC	2 cut(s)	100, 280
PpsI	GAGTC	2 cut(s)	100, 280
PshAI	GACNNNNGTC	1 cut(s)	744
PspFI	CCCAGC	1 cut(s)	500
PspN4I	GGNNCC	2 cut(s)	415, 608
PspXI	VCTCGAGB	1 cut(s)	89
PstI	CTGCAG	1 cut(s)	178
PsyI	GACNNNGTC	1 cut(s)	62
RruI	TCGCGA	2 cut(s)	150, 407
RsaI	GTAC	1 cut(s)	281
RsaNI	GTAC	1 cut(s)	280
RseI	CAYNNNNRTG	1 cut(s)	215
SaqAI	TTAA	1 cut(s)	470
SatI	GCNGC	8 cut(s)	19, 79, 174, 177, 339, 561, 624, 627
Sau3AI	GATC	1 cut(s)	295
SchI	GAGTC	2 cut(s)	101, 280
ScrFI	CCNGG	1 cut(s)	266
SduI	GDGCHC	3 cut(s)	90, 579, 611
SetI	ASST	6 cut(s)	131, 240, 565, 654, 699, 744
SfaNI	GCATC	1 cut(s)	316
SfcI	CTRYAG	1 cut(s)	174
Sfr274I	CTCGAG	1 cut(s)	89
SgrAI	CRCCGGYG	1 cut(s)	53
SlaI	CTCGAG	1 cut(s)	89
SmiMI	CAYNNNNRTG	1 cut(s)	215
SmlI	CTYRAG	2 cut(s)	89, 386
SmoI	CTYRAG	2 cut(s)	89, 386
Sse9I	AATT	2 cut(s)	590, 727
SseBI	AGGCCT	1 cut(s)	676
SsiI	CCGC	5 cut(s)	19, 78, 201, 624, 629
StuI	AGGCCT	1 cut(s)	676
StyD4I	CCNGG	1 cut(s)	264
TaaI	ACNGT	3 cut(s)	164, 207, 214
TaiI	ACGT	1 cut(s)	699
TaqI	TCGA	4 cut(s)	42, 90, 105, 617
TasI	AATT	2 cut(s)	590, 727
TatI	WGTACW	1 cut(s)	279
TauI	GCSGC	3 cut(s)	21, 81, 626
TfiI	GAWTC	1 cut(s)	519
Tru1I	TTAA	1 cut(s)	470
Tru9I	TTAA	1 cut(s)	470
TscAI	CASTG	1 cut(s)	579
TseI	GCWGC	5 cut(s)	173, 176, 338, 560, 626
TspDTI	ATGAA	2 cut(s)	381, 720
TspGWI	ACGGA	2 cut(s)	246, 391
TspRI	CASTG	1 cut(s)	579
Tth111I	GACNNNGTC	1 cut(s)	62
Van91I	CCANNNNNTGG	1 cut(s)	120
VneI	GTGCAC	1 cut(s)	575
XapI	RAATTY	2 cut(s)	590, 727
XhoI	CTCGAG	1 cut(s)	89
Zsp2I	ATGCAT	1 cut(s)	331

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