Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0005887

Physical Location & Seq

Genomic Coordinates Forward (+)

16984370 .. 16989348

Gene Structure 4979 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G016210.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGCCAGGAATGCAGGGAATGGGGATGATGGGCTCGCTTGGTTCGACTTCTCAAATGCGCCCAGCTGGGATTTCTCCACACCATCCACAGAGACCTGTTCAATCCCCTCTTAGGCCACCATCTACCGCAAGTAATCAGTCCCCTACTTCCCAAAATTTCCAAGGGCATAACCTTTCAAGAGCCTCATCATTGGGATCTCCTAGTTCACCAAATACATCTCAAGTTTTACCGCTTCATAATCAGCCATGGTTATCTGGATCACAAGGGAAGCCTCCTATACCCTCCTCTCCGTATAGGCAGCAGATGACCTCGACATCGATGCTGCAAAGATCACATCTTCCGCAGCCGCAGCAGCAACAACAACAACACCATCCCCTTCCTACGGCTACACAGCAACAGCAGCAAGGACCCATGCCTACAGCTTCACCACAACAGCATATGGCATCTGTGCAGCATCAACAACCTTCCTCCTCACATCAAGGACATGATCATTTTGGGCAACAAACTCAACCATCAAGGATCCCACAAGCTTCACCGCGTCAGCAACAAAATTCAAGGGTCCAGGTCCCAGCAAACCAGAAGTCTTCCCCACTTGCAGCAGCACAACCTAACACAGTCCAATCAGCACCGCAAAATAGAATCACTAGTGCAGAAACTGAGGAACCTGGTAACAGAATTCTTAGCAAAAGAACCATTCATGATCTAGTCAACCAGATTGATCCATCTGAGAGATTGGATCCAGATGTTGAAGACATTCTCATGGACATTGCAGATGAATTTGTAGAATCTATTACAACATTTAGTTGCTCACTAGCCAAGCATCGGAAATCAACTACATTGGAAGCAAAAGACATACTCCTACATCTTGAAAAAAATTGGAATATAACTCTTCCTGGTTTTGGTGGTGATGAAATTAAGGGCTATAGAAAACCGATTACAAATGATATTCACAAGGGGCGTCTTGCTGCTATAAAGAAGTCCATGGTAGCTACTGAGACAGCAAATACGAGGAGTACTGCAGGGCAAGCTACTGGAAATGCAAAGGGTGGTGTAAAGGCGCCTGCTAATATAAGCTCCCAAAATATCAAAATGCGTGAAGTTACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000123 GO:0000124 GO:0000428 GO:0001085 GO:0001102 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005669 GO:0006139 GO:0006325 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006464 GO:0006473 GO:0006475 GO:0006725 GO:0006807 GO:0006996 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016569 GO:0016570 GO:0016573 GO:0016591 GO:0017025 GO:0018130 GO:0018193 GO:0018205 GO:0018393 GO:0018394 GO:0019438 GO:0019538 GO:0022607 GO:0030880 GO:0031248 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0033613 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0043543 GO:0043933 GO:0043966 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0051123 GO:0051276 GO:0055029 GO:0061695 GO:0065003 GO:0065004 GO:0070013 GO:0070461 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090575 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901564 GO:1901576 GO:1902493 GO:1902494 GO:1905368 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko03022 map03022

Pfam Domains

Protein Families

TFIID_20kDa

Protein Analysis

368

Amino Acids

40.0

Weight (kDa)

9.94

Isoelectric Point (pI)

71.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIID_20kDa	PF03847	228 - 295	2.7e-32	Transcription initiation factor TFIID subunit A

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: OG0005887)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10070
fragaria_vesca	FvH4_6g18380 FvH4_6g18380 FvH4_6g18380 FvH4_6g18380 FvH4_6g18380 FvH4_6g18380
malus_domestica	MD12G1023000.v1.1 MD14G1020000.v1.1
prunus_persica	Prupe.7G113600_v2.0.a1
pyrus_communis	pycom12g02150 pycom14g01960
rosa_chinensis	RchiOBHm_Chr3g0472861
rosa_laevigata	RLG00000024050
rosa_multiflora	Rmu_sc0020146.1_g000004
rosa_roxburghii	Rroxscaffold_6G00408550
rosa_rugosa	Rorug03G0128200 Rorug03G0128300 Rorug03G0128400 Rorug03G0128500 Rorug03G0128600 Rorug03G0128700 Rorug03G0128800
rosa_samantha	Rh3AG180900 Rh3BG207100 Rh3CG204300 Rh3DG168800
rosa_wichuraiana	Rw3G016210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	1057
AccII	CGCG	1 cut(s)	538
AciI	CCGC	6 cut(s)	126, 230, 341, 347, 536, 629
AclWI	GGATC	7 cut(s)	202, 265, 514, 527, 713, 731, 744
AcsI	RAATTY	4 cut(s)	154, 550, 675, 776
AcyI	GRCGYC	2 cut(s)	958, 1058
AfaI	GTAC	1 cut(s)	1015
AfiI	CCNNNNNNNGG	4 cut(s)	111, 382, 822, 899
AgsI	TTSAA	5 cut(s)	101, 177, 555, 749, 869
AhlI	ACTAGT	1 cut(s)	644
AjnI	CCWGG	4 cut(s)	4, 561, 664, 892
AluBI	AGCT	6 cut(s)	65, 422, 530, 989, 1028, 1074
AluI	AGCT	6 cut(s)	65, 422, 530, 989, 1028, 1074
Alw26I	GTCTC	2 cut(s)	85, 989
AlwI	GGATC	7 cut(s)	202, 265, 514, 527, 713, 731, 744
AlwNI	CAGNNNCTG	1 cut(s)	656
AoxI	GGCC	1 cut(s)	113
ApoI	RAATTY	4 cut(s)	154, 550, 675, 776
ArsI	GACNNNNNNTTYG	2 cut(s)	566, 598
Asp700I	GAANNNNTTC	1 cut(s)	753
AspLEI	GCGC	2 cut(s)	60, 1060
AspS9I	GGNCC	3 cut(s)	407, 559, 565
AsuHPI	GGTGA	4 cut(s)	198, 417, 525, 917
AvaII	GGWCC	3 cut(s)	407, 559, 565
BamHI	GGATCC	2 cut(s)	519, 736
BanI	GGYRCC	1 cut(s)	1057
BanII	GRGCYC	1 cut(s)	35
BbsI	GAAGAC	2 cut(s)	576, 756
BccI	CCATC	6 cut(s)	22, 90, 127, 378, 520, 730
BceAI	ACGGC	1 cut(s)	399
BcgI	CGANNNNNNTGC	2 cut(s)	301, 335
BciT130I	CCWGG	4 cut(s)	6, 563, 666, 894
BclI	TGATCA	1 cut(s)	487
BcoDI	GTCTC	2 cut(s)	85, 989
BcuI	ACTAGT	1 cut(s)	644
BfaI	CTAG	4 cut(s)	201, 645, 704, 812
BfmI	CTRYAG	3 cut(s)	417, 922, 1017
BfoI	RGCGCY	1 cut(s)	1061
BmcAI	AGTACT	1 cut(s)	1015
Bme1390I	CCNGG	4 cut(s)	6, 563, 666, 894
Bme18I	GGWCC	3 cut(s)	407, 559, 565
BmgT120I	GGNCC	3 cut(s)	407, 559, 565
BmiI	GGNNCC	7 cut(s)	409, 521, 560, 567, 663, 738, 1059
BmrFI	CCNGG	4 cut(s)	6, 563, 666, 894
BmsI	GCATC	4 cut(s)	309, 452, 463, 829
BpiI	GAAGAC	2 cut(s)	576, 756
BpuEI	CTTGAG	1 cut(s)	204
Bsa29I	ATCGAT	1 cut(s)	317
BsaHI	GRCGYC	2 cut(s)	958, 1058
BsaI	GGTCTC	1 cut(s)	85
BsaJI	CCNNGG	3 cut(s)	160, 245, 981
Bsc4I	CCNNNNNNNGG	4 cut(s)	111, 382, 822, 899
Bse1I	ACTGG	1 cut(s)	1036
Bse3DI	GCAATG	1 cut(s)	765
BseBI	CCWGG	4 cut(s)	6, 563, 666, 894
BseCI	ATCGAT	1 cut(s)	317
BseDI	CCNNGG	3 cut(s)	160, 245, 981
BseGI	GGATG	3 cut(s)	30, 82, 370
BseLI	CCNNNNNNNGG	4 cut(s)	111, 382, 822, 899
BseMI	GCAATG	1 cut(s)	765
BseMII	CTCAG	3 cut(s)	648, 717, 984
BseNI	ACTGG	1 cut(s)	1036
BseRI	GAGGAG	3 cut(s)	274, 460, 1024
BseYI	CCCAGC	3 cut(s)	61, 65, 568
BsgI	GTGCAG	2 cut(s)	470, 669
Bsh1236I	CGCG	1 cut(s)	538
BshFI	GGCC	1 cut(s)	115
BshNI	GGYRCC	1 cut(s)	1057
BshVI	ATCGAT	1 cut(s)	317
BslFI	GGGAC	2 cut(s)	124, 551
BslI	CCNNNNNNNGG	4 cut(s)	111, 382, 822, 899
BsmAI	GTCTC	2 cut(s)	85, 989
BsmFI	GGGAC	2 cut(s)	124, 551
BsmI	GAATGC	1 cut(s)	15
BsnI	GGCC	1 cut(s)	115
Bso31I	GGTCTC	1 cut(s)	85
Bsp1286I	GDGCHC	1 cut(s)	35
Bsp143I	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
Bsp19I	CCATGG	2 cut(s)	245, 981
BspACI	CCGC	6 cut(s)	126, 230, 341, 347, 536, 629
BspANI	GGCC	1 cut(s)	115
BspCNI	CTCAG	3 cut(s)	649, 718, 985
BspDI	ATCGAT	1 cut(s)	317
BspFNI	CGCG	1 cut(s)	538
BspHI	TCATGA	1 cut(s)	697
BspLI	GGNNCC	7 cut(s)	409, 521, 560, 567, 663, 738, 1059
BspMAI	CTGCAG	1 cut(s)	1021
BspPI	GGATC	7 cut(s)	202, 265, 514, 527, 713, 731, 744
BspT107I	GGYRCC	1 cut(s)	1057
BspTNI	GGTCTC	1 cut(s)	85
BsrDI	GCAATG	1 cut(s)	765
BsrI	ACTGG	1 cut(s)	1036
BssECI	CCNNGG	3 cut(s)	160, 245, 981
BssMI	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
BssNI	GRCGYC	2 cut(s)	958, 1058
BssT1I	CCWWGG	3 cut(s)	160, 245, 981
Bst2UI	CCWGG	4 cut(s)	6, 563, 666, 894
Bst4CI	ACNGT	1 cut(s)	616
Bst6I	CTCTTC	1 cut(s)	894
BstACI	GRCGYC	2 cut(s)	958, 1058
BstC8I	GCNNGC	3 cut(s)	35, 1026, 1062
BstDEI	CTNAG	5 cut(s)	110, 657, 680, 726, 993
BstDSI	CCRYGG	2 cut(s)	245, 981
BstF5I	GGATG	3 cut(s)	30, 82, 370
BstFNI	CGCG	1 cut(s)	538
BstH2I	RGCGCY	1 cut(s)	1061
BstHHI	GCGC	2 cut(s)	60, 1060
BstKTI	GATC	8 cut(s)	197, 260, 332, 490, 522, 703, 721, 739
BstMAI	GTCTC	2 cut(s)	85, 989
BstMBI	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
BstMWI	GCNNNNNNNGC	5 cut(s)	10, 349, 352, 400, 1025
BstNI	CCWGG	4 cut(s)	6, 563, 666, 894
BstSCI	CCNGG	4 cut(s)	4, 561, 664, 892
BstSFI	CTRYAG	3 cut(s)	417, 922, 1017
BstUI	CGCG	1 cut(s)	538
BstV2I	GAAGAC	2 cut(s)	576, 756
BstX2I	RGATCY	3 cut(s)	194, 519, 736
BstYI	RGATCY	3 cut(s)	194, 519, 736
Bsu15I	ATCGAT	1 cut(s)	317
BsuRI	GGCC	1 cut(s)	115
BsuTUI	ATCGAT	1 cut(s)	317
BtgI	CCRYGG	2 cut(s)	245, 981
BtsCI	GGATG	3 cut(s)	30, 82, 370
Cac8I	GCNNGC	3 cut(s)	35, 1026, 1062
CaiI	CAGNNNCTG	1 cut(s)	656
CciI	TCATGA	1 cut(s)	697
CfoI	GCGC	2 cut(s)	60, 1060
Cfr13I	GGNCC	3 cut(s)	407, 559, 565
ClaI	ATCGAT	1 cut(s)	317
CseI	GACGC	2 cut(s)	527, 947
CsiI	ACCWGGT	1 cut(s)	664
Csp6I	GTAC	1 cut(s)	1014
CviAII	CATG	6 cut(s)	246, 412, 485, 698, 760, 982
CviQI	GTAC	1 cut(s)	1014
DdeI	CTNAG	5 cut(s)	110, 657, 680, 726, 993
DinI	GGCGCC	1 cut(s)	1059
DpnI	GATC	8 cut(s)	196, 259, 331, 489, 521, 702, 720, 738
DpnII	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
Eam1104I	CTCTTC	1 cut(s)	894
EarI	CTCTTC	1 cut(s)	894
Eco130I	CCWWGG	3 cut(s)	160, 245, 981
Eco24I	GRGCYC	1 cut(s)	35
Eco31I	GGTCTC	1 cut(s)	85
Eco47I	GGWCC	3 cut(s)	407, 559, 565
EcoO109I	RGGNCCY	2 cut(s)	407, 565
EcoRI	GAATTC	1 cut(s)	675
EcoRII	CCWGG	4 cut(s)	4, 561, 664, 892
EcoT14I	CCWWGG	3 cut(s)	160, 245, 981
EcoT38I	GRGCYC	1 cut(s)	35
EgeI	GGCGCC	1 cut(s)	1059
EheI	GGCGCC	1 cut(s)	1059
ErhI	CCWWGG	3 cut(s)	160, 245, 981
FaeI	CATG	6 cut(s)	249, 415, 488, 701, 763, 985
FaqI	GGGAC	2 cut(s)	124, 551
FatI	CATG	6 cut(s)	245, 411, 484, 697, 759, 981
FauNDI	CATATG	1 cut(s)	438
FbaI	TGATCA	1 cut(s)	487
FokI	GGATG	3 cut(s)	37, 69, 357
FriOI	GRGCYC	1 cut(s)	35
FspBI	CTAG	4 cut(s)	201, 645, 704, 812
GlaI	GCGC	2 cut(s)	59, 1059
GsaI	CCCAGC	3 cut(s)	65, 69, 572
HaeII	RGCGCY	1 cut(s)	1061
HaeIII	GGCC	1 cut(s)	115
HgaI	GACGC	2 cut(s)	527, 947
HhaI	GCGC	2 cut(s)	60, 1060
Hin1I	GRCGYC	2 cut(s)	958, 1058
Hin1II	CATG	6 cut(s)	249, 415, 488, 701, 763, 985
Hin6I	GCGC	2 cut(s)	58, 1058
HinP1I	GCGC	2 cut(s)	58, 1058
HincII	GTYRAC	1 cut(s)	709
HindII	GTYRAC	1 cut(s)	709
HindIII	AAGCTT	1 cut(s)	528
HinfI	GANTC	2 cut(s)	639, 785
HphI	GGTGA	4 cut(s)	198, 417, 525, 917
Hpy166II	GTNNAC	2 cut(s)	206, 709
Hpy188I	TCNGA	2 cut(s)	727, 825
Hpy188III	TCNNGA	5 cut(s)	177, 255, 698, 740, 866
Hpy8I	GTNNAC	2 cut(s)	206, 709
HpyAV	CCTTC	2 cut(s)	386, 474
HpyCH4III	ACNGT	1 cut(s)	616
HpyCH4V	TGCA	8 cut(s)	13, 325, 451, 596, 650, 770, 1019, 1040
HpyF10VI	GCNNNNNNNGC	5 cut(s)	10, 349, 352, 400, 1025
HpyF3I	CTNAG	5 cut(s)	110, 657, 680, 726, 993
Hsp92I	GRCGYC	2 cut(s)	958, 1058
Hsp92II	CATG	6 cut(s)	249, 415, 488, 701, 763, 985
HspAI	GCGC	2 cut(s)	58, 1058
KasI	GGCGCC	1 cut(s)	1057
Ksp22I	TGATCA	1 cut(s)	487
Kzo9I	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
LmnI	GCTCC	1 cut(s)	1079
LweI	GCATC	4 cut(s)	309, 452, 463, 829
MabI	ACCWGGT	1 cut(s)	664
MaeI	CTAG	4 cut(s)	201, 645, 704, 812
MaeIII	GTNAC	2 cut(s)	668, 1099
MalI	GATC	8 cut(s)	196, 259, 331, 489, 521, 702, 720, 738
MboI	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
MboII	GAAGA	4 cut(s)	329, 576, 761, 881
MflI	RGATCY	3 cut(s)	194, 519, 736
MhlI	GDGCHC	1 cut(s)	35
MluCI	AATT	6 cut(s)	154, 550, 675, 776, 874, 912
Mly113I	GGCGCC	1 cut(s)	1058
MroXI	GAANNNNTTC	1 cut(s)	753
MseI	TTAA	1 cut(s)	915
MslI	CAYNNNNRTG	1 cut(s)	758
MspA1I	CMGCKG	1 cut(s)	65
MspR9I	CCNGG	4 cut(s)	6, 563, 666, 894
Mva1269I	GAATGC	1 cut(s)	15
MvaI	CCWGG	4 cut(s)	6, 563, 666, 894
MvnI	CGCG	1 cut(s)	538
MwoI	GCNNNNNNNGC	5 cut(s)	10, 349, 352, 400, 1025
NarI	GGCGCC	1 cut(s)	1058
NcoI	CCATGG	2 cut(s)	245, 981
NdeI	CATATG	1 cut(s)	438
NdeII	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
NlaIII	CATG	6 cut(s)	249, 415, 488, 701, 763, 985
NlaIV	GGNNCC	7 cut(s)	409, 521, 560, 567, 663, 738, 1059
PagI	TCATGA	1 cut(s)	697
PcsI	WCGNNNNNNNCGW	1 cut(s)	41
PctI	GAATGC	1 cut(s)	15
PdmI	GAANNNNTTC	1 cut(s)	753
PfeI	GAWTC	2 cut(s)	639, 785
PluTI	GGCGCC	1 cut(s)	1061
PpuMI	RGGWCCY	2 cut(s)	407, 565
Psp5II	RGGWCCY	2 cut(s)	407, 565
Psp6I	CCWGG	4 cut(s)	4, 561, 664, 892
PspFI	CCCAGC	3 cut(s)	61, 65, 568
PspGI	CCWGG	4 cut(s)	4, 561, 664, 892
PspN4I	GGNNCC	7 cut(s)	409, 521, 560, 567, 663, 738, 1059
PspPI	GGNCC	3 cut(s)	407, 559, 565
PspPPI	RGGWCCY	2 cut(s)	407, 565
PstI	CTGCAG	1 cut(s)	1021
PstNI	CAGNNNCTG	1 cut(s)	656
PsuI	RGATCY	3 cut(s)	194, 519, 736
PvuII	CAGCTG	1 cut(s)	65
RsaI	GTAC	1 cut(s)	1015
RsaNI	GTAC	1 cut(s)	1014
RseI	CAYNNNNRTG	1 cut(s)	758
SaqAI	TTAA	1 cut(s)	915
Sau3AI	GATC	8 cut(s)	194, 257, 329, 487, 519, 700, 718, 736
Sau96I	GGNCC	3 cut(s)	407, 559, 565
ScaI	AGTACT	1 cut(s)	1015
ScrFI	CCNGG	4 cut(s)	6, 563, 666, 894
SduI	GDGCHC	1 cut(s)	35
SexAI	ACCWGGT	1 cut(s)	664
SfaNI	GCATC	4 cut(s)	309, 452, 463, 829
SfcI	CTRYAG	3 cut(s)	417, 922, 1017
SfoI	GGCGCC	1 cut(s)	1059
SinI	GGWCC	3 cut(s)	407, 559, 565
SmiMI	CAYNNNNRTG	1 cut(s)	758
SmlI	CTYRAG	1 cut(s)	219
SmoI	CTYRAG	1 cut(s)	219
SpeI	ACTAGT	1 cut(s)	644
Sse9I	AATT	6 cut(s)	154, 550, 675, 776, 874, 912
SsiI	CCGC	6 cut(s)	126, 230, 341, 347, 536, 629
SspDI	GGCGCC	1 cut(s)	1057
SspMI	CTAG	4 cut(s)	201, 645, 704, 812
StyD4I	CCNGG	4 cut(s)	4, 561, 664, 892
StyI	CCWWGG	3 cut(s)	160, 245, 981
TaaI	ACNGT	1 cut(s)	616
TaqI	TCGA	3 cut(s)	44, 311, 317
TasI	AATT	6 cut(s)	154, 550, 675, 776, 874, 912
TatI	WGTACW	1 cut(s)	1013
TauI	GCSGC	1 cut(s)	349
TfiI	GAWTC	2 cut(s)	639, 785
Tru1I	TTAA	1 cut(s)	915
Tru9I	TTAA	1 cut(s)	915
TspDTI	ATGAA	4 cut(s)	224, 686, 789, 924
TspGWI	ACGGA	1 cut(s)	279
VpaK11BI	GGWCC	3 cut(s)	407, 559, 565
XapI	RAATTY	4 cut(s)	154, 550, 675, 776
XmnI	GAANNNNTTC	1 cut(s)	753
XspI	CTAG	4 cut(s)	201, 645, 704, 812
ZrmI	AGTACT	1 cut(s)	1015

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