Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0005143

Physical Location & Seq

Genomic Coordinates Forward (+)

24083212 .. 24086086

Gene Structure 2875 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00019720.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGGGACTACAAGAAGGATCAGATAGATTCAAGAAACAGCAAGAGCAGTGCCAGTCAACTCGTATCAGCATTGCCTCTAACAATAGGGCCACAGAAACTCCGAAAGCTGTGTCTGCGGCAGCTGGTAGGATTCCTGCTCCATCTGTCAAATTTTCAGATAATACGGAGAGACTCCAACACATTCACAGCATACGGAATGCTCCTGATGGAGCTCAGGTCAAGCGTGTTATAGACCTGCTGCTGAAGACAAGGCAGGCTTTCACGCCGGAGGGAATTTATGAAAATTGTTATGTTGATGTGAACCACAATGAAACTGTCTTTAAGTGTCTGACAGATAACCCAAAAGTTCACTATGATGGGAAATGCTTCTCTTATAAGTCCAAGCATGCCGTGAAGGACAGAAGTCAGGTACTGTCCTTAGTACAGAAATTTCCAGAGGGCATACCTGTGATTGATCTCAAGGATGCATACCCTAGCGCAATGGAGGACTTGCAGGCTCTAAAAGCTGCTGGTGACATCTGGGTTCTCTCAACCTTCAATGCGCAAGAGGATATAGCTTATCCGAATGACCCTAAGTTGCCCCGCATCAAGGTTGATGATGACCTTAAAAAGTGCTTCAGGAAAATAGAATTGCCTAGTAATATGGTTGACATTGAGAAGTATCTCGAGAAGAATGGGATGAAGCCTGCTACAGACTCCGCAAGGAGGAGTGTTATGGTCCAGAGTCTAGTCGGGTCTTCTAATTGCAAGGAGAAGAAGAAGAAGAAGCCTGAGATCAGCAAGAGGACCAAGCTAACCAATGCCCATCTTCCTGAGCTTTTCGAGAACTGGAAAAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000988 GO:0000990 GO:0000991 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005673 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 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:0046483 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05169 ko05203 map03022 map05169 map05203

Pfam Domains

Protein Families

TFIIE_beta

Protein Analysis

279

Amino Acids

31.52

Weight (kDa)

9.2

Isoelectric Point (pI)

42.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFA2_Winged_2	PF18121	132 - 189	9.8e-16	TFA2 Winged helix domain 2

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: OG0005143)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20330
fragaria_vesca	FvH4_3g33500 FvH4_5g01870
malus_domestica	MD06G1076900.v1.1 MD14G1098300.v1.1
prunus_persica	Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1
pyrus_communis	pycom06g07450 pycom14g09650
rosa_chinensis	RchiOBHm_Chr5g0060921 RchiOBHm_Chr7g0198651
rosa_laevigata	RLG00000003851 RLG00000035413
rosa_multiflora	Rmu_sc0000420.1_g000016 Rmu_sc0009374.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019720 Rroxscaffold_3G00257560
rosa_rugosa	Rorug05G0334900 Rorug05G0335000 Rorug07G0048900
rosa_samantha	Rh5AG397900 Rh5BG410500 Rh5CG435700 Rh5DG425100 Rh7AG172500 Rh7BG176000 Rh7CG181900
rosa_wichuraiana	Rw5G037520 Rw7G015140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	375
Acc16I	TGCGCA	1 cut(s)	543
Acc36I	ACCTGC	1 cut(s)	243
AciI	CCGC	3 cut(s)	116, 583, 699
AclWI	GGATC	1 cut(s)	25
AcsI	RAATTY	3 cut(s)	149, 273, 428
AcuI	CTGAAG	2 cut(s)	263, 601
AfaI	GTAC	2 cut(s)	411, 423
AfiI	CCNNNNNNNGG	2 cut(s)	589, 705
AgsI	TTSAA	2 cut(s)	31, 538
AluBI	AGCT	7 cut(s)	107, 122, 212, 506, 557, 793, 817
AluI	AGCT	7 cut(s)	107, 122, 212, 506, 557, 793, 817
Alw21I	GWGCWC	1 cut(s)	214
Alw26I	GTCTC	1 cut(s)	163
AlwI	GGATC	1 cut(s)	25
AlwNI	CAGNNNCTG	1 cut(s)	412
Ama87I	CYCGRG	1 cut(s)	665
AoxI	GGCC	1 cut(s)	87
ApeKI	GCWGC	3 cut(s)	119, 238, 506
ApoI	RAATTY	3 cut(s)	149, 273, 428
ArsI	GACNNNNNNTTYG	2 cut(s)	95, 127
Asp700I	GAANNNNTTC	1 cut(s)	365
AspLEI	GCGC	2 cut(s)	479, 544
AspS9I	GGNCC	3 cut(s)	87, 718, 786
AsuHPI	GGTGA	1 cut(s)	524
AvaI	CYCGRG	1 cut(s)	665
AvaII	GGWCC	2 cut(s)	718, 786
BanII	GRGCYC	1 cut(s)	214
BbsI	GAAGAC	2 cut(s)	251, 729
Bbv12I	GWGCWC	1 cut(s)	214
BbvI	GCAGC	3 cut(s)	131, 225, 493
BccI	CCATC	4 cut(s)	148, 200, 350, 813
BceAI	ACGGC	1 cut(s)	374
BcoDI	GTCTC	1 cut(s)	163
BfaI	CTAG	4 cut(s)	474, 636, 728, 838
BfmI	CTRYAG	1 cut(s)	690
BfuAI	ACCTGC	1 cut(s)	243
BisI	GCNGC	4 cut(s)	117, 120, 239, 507
BlsI	GCNGC	4 cut(s)	118, 121, 240, 508
Bme18I	GGWCC	2 cut(s)	718, 786
BmeT110I	CYCGRG	1 cut(s)	665
BmgT120I	GGNCC	3 cut(s)	87, 718, 786
BmsI	GCATC	2 cut(s)	454, 594
BoxI	GACNNNNGTC	1 cut(s)	402
BpiI	GAAGAC	2 cut(s)	251, 729
Bpu10I	CCTNAGC	2 cut(s)	213, 813
BpuEI	CTTGAG	1 cut(s)	443
BsaXI	ACNNNNNCTCC	4 cut(s)	82, 112, 201, 231
Bsc4I	CCNNNNNNNGG	2 cut(s)	589, 705
Bse1I	ACTGG	2 cut(s)	52, 833
Bse3DI	GCAATG	2 cut(s)	69, 486
BseGI	GGATG	2 cut(s)	469, 684
BseLI	CCNNNNNNNGG	2 cut(s)	589, 705
BseMI	GCAATG	2 cut(s)	69, 486
BseMII	CTCAG	3 cut(s)	227, 762, 804
BseNI	ACTGG	2 cut(s)	52, 833
BseRI	GAGGAG	1 cut(s)	721
BseXI	GCAGC	3 cut(s)	131, 225, 493
BshFI	GGCC	1 cut(s)	89
BsiHKAI	GWGCWC	1 cut(s)	214
BsiHKCI	CYCGRG	1 cut(s)	665
BsiSI	CCGG	1 cut(s)	266
BslFI	GGGAC	1 cut(s)	18
BslI	CCNNNNNNNGG	2 cut(s)	589, 705
BsmAI	GTCTC	1 cut(s)	163
BsmFI	GGGAC	1 cut(s)	18
BsmI	GAATGC	1 cut(s)	202
BsnI	GGCC	1 cut(s)	89
BsoBI	CYCGRG	1 cut(s)	665
Bsp1286I	GDGCHC	1 cut(s)	214
Bsp143I	GATC	3 cut(s)	17, 454, 774
BspACI	CCGC	3 cut(s)	116, 583, 699
BspANI	GGCC	1 cut(s)	89
BspCNI	CTCAG	3 cut(s)	226, 763, 805
BspMI	ACCTGC	1 cut(s)	243
BspPI	GGATC	1 cut(s)	25
BsrDI	GCAATG	2 cut(s)	69, 486
BsrI	ACTGG	2 cut(s)	52, 833
BssMI	GATC	3 cut(s)	17, 454, 774
Bst4CI	ACNGT	2 cut(s)	316, 414
BstC8I	GCNNGC	4 cut(s)	255, 387, 495, 687
BstDEI	CTNAG	5 cut(s)	213, 418, 573, 771, 813
BstF5I	GGATG	2 cut(s)	469, 684
BstHHI	GCGC	2 cut(s)	479, 544
BstKTI	GATC	3 cut(s)	20, 457, 777
BstMAI	GTCTC	1 cut(s)	163
BstMBI	GATC	3 cut(s)	17, 454, 774
BstMWI	GCNNNNNNNGC	2 cut(s)	113, 503
BstNSI	RCATGY	1 cut(s)	389
BstPAI	GACNNNNGTC	1 cut(s)	402
BstSFI	CTRYAG	1 cut(s)	690
BstV1I	GCAGC	3 cut(s)	131, 225, 493
BstV2I	GAAGAC	2 cut(s)	251, 729
BsuRI	GGCC	1 cut(s)	89
BtsCI	GGATG	2 cut(s)	469, 684
BtsI	GCAGTG	1 cut(s)	53
BtsIMutI	CAGTG	1 cut(s)	53
BveI	ACCTGC	1 cut(s)	243
Cac8I	GCNNGC	4 cut(s)	255, 387, 495, 687
CaiI	CAGNNNCTG	1 cut(s)	412
CfoI	GCGC	2 cut(s)	479, 544
Cfr13I	GGNCC	3 cut(s)	87, 718, 786
Csp6I	GTAC	2 cut(s)	410, 422
CviAII	CATG	1 cut(s)	386
CviQI	GTAC	2 cut(s)	410, 422
DdeI	CTNAG	5 cut(s)	213, 418, 573, 771, 813
DpnI	GATC	3 cut(s)	19, 456, 776
DpnII	GATC	3 cut(s)	17, 454, 774
Ecl136II	GAGCTC	1 cut(s)	212
Eco24I	GRGCYC	1 cut(s)	214
Eco47I	GGWCC	2 cut(s)	718, 786
Eco53kI	GAGCTC	1 cut(s)	212
Eco57I	CTGAAG	2 cut(s)	263, 601
Eco88I	CYCGRG	1 cut(s)	665
EcoICRI	GAGCTC	1 cut(s)	212
EcoT22I	ATGCAT	1 cut(s)	469
EcoT38I	GRGCYC	1 cut(s)	214
FaeI	CATG	1 cut(s)	389
FalI	AAGNNNNNCTT	2 cut(s)	241, 273
FaqI	GGGAC	1 cut(s)	18
FatI	CATG	1 cut(s)	385
FauI	CCCGC	1 cut(s)	590
Fnu4HI	GCNGC	4 cut(s)	117, 120, 239, 507
FokI	GGATG	2 cut(s)	476, 691
FriOI	GRGCYC	1 cut(s)	214
Fsp4HI	GCNGC	4 cut(s)	117, 120, 239, 507
FspBI	CTAG	4 cut(s)	474, 636, 728, 838
FspI	TGCGCA	1 cut(s)	543
GlaI	GCGC	2 cut(s)	478, 543
GluI	GCNGC	4 cut(s)	117, 120, 239, 507
HaeIII	GGCC	1 cut(s)	89
HapII	CCGG	1 cut(s)	266
HhaI	GCGC	2 cut(s)	479, 544
Hin1II	CATG	1 cut(s)	389
Hin6I	GCGC	2 cut(s)	477, 542
HinP1I	GCGC	2 cut(s)	477, 542
HincII	GTYRAC	2 cut(s)	57, 649
HindII	GTYRAC	2 cut(s)	57, 649
HinfI	GANTC	5 cut(s)	27, 130, 171, 695, 724
HpaII	CCGG	1 cut(s)	266
HphI	GGTGA	1 cut(s)	524
Hpy166II	GTNNAC	4 cut(s)	57, 301, 349, 649
Hpy188I	TCNGA	5 cut(s)	22, 102, 157, 330, 564
Hpy188III	TCNNGA	9 cut(s)	31, 203, 434, 619, 665, 667, 721, 812, 823
Hpy8I	GTNNAC	4 cut(s)	57, 301, 349, 649
HpyAV	CCTTC	3 cut(s)	8, 388, 544
HpyCH4III	ACNGT	2 cut(s)	316, 414
HpyCH4V	TGCA	3 cut(s)	467, 493, 747
HpyF10VI	GCNNNNNNNGC	2 cut(s)	113, 503
HpyF3I	CTNAG	5 cut(s)	213, 418, 573, 771, 813
Hsp92II	CATG	1 cut(s)	389
HspAI	GCGC	2 cut(s)	477, 542
Kzo9I	GATC	3 cut(s)	17, 454, 774
LmnI	GCTCC	3 cut(s)	142, 205, 209
Lsp1109I	GCAGC	3 cut(s)	131, 225, 493
LweI	GCATC	2 cut(s)	454, 594
MaeI	CTAG	4 cut(s)	474, 636, 728, 838
MaeIII	GTNAC	1 cut(s)	512
MalI	GATC	3 cut(s)	19, 456, 776
MboI	GATC	3 cut(s)	17, 454, 774
MboII	GAAGA	8 cut(s)	256, 682, 729, 766, 769, 772, 775, 800
MhlI	GDGCHC	1 cut(s)	214
MluCI	AATT	6 cut(s)	149, 273, 283, 428, 629, 742
MlyI	GAGTC	3 cut(s)	165, 689, 733
MmeI	TCCRAC	1 cut(s)	199
MnlI	CCTC	7 cut(s)	85, 262, 430, 478, 541, 699, 777
Mph1103I	ATGCAT	1 cut(s)	469
MroXI	GAANNNNTTC	1 cut(s)	365
MseI	TTAA	2 cut(s)	321, 606
MslI	CAYNNNNRTG	2 cut(s)	354, 446
MspA1I	CMGCKG	1 cut(s)	122
MspI	CCGG	1 cut(s)	266
Mva1269I	GAATGC	1 cut(s)	202
MwoI	GCNNNNNNNGC	2 cut(s)	113, 503
NdeII	GATC	3 cut(s)	17, 454, 774
NlaIII	CATG	1 cut(s)	389
NmuCI	GTSAC	1 cut(s)	512
NsbI	TGCGCA	1 cut(s)	543
NsiI	ATGCAT	1 cut(s)	469
NspI	RCATGY	1 cut(s)	389
PaeI	GCATGC	1 cut(s)	389
PaeR7I	CTCGAG	1 cut(s)	665
PctI	GAATGC	1 cut(s)	202
PdmI	GAANNNNTTC	1 cut(s)	365
PfeI	GAWTC	2 cut(s)	27, 130
PkrI	GCNGC	4 cut(s)	118, 121, 240, 508
PleI	GAGTC	3 cut(s)	165, 689, 732
PpsI	GAGTC	3 cut(s)	165, 689, 732
PshAI	GACNNNNGTC	1 cut(s)	402
PsiI	TTATAA	1 cut(s)	375
Psp124BI	GAGCTC	1 cut(s)	214
PspPI	GGNCC	3 cut(s)	87, 718, 786
PstNI	CAGNNNCTG	1 cut(s)	412
PvuII	CAGCTG	1 cut(s)	122
RsaI	GTAC	2 cut(s)	411, 423
RsaNI	GTAC	2 cut(s)	410, 422
RseI	CAYNNNNRTG	2 cut(s)	354, 446
SacI	GAGCTC	1 cut(s)	214
SaqAI	TTAA	2 cut(s)	321, 606
SatI	GCNGC	4 cut(s)	117, 120, 239, 507
Sau3AI	GATC	3 cut(s)	17, 454, 774
Sau96I	GGNCC	3 cut(s)	87, 718, 786
SchI	GAGTC	3 cut(s)	165, 689, 733
SduI	GDGCHC	1 cut(s)	214
SfaNI	GCATC	2 cut(s)	454, 594
SfcI	CTRYAG	1 cut(s)	690
Sfr274I	CTCGAG	1 cut(s)	665
SinI	GGWCC	2 cut(s)	718, 786
SlaI	CTCGAG	1 cut(s)	665
SmiMI	CAYNNNNRTG	2 cut(s)	354, 446
SmlI	CTYRAG	2 cut(s)	458, 665
SmoI	CTYRAG	2 cut(s)	458, 665
SphI	GCATGC	1 cut(s)	389
Sse9I	AATT	6 cut(s)	149, 273, 283, 428, 629, 742
SsiI	CCGC	3 cut(s)	116, 583, 699
SspMI	CTAG	4 cut(s)	474, 636, 728, 838
SstI	GAGCTC	1 cut(s)	214
TaaI	ACNGT	2 cut(s)	316, 414
TaqI	TCGA	2 cut(s)	666, 822
TasI	AATT	6 cut(s)	149, 273, 283, 428, 629, 742
TatI	WGTACW	1 cut(s)	421
TauI	GCSGC	1 cut(s)	119
TfiI	GAWTC	2 cut(s)	27, 130
Tru1I	TTAA	2 cut(s)	321, 606
Tru9I	TTAA	2 cut(s)	321, 606
TscAI	CASTG	1 cut(s)	53
TseFI	GTSAC	1 cut(s)	512
TseI	GCWGC	3 cut(s)	119, 238, 506
Tsp45I	GTSAC	1 cut(s)	512
TspDTI	ATGAA	3 cut(s)	294, 324, 695
TspGWI	ACGGA	2 cut(s)	179, 208
TspRI	CASTG	1 cut(s)	53
VpaK11BI	GGWCC	2 cut(s)	718, 786
XapI	RAATTY	3 cut(s)	149, 273, 428
XceI	RCATGY	1 cut(s)	389
XhoI	CTCGAG	1 cut(s)	665
XmnI	GAANNNNTTC	1 cut(s)	365
XspI	CTAG	4 cut(s)	474, 636, 728, 838
Zsp2I	ATGCAT	1 cut(s)	469

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