Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0009171

Physical Location & Seq

Genomic Coordinates Reverse (-)

78698080 .. 78700617

Gene Structure 2538 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00056780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGAAGCAGCAATCCAAGGACCCATTCGAAGCCGCGTTCGAGGAGCAAGACGACTCGCCGCCCGATTCTCCGGCCGCCGTCGACGCCATACGCGCCGCCCTCGACGAAGACTATGACGAGGGTCTCCCCCTGAAGACCCACCTTCCTCATCCACACCATCAACCGCCGCAGCAGCAGCAACCACCACCACAACCACCGCGACCCTGTGAAAATGGCGAAGATGCATTGCTAGCAAGCATCAGTGGAACCCCAAAAATATCGGTGCCAATGACTATTGTAGTTTCAGGGATAGCAAAGATGTTTGTTGGTGAACTTGTTGAAACAGCCAGAATGGTTATGTCAGAGAGGAGAGAATCTGGGCCAATTCGACCATGCCACATTAGAGAATCCTATCGAAGATTAAAGCTGGAAGGCAAAGTCCCCAAGAGATCAGTCTCAAGGCTCTTCCGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005669 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:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010556 GO:0010557 GO:0010604 GO:0016043 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 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:0043933 GO:0044085 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:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 map03022

Pfam Domains

Protein Families

TAFII28

Protein Analysis

150

Amino Acids

16.75

Weight (kDa)

6.21

Isoelectric Point (pI)

75.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TAFII28	PF04719	83 - 133	2.9e-17	hTAFII28-like protein conserved region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0009171)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G20000 AT4G20280
fragaria_vesca	FvH4_3g13420 FvH4_3g13420 FvH4_3g13420
malus_domestica	MD10G1223700.v1.1
prunus_persica	Prupe.4G121600_v2.0.a1
pyrus_communis	pycom10g18760
rosa_chinensis	RchiOBHm_Chr5g0022151
rosa_laevigata	RLG00000032648
rosa_multiflora	Rmu_co8448675.1_g000001 Rmu_sc0006966.1_g000013
rosa_roxburghii	Rroxscaffold_1G00056780
rosa_rugosa	Rorug05G0071600 Rorug05G0071700 Rorug05G0071800 Rorug05G0071900
rosa_samantha	Rh5AG159700 Rh5BG159200 Rh5CG173400 Rh5DG159200
rosa_wichuraiana	Rw5G014260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	262
AccI	GTMKAC	1 cut(s)	81
AccII	CGCG	3 cut(s)	35, 93, 199
AciI	CCGC	7 cut(s)	33, 59, 75, 96, 164, 167, 197
AcoI	YGGCCR	1 cut(s)	72
AcuI	CTGAAG	1 cut(s)	152
AcyI	GRCGYC	1 cut(s)	84
AgsI	TTSAA	1 cut(s)	320
AjuI	GAANNNNNNNTTGG	2 cut(s)	8, 40
AluBI	AGCT	1 cut(s)	406
AluI	AGCT	1 cut(s)	406
Alw26I	GTCTC	2 cut(s)	128, 439
AoxI	GGCC	2 cut(s)	72, 359
ApeKI	GCWGC	4 cut(s)	7, 169, 172, 175
AspLEI	GCGC	1 cut(s)	95
AspS9I	GGNCC	2 cut(s)	19, 359
AsuHPI	GGTGA	1 cut(s)	320
AsuII	TTCGAA	1 cut(s)	27
AsuNHI	GCTAGC	1 cut(s)	229
AvaII	GGWCC	1 cut(s)	19
BanI	GGYRCC	1 cut(s)	262
BbsI	GAAGAC	2 cut(s)	114, 140
BbvI	GCAGC	4 cut(s)	19, 181, 184, 187
BccI	CCATC	1 cut(s)	165
BceAI	ACGGC	1 cut(s)	62
BcoDI	GTCTC	2 cut(s)	128, 439
BfaI	CTAG	1 cut(s)	230
BisI	GCNGC	9 cut(s)	8, 33, 59, 75, 96, 167, 170, 173, 176
BlsI	GCNGC	9 cut(s)	9, 34, 60, 76, 97, 168, 171, 174, 177
Bme18I	GGWCC	1 cut(s)	19
BmgT120I	GGNCC	2 cut(s)	19, 359
BmiI	GGNNCC	3 cut(s)	21, 247, 264
BmsI	GCATC	2 cut(s)	211, 246
BmtI	GCTAGC	1 cut(s)	233
BoxI	GACNNNNGTC	1 cut(s)	120
BpiI	GAAGAC	2 cut(s)	114, 140
Bpu14I	TTCGAA	1 cut(s)	27
BpuEI	CTTGAG	1 cut(s)	421
BsaHI	GRCGYC	1 cut(s)	84
BsaI	GGTCTC	1 cut(s)	128
BsaJI	CCNNGG	1 cut(s)	15
BsaWI	WCCGGW	1 cut(s)	447
Bse3DI	GCAATG	1 cut(s)	224
BseDI	CCNNGG	1 cut(s)	15
BseGI	GGATG	1 cut(s)	148
BseMI	GCAATG	1 cut(s)	224
BseRI	GAGGAG	2 cut(s)	56, 361
BseX3I	CGGCCG	1 cut(s)	72
BseXI	GCAGC	4 cut(s)	19, 181, 184, 187
Bsh1236I	CGCG	3 cut(s)	35, 93, 199
Bsh1285I	CGRYCG	1 cut(s)	75
BshFI	GGCC	2 cut(s)	74, 361
BshNI	GGYRCC	1 cut(s)	262
BsiEI	CGRYCG	1 cut(s)	75
BsiSI	CCGG	2 cut(s)	71, 448
BslFI	GGGAC	1 cut(s)	404
BsmAI	GTCTC	2 cut(s)	128, 439
BsmFI	GGGAC	1 cut(s)	404
BsnI	GGCC	2 cut(s)	74, 361
Bso31I	GGTCTC	1 cut(s)	128
Bsp119I	TTCGAA	1 cut(s)	27
Bsp143I	GATC	1 cut(s)	428
BspACI	CCGC	7 cut(s)	33, 59, 75, 96, 164, 167, 197
BspANI	GGCC	2 cut(s)	74, 361
BspFNI	CGCG	3 cut(s)	35, 93, 199
BspLI	GGNNCC	3 cut(s)	21, 247, 264
BspOI	GCTAGC	1 cut(s)	233
BspQI	GCTCTTC	1 cut(s)	449
BspT104I	TTCGAA	1 cut(s)	27
BspT107I	GGYRCC	1 cut(s)	262
BspTNI	GGTCTC	1 cut(s)	128
BsrDI	GCAATG	1 cut(s)	224
BssECI	CCNNGG	1 cut(s)	15
BssMI	GATC	1 cut(s)	428
BssNI	GRCGYC	1 cut(s)	84
BssT1I	CCWWGG	1 cut(s)	15
Bst6I	CTCTTC	1 cut(s)	449
BstACI	GRCGYC	1 cut(s)	84
BstBI	TTCGAA	1 cut(s)	27
BstC8I	GCNNGC	2 cut(s)	231, 235
BstF5I	GGATG	1 cut(s)	148
BstFNI	CGCG	3 cut(s)	35, 93, 199
BstHHI	GCGC	1 cut(s)	95
BstKTI	GATC	1 cut(s)	431
BstMAI	GTCTC	2 cut(s)	128, 439
BstMBI	GATC	1 cut(s)	428
BstMCI	CGRYCG	1 cut(s)	75
BstMWI	GCNNNNNNNGC	5 cut(s)	83, 92, 172, 175, 230
BstPAI	GACNNNNGTC	1 cut(s)	120
BstUI	CGCG	3 cut(s)	35, 93, 199
BstV1I	GCAGC	4 cut(s)	19, 181, 184, 187
BstV2I	GAAGAC	2 cut(s)	114, 140
BstZI	CGGCCG	1 cut(s)	72
BsuRI	GGCC	2 cut(s)	74, 361
BtsCI	GGATG	1 cut(s)	148
BtsIMutI	CAGTG	1 cut(s)	247
Cac8I	GCNNGC	2 cut(s)	231, 235
CfoI	GCGC	1 cut(s)	95
Cfr13I	GGNCC	2 cut(s)	19, 359
CseI	GACGC	1 cut(s)	92
CviAII	CATG	1 cut(s)	372
CviJI	RGCY	6 cut(s)	32, 74, 326, 361, 406, 442
CviKI_1	RGCY	6 cut(s)	32, 74, 326, 361, 406, 442
DpnI	GATC	1 cut(s)	430
DpnII	GATC	1 cut(s)	428
EaeI	YGGCCR	1 cut(s)	72
EagI	CGGCCG	1 cut(s)	72
Eam1104I	CTCTTC	1 cut(s)	449
EarI	CTCTTC	1 cut(s)	449
EclXI	CGGCCG	1 cut(s)	72
Eco130I	CCWWGG	1 cut(s)	15
Eco31I	GGTCTC	1 cut(s)	128
Eco47I	GGWCC	1 cut(s)	19
Eco52I	CGGCCG	1 cut(s)	72
Eco57I	CTGAAG	1 cut(s)	152
EcoO109I	RGGNCCY	1 cut(s)	19
EcoT14I	CCWWGG	1 cut(s)	15
EcoT22I	ATGCAT	1 cut(s)	226
ErhI	CCWWGG	1 cut(s)	15
FaeI	CATG	1 cut(s)	375
FaiI	YATR	4 cut(s)	89, 114, 338, 373
FaqI	GGGAC	1 cut(s)	404
FatI	CATG	1 cut(s)	371
FblI	GTMKAC	1 cut(s)	81
Fnu4HI	GCNGC	9 cut(s)	8, 33, 59, 75, 96, 167, 170, 173, 176
FokI	GGATG	1 cut(s)	135
Fsp4HI	GCNGC	9 cut(s)	8, 33, 59, 75, 96, 167, 170, 173, 176
FspBI	CTAG	1 cut(s)	230
GlaI	GCGC	1 cut(s)	94
GluI	GCNGC	9 cut(s)	8, 33, 59, 75, 96, 167, 170, 173, 176
HaeIII	GGCC	2 cut(s)	74, 361
HapII	CCGG	2 cut(s)	71, 448
HgaI	GACGC	1 cut(s)	92
HhaI	GCGC	1 cut(s)	95
Hin1I	GRCGYC	1 cut(s)	84
Hin1II	CATG	1 cut(s)	375
Hin6I	GCGC	1 cut(s)	93
HinP1I	GCGC	1 cut(s)	93
HincII	GTYRAC	1 cut(s)	82
HindII	GTYRAC	1 cut(s)	82
HinfI	GANTC	4 cut(s)	53, 65, 353, 386
HpaII	CCGG	2 cut(s)	71, 448
HphI	GGTGA	1 cut(s)	320
Hpy166II	GTNNAC	2 cut(s)	82, 311
Hpy188I	TCNGA	1 cut(s)	343
Hpy8I	GTNNAC	2 cut(s)	82, 311
Hpy99I	CGWCG	3 cut(s)	83, 86, 107
HpyAV	CCTTC	2 cut(s)	152, 404
HpyCH4V	TGCA	1 cut(s)	224
HpyF10VI	GCNNNNNNNGC	5 cut(s)	83, 92, 172, 175, 230
Hsp92I	GRCGYC	1 cut(s)	84
Hsp92II	CATG	1 cut(s)	375
HspAI	GCGC	1 cut(s)	93
Kzo9I	GATC	1 cut(s)	428
LguI	GCTCTTC	1 cut(s)	449
LmnI	GCTCC	1 cut(s)	43
LpnPI	CCDG	7 cut(s)	84, 143, 217, 270, 340, 342, 392
Lsp1109I	GCAGC	4 cut(s)	19, 181, 184, 187
LweI	GCATC	2 cut(s)	211, 246
MaeI	CTAG	1 cut(s)	230
MalI	GATC	1 cut(s)	430
MboI	GATC	1 cut(s)	428
MboII	GAAGA	5 cut(s)	119, 145, 230, 408, 436
MluCI	AATT	1 cut(s)	363
MlyI	GAGTC	1 cut(s)	47
MnlI	CCTC	5 cut(s)	34, 110, 112, 156, 339
Mph1103I	ATGCAT	1 cut(s)	226
MseI	TTAA	1 cut(s)	401
MspI	CCGG	2 cut(s)	71, 448
MvnI	CGCG	3 cut(s)	35, 93, 199
MwoI	GCNNNNNNNGC	5 cut(s)	83, 92, 172, 175, 230
NdeII	GATC	1 cut(s)	428
NheI	GCTAGC	1 cut(s)	229
NlaIII	CATG	1 cut(s)	375
NlaIV	GGNNCC	3 cut(s)	21, 247, 264
NsiI	ATGCAT	1 cut(s)	226
NspV	TTCGAA	1 cut(s)	27
PciSI	GCTCTTC	1 cut(s)	449
PfeI	GAWTC	3 cut(s)	65, 353, 386
PkrI	GCNGC	9 cut(s)	9, 34, 60, 76, 97, 168, 171, 174, 177
PleI	GAGTC	1 cut(s)	47
PpsI	GAGTC	1 cut(s)	47
PpuMI	RGGWCCY	1 cut(s)	19
PshAI	GACNNNNGTC	1 cut(s)	120
Psp5II	RGGWCCY	1 cut(s)	19
PspN4I	GGNNCC	3 cut(s)	21, 247, 264
PspPI	GGNCC	2 cut(s)	19, 359
PspPPI	RGGWCCY	1 cut(s)	19
SalI	GTCGAC	1 cut(s)	80
SapI	GCTCTTC	1 cut(s)	449
SaqAI	TTAA	1 cut(s)	401
SatI	GCNGC	9 cut(s)	8, 33, 59, 75, 96, 167, 170, 173, 176
Sau3AI	GATC	1 cut(s)	428
Sau96I	GGNCC	2 cut(s)	19, 359
SchI	GAGTC	1 cut(s)	47
SetI	ASST	2 cut(s)	144, 408
SfaNI	GCATC	2 cut(s)	211, 246
SfuI	TTCGAA	1 cut(s)	27
SgrDI	CGTCGACG	1 cut(s)	80
SinI	GGWCC	1 cut(s)	19
SmlI	CTYRAG	1 cut(s)	436
SmoI	CTYRAG	1 cut(s)	436
Sse9I	AATT	1 cut(s)	363
SsiI	CCGC	7 cut(s)	33, 59, 75, 96, 164, 167, 197
SspMI	CTAG	1 cut(s)	230
StyI	CCWWGG	1 cut(s)	15
TaqI	TCGA	6 cut(s)	27, 39, 81, 102, 367, 394
TasI	AATT	1 cut(s)	363
TauI	GCSGC	5 cut(s)	35, 61, 77, 98, 169
TfiI	GAWTC	3 cut(s)	65, 353, 386
Tru1I	TTAA	1 cut(s)	401
Tru9I	TTAA	1 cut(s)	401
TscAI	CASTG	1 cut(s)	247
TseI	GCWGC	4 cut(s)	7, 169, 172, 175
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	1 cut(s)	247
VpaK11BI	GGWCC	1 cut(s)	19
XmiI	GTMKAC	1 cut(s)	81
XspI	CTAG	1 cut(s)	230
Zsp2I	ATGCAT	1 cut(s)	226

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