Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0009171

Physical Location & Seq

Genomic Coordinates Forward (+)

16256116 .. 16259067

Gene Structure 2952 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG159200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGAAGCAGCAATCCAAGGACCCATTCGAAGCCGCGTTCGAGGAGCAAGACGACTCGCCGCCGGATTCTCCGGCCGCCGTCGACGCCATACGCGCCGCCCTCGACGAAGACTACGACGAGGGTCTCCCCCCTGAAGACCCACCATCCTCCTCCACACCATCAACCGCCGCAGTAGCAACTACCACCACAACCACCGTAGCCACTGTAACTCCCGCAACCAAAACCCTAACTAAGAAAAGCTCAGCAAAGCCAACTCCTGCCTCCTCGGCTCGGGCCACGAAGCAGAGCCAGCAGAACAAAGAGGAGGATGATGATGAAGACGAAGACAACGTCGATGTGGAGCTCGGGAAGTATCCGGCGACAGGCGACCCTGTGAAAATGGCGAAGATGCAGGCCATTTTATCACGATTCTCGGAGGAGCAGATGAGTAGATATGAGTCTTTTCGGAGAGCTGGGTTTCAGAAATCCAACATGAAAAGGTTGCTAGCAAGCATCAGTGGGACCCCGAAAATATCGGTGCCAATGACTATTGTAGTGTCAGGGATAGCAAAGATGTTTGTTGGTGAACTTGTTGAAACAGCCAGAATGGTTATGTCAGAGAGGAGAGAATCTGGGCCAATTCGACCATGCCACATTAGAGAATCCTATCGAAGATTAAAGCTGGAAGGCAAAGTCCCCAAGAGATCAGTCTCAAGGCTCTTCCGGTAG

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

235

Amino Acids

25.82

Weight (kDa)

6.05

Isoelectric Point (pI)

74.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TAFII28	PF04719	133 - 218	2.7e-32	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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Align Labels (Cladogram)

Image

Tree File

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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)	517
AccI	GTMKAC	1 cut(s)	81
AccII	CGCG	2 cut(s)	35, 93
AciI	CCGC	7 cut(s)	33, 59, 75, 96, 165, 168, 213
AcoI	YGGCCR	1 cut(s)	72
AcuI	CTGAAG	1 cut(s)	153
AcyI	GRCGYC	1 cut(s)	84
AfiI	CCNNNNNNNGG	2 cut(s)	270, 362
AgsI	TTSAA	1 cut(s)	575
AjuI	GAANNNNNNNTTGG	2 cut(s)	8, 40
AluBI	AGCT	4 cut(s)	240, 343, 452, 661
AluI	AGCT	4 cut(s)	240, 343, 452, 661
Alw21I	GWGCWC	1 cut(s)	345
Alw26I	GTCTC	2 cut(s)	128, 694
Ama87I	CYCGRG	2 cut(s)	270, 344
AoxI	GGCC	4 cut(s)	72, 273, 393, 614
ApeKI	GCWGC	1 cut(s)	7
ArsI	GACNNNNNNTTYG	2 cut(s)	315, 347
AspLEI	GCGC	1 cut(s)	95
AspS9I	GGNCC	4 cut(s)	19, 273, 501, 614
AsuHPI	GGTGA	1 cut(s)	575
AsuII	TTCGAA	1 cut(s)	27
AsuNHI	GCTAGC	1 cut(s)	484
AvaI	CYCGRG	2 cut(s)	270, 344
AvaII	GGWCC	2 cut(s)	19, 501
BanI	GGYRCC	1 cut(s)	517
BanII	GRGCYC	1 cut(s)	345
BbsI	GAAGAC	4 cut(s)	114, 141, 324, 330
Bbv12I	GWGCWC	1 cut(s)	345
BbvI	GCAGC	1 cut(s)	19
BccI	CCATC	2 cut(s)	151, 166
BceAI	ACGGC	1 cut(s)	62
BciVI	GTATCC	1 cut(s)	363
BcoDI	GTCTC	2 cut(s)	128, 694
BfaI	CTAG	1 cut(s)	485
BfuI	GTATCC	1 cut(s)	363
BglI	GCCNNNNNGGC	1 cut(s)	266
BisI	GCNGC	6 cut(s)	8, 33, 59, 75, 96, 168
BlpI	GCTNAGC	1 cut(s)	241
BlsI	GCNGC	6 cut(s)	9, 34, 60, 76, 97, 169
Bme18I	GGWCC	2 cut(s)	19, 501
BmeT110I	CYCGRG	2 cut(s)	270, 344
BmgT120I	GGNCC	4 cut(s)	19, 273, 501, 614
BmiI	GGNNCC	4 cut(s)	21, 502, 503, 519
BmsI	GCATC	2 cut(s)	378, 501
BmtI	GCTAGC	1 cut(s)	488
BoxI	GACNNNNGTC	1 cut(s)	120
BpiI	GAAGAC	4 cut(s)	114, 141, 324, 330
Bpu1102I	GCTNAGC	1 cut(s)	241
Bpu14I	TTCGAA	1 cut(s)	27
BpuEI	CTTGAG	1 cut(s)	676
BsaHI	GRCGYC	1 cut(s)	84
BsaI	GGTCTC	1 cut(s)	128
BsaJI	CCNNGG	2 cut(s)	15, 264
BsaWI	WCCGGW	1 cut(s)	702
BsaXI	ACNNNNNCTCC	2 cut(s)	193, 223
Bsc4I	CCNNNNNNNGG	2 cut(s)	270, 362
BseDI	CCNNGG	2 cut(s)	15, 264
BseGI	GGATG	2 cut(s)	143, 313
BseLI	CCNNNNNNNGG	2 cut(s)	270, 362
BseMII	CTCAG	1 cut(s)	255
BseRI	GAGGAG	6 cut(s)	56, 139, 253, 317, 431, 616
BseX3I	CGGCCG	1 cut(s)	72
BseXI	GCAGC	1 cut(s)	19
BseYI	CCCAGC	1 cut(s)	452
Bsh1236I	CGCG	2 cut(s)	35, 93
Bsh1285I	CGRYCG	1 cut(s)	75
BshFI	GGCC	4 cut(s)	74, 275, 395, 616
BshNI	GGYRCC	1 cut(s)	517
BsiEI	CGRYCG	1 cut(s)	75
BsiHKAI	GWGCWC	1 cut(s)	345
BsiHKCI	CYCGRG	2 cut(s)	270, 344
BsiSI	CCGG	4 cut(s)	62, 71, 356, 703
BslFI	GGGAC	2 cut(s)	514, 659
BslI	CCNNNNNNNGG	2 cut(s)	270, 362
BsmAI	GTCTC	2 cut(s)	128, 694
BsmFI	GGGAC	2 cut(s)	514, 659
BsnI	GGCC	4 cut(s)	74, 275, 395, 616
Bso31I	GGTCTC	1 cut(s)	128
BsoBI	CYCGRG	2 cut(s)	270, 344
Bsp119I	TTCGAA	1 cut(s)	27
Bsp1286I	GDGCHC	1 cut(s)	345
Bsp143I	GATC	1 cut(s)	683
Bsp1720I	GCTNAGC	1 cut(s)	241
BspACI	CCGC	7 cut(s)	33, 59, 75, 96, 165, 168, 213
BspANI	GGCC	4 cut(s)	74, 275, 395, 616
BspCNI	CTCAG	1 cut(s)	254
BspFNI	CGCG	2 cut(s)	35, 93
BspLI	GGNNCC	4 cut(s)	21, 502, 503, 519
BspOI	GCTAGC	1 cut(s)	488
BspQI	GCTCTTC	1 cut(s)	704
BspT104I	TTCGAA	1 cut(s)	27
BspT107I	GGYRCC	1 cut(s)	517
BspTNI	GGTCTC	1 cut(s)	128
BssECI	CCNNGG	2 cut(s)	15, 264
BssMI	GATC	1 cut(s)	683
BssNI	GRCGYC	1 cut(s)	84
BssT1I	CCWWGG	1 cut(s)	15
Bst4CI	ACNGT	2 cut(s)	196, 205
Bst6I	CTCTTC	1 cut(s)	704
BstACI	GRCGYC	1 cut(s)	84
BstBI	TTCGAA	1 cut(s)	27
BstC8I	GCNNGC	4 cut(s)	290, 393, 486, 490
BstDEI	CTNAG	2 cut(s)	231, 241
BstF5I	GGATG	2 cut(s)	143, 313
BstFNI	CGCG	2 cut(s)	35, 93
BstHHI	GCGC	1 cut(s)	95
BstKTI	GATC	1 cut(s)	686
BstMAI	GTCTC	2 cut(s)	128, 694
BstMBI	GATC	1 cut(s)	683
BstMCI	CGRYCG	1 cut(s)	75
BstMWI	GCNNNNNNNGC	5 cut(s)	83, 92, 173, 266, 289
BstPAI	GACNNNNGTC	1 cut(s)	120
BstUI	CGCG	2 cut(s)	35, 93
BstV1I	GCAGC	1 cut(s)	19
BstV2I	GAAGAC	4 cut(s)	114, 141, 324, 330
BstZI	CGGCCG	1 cut(s)	72
BsuI	GTATCC	1 cut(s)	363
BsuRI	GGCC	4 cut(s)	74, 275, 395, 616
BtsCI	GGATG	2 cut(s)	143, 313
BtsIMutI	CAGTG	2 cut(s)	201, 502
Cac8I	GCNNGC	4 cut(s)	290, 393, 486, 490
CfoI	GCGC	1 cut(s)	95
Cfr13I	GGNCC	4 cut(s)	19, 273, 501, 614
CseI	GACGC	1 cut(s)	92
CviAII	CATG	2 cut(s)	472, 627
DdeI	CTNAG	2 cut(s)	231, 241
DpnI	GATC	1 cut(s)	685
DpnII	GATC	1 cut(s)	683
EaeI	YGGCCR	1 cut(s)	72
EagI	CGGCCG	1 cut(s)	72
Eam1104I	CTCTTC	1 cut(s)	704
EarI	CTCTTC	1 cut(s)	704
Ecl136II	GAGCTC	1 cut(s)	343
EclXI	CGGCCG	1 cut(s)	72
Eco130I	CCWWGG	1 cut(s)	15
Eco24I	GRGCYC	1 cut(s)	345
Eco31I	GGTCTC	1 cut(s)	128
Eco47I	GGWCC	2 cut(s)	19, 501
Eco52I	CGGCCG	1 cut(s)	72
Eco53kI	GAGCTC	1 cut(s)	343
Eco57I	CTGAAG	1 cut(s)	153
Eco88I	CYCGRG	2 cut(s)	270, 344
EcoICRI	GAGCTC	1 cut(s)	343
EcoO109I	RGGNCCY	2 cut(s)	19, 501
EcoT14I	CCWWGG	1 cut(s)	15
EcoT38I	GRGCYC	1 cut(s)	345
ErhI	CCWWGG	1 cut(s)	15
FaeI	CATG	2 cut(s)	475, 630
FaiI	YATR	5 cut(s)	89, 435, 473, 593, 628
FaqI	GGGAC	2 cut(s)	514, 659
FatI	CATG	2 cut(s)	471, 626
FauI	CCCGC	1 cut(s)	220
FblI	GTMKAC	1 cut(s)	81
Fnu4HI	GCNGC	6 cut(s)	8, 33, 59, 75, 96, 168
FokI	GGATG	2 cut(s)	130, 320
FriOI	GRGCYC	1 cut(s)	345
Fsp4HI	GCNGC	6 cut(s)	8, 33, 59, 75, 96, 168
FspBI	CTAG	1 cut(s)	485
GlaI	GCGC	1 cut(s)	94
GluI	GCNGC	6 cut(s)	8, 33, 59, 75, 96, 168
GsaI	CCCAGC	1 cut(s)	456
HaeIII	GGCC	4 cut(s)	74, 275, 395, 616
HapII	CCGG	4 cut(s)	62, 71, 356, 703
HgaI	GACGC	1 cut(s)	92
HhaI	GCGC	1 cut(s)	95
Hin1I	GRCGYC	1 cut(s)	84
Hin1II	CATG	2 cut(s)	475, 630
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	6 cut(s)	53, 65, 408, 437, 608, 641
HpaII	CCGG	4 cut(s)	62, 71, 356, 703
HphI	GGTGA	1 cut(s)	575
Hpy166II	GTNNAC	2 cut(s)	82, 566
Hpy188I	TCNGA	4 cut(s)	415, 447, 462, 598
Hpy188III	TCNNGA	2 cut(s)	346, 405
Hpy8I	GTNNAC	2 cut(s)	82, 566
Hpy99I	CGWCG	5 cut(s)	83, 86, 107, 119, 335
HpyAV	CCTTC	1 cut(s)	659
HpyCH4III	ACNGT	2 cut(s)	196, 205
HpyCH4IV	ACGT	1 cut(s)	330
HpyCH4V	TGCA	1 cut(s)	391
HpyF10VI	GCNNNNNNNGC	5 cut(s)	83, 92, 173, 266, 289
HpyF3I	CTNAG	2 cut(s)	231, 241
HpySE526I	ACGT	1 cut(s)	330
Hsp92I	GRCGYC	1 cut(s)	84
Hsp92II	CATG	2 cut(s)	475, 630
HspAI	GCGC	1 cut(s)	93
KflI	GGGWCCC	1 cut(s)	501
Kzo9I	GATC	1 cut(s)	683
LguI	GCTCTTC	1 cut(s)	704
LmnI	GCTCC	3 cut(s)	43, 340, 418
Lsp1109I	GCAGC	1 cut(s)	19
LweI	GCATC	2 cut(s)	378, 501
MaeI	CTAG	1 cut(s)	485
MaeII	ACGT	1 cut(s)	330
MaeIII	GTNAC	1 cut(s)	205
MalI	GATC	1 cut(s)	685
MboI	GATC	1 cut(s)	683
MboII	GAAGA	7 cut(s)	119, 146, 329, 335, 397, 663, 691
MhlI	GDGCHC	1 cut(s)	345
MluCI	AATT	1 cut(s)	618
MlyI	GAGTC	2 cut(s)	47, 446
MmeI	TCCRAC	1 cut(s)	492
MseI	TTAA	1 cut(s)	656
MspI	CCGG	4 cut(s)	62, 71, 356, 703
MvnI	CGCG	2 cut(s)	35, 93
MwoI	GCNNNNNNNGC	5 cut(s)	83, 92, 173, 266, 289
NdeII	GATC	1 cut(s)	683
NheI	GCTAGC	1 cut(s)	484
NlaIII	CATG	2 cut(s)	475, 630
NlaIV	GGNNCC	4 cut(s)	21, 502, 503, 519
NmeAIII	GCCGAG	1 cut(s)	245
NspV	TTCGAA	1 cut(s)	27
PciSI	GCTCTTC	1 cut(s)	704
PcsI	WCGNNNNNNNCGW	2 cut(s)	111, 327
PfeI	GAWTC	4 cut(s)	65, 408, 608, 641
PflFI	GACNNNGTC	1 cut(s)	329
PkrI	GCNGC	6 cut(s)	9, 34, 60, 76, 97, 169
PleI	GAGTC	2 cut(s)	47, 445
PpsI	GAGTC	2 cut(s)	47, 445
PpuMI	RGGWCCY	2 cut(s)	19, 501
PshAI	GACNNNNGTC	1 cut(s)	120
Psp124BI	GAGCTC	1 cut(s)	345
Psp5II	RGGWCCY	2 cut(s)	19, 501
PspFI	CCCAGC	1 cut(s)	452
PspN4I	GGNNCC	4 cut(s)	21, 502, 503, 519
PspPI	GGNCC	4 cut(s)	19, 273, 501, 614
PspPPI	RGGWCCY	2 cut(s)	19, 501
PsyI	GACNNNGTC	1 cut(s)	329
SacI	GAGCTC	1 cut(s)	345
SalI	GTCGAC	1 cut(s)	80
SapI	GCTCTTC	1 cut(s)	704
SaqAI	TTAA	1 cut(s)	656
SatI	GCNGC	6 cut(s)	8, 33, 59, 75, 96, 168
Sau3AI	GATC	1 cut(s)	683
Sau96I	GGNCC	4 cut(s)	19, 273, 501, 614
SchI	GAGTC	2 cut(s)	47, 446
SduI	GDGCHC	1 cut(s)	345
SetI	ASST	6 cut(s)	242, 333, 345, 454, 482, 663
SfaNI	GCATC	2 cut(s)	378, 501
SfuI	TTCGAA	1 cut(s)	27
SgrDI	CGTCGACG	1 cut(s)	80
SinI	GGWCC	2 cut(s)	19, 501
SmlI	CTYRAG	1 cut(s)	691
SmoI	CTYRAG	1 cut(s)	691
Sse9I	AATT	1 cut(s)	618
SsiI	CCGC	7 cut(s)	33, 59, 75, 96, 165, 168, 213
SspMI	CTAG	1 cut(s)	485
SstI	GAGCTC	1 cut(s)	345
StyI	CCWWGG	1 cut(s)	15
TaaI	ACNGT	2 cut(s)	196, 205
TaiI	ACGT	1 cut(s)	333
TaqI	TCGA	7 cut(s)	27, 39, 81, 102, 333, 622, 649
TasI	AATT	1 cut(s)	618
TauI	GCSGC	5 cut(s)	35, 61, 77, 98, 170
TfiI	GAWTC	4 cut(s)	65, 408, 608, 641
Tru1I	TTAA	1 cut(s)	656
Tru9I	TTAA	1 cut(s)	656
TscAI	CASTG	2 cut(s)	208, 502
TseI	GCWGC	1 cut(s)	7
TspDTI	ATGAA	3 cut(s)	17, 330, 488
TspRI	CASTG	2 cut(s)	208, 502
Tth111I	GACNNNGTC	1 cut(s)	329
VpaK11BI	GGWCC	2 cut(s)	19, 501
XmiI	GTMKAC	1 cut(s)	81
XspI	CTAG	1 cut(s)	485

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