Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0005491

Physical Location & Seq

Genomic Coordinates Reverse (-)

60701940 .. 60705945

Gene Structure 4006 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG390700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1272 bp

ATGGCTGGGGAAATAGAAGAACCCTTTTGTTTTAGCTTTCAGCCAAAGTCTATACATTCTGGCTCCATATCATTTGGGAGGTTTGAAAACGAAGGCTTATCTTGGGAAAGGAGGTCTGCTTTCTCACATAACAGATATGTTGAAGAGGTTGAGAAATGCATGAAACCAGGTTCAGTTATTGAGAGGAAAGCTTATTTTGAAGCTCATTTTAAGAAGGGTCTTCCCAGACCAAATTTAGCCGAGTGTTATAGAGGTACATGCTACCAAGTCGGCGAGAATGATGTATCAGAGAGTGATGACGCTTACAGAGAAGAATGTGAACTTGAAAATGAAGGGAGCAGTTATGCTGAATCAGATGACCAAAGGTCGGAGGGTTCTGTGTATCTTGGAGATTTTGAAGTCACAGAATGTGAAAAAGAAGAAGATACTGAACTTCCGTCCTCTGACCCTCAGAGGGCACCTGCATTGAATCATATTGCTATTTTGGTGGATGGTGCTGTTGAAGATGTTAATTTTGAGGAAGCGCATCAACCCGAGAAAGGTTGTGCAAAATCTACTTCGATTGTTGAGGAACTGGAGAGAGATGCAAATGAGAATCATAATGGTGATGCAGTGAATGCTGAGGAGCCGCCTAAGAGTGTTGATATATGTTCAAATACTGAACCAGCTGAGTGTGTTGATAAAACCATTGTGGAAAGTGGGAAAAGTACTTCTTCAAAGTTGAAGGCTGTAAAAGAATCCAAATTTGTAAAGCCTAAGGCCAGCATTTCTCAGGTCCAAAGAAACATTTCTGCTAAGGGATCTGGTATATATCCTATAGAGAATTCCAATACTGGACAAAGAGAGCGTACACGAAGAACGGGTAAAGAAAAGCTCCCATTAAAGACTGCAATGCCAACTAATAAGCATTCTGTTCGCAGAACTCCGAAGTTAGAGGACTCCATGAAGGGAAAATCTTTAAATGAGAGTAAAAGTGTTAAAGAGTCATCACTTAAGAAGCTTGGTGAACTTCAACCTTCTGCATTCAAGCCTGAATCCAGAGGACGCCAAATGACAAACAGGTATAGGTTCCATCAGAATTTTCCCATTGAATGCTATTTGTGTTTCAATTTTGGAACTGTTGAATTTTTATCAAGTCAAGTCACTTTTCGTACCTTCTATAGGGTTAGTAACGGAGCCAATTTGACTAAGTCTGATGCAAGATCAAGTGTTACAACTTTCAAATTCAAAAGTTCTGAGCGAGCAGAAAAGAGGAAAGAGGCAAGGCACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TPX2

Protein Analysis

423

Amino Acids

47.64

Weight (kDa)

5.99

Isoelectric Point (pI)

49.02

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0005491)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G70950
fragaria_vesca	FvH4_4g32430
malus_domestica	MD16G1028200.v1.1 MD16G1028300.v1.1
prunus_persica	Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1 Prupe.1G324700_v2.0.a1
pyrus_communis	pycom13g02400 pycom16g02410
rosa_chinensis	RchiOBHm_Chr4g0441291
rosa_laevigata	RLG00000006105
rosa_multiflora	Rmu_sc0012909.1_g000007
rosa_roxburghii	Rroxscaffold_5G00382170
rosa_rugosa	Rorug04G0331900 Rorug04G0332000 Rorug04G0332100 Rorug04G0332100 Rorug04G0332200 Rorug04G0332300
rosa_samantha	Rh4AG384000 Rh4BG398000 Rh4CG413200 Rh4DG390700
rosa_wichuraiana	Rw4G033130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	469
Acc36I	ACCTGC	1 cut(s)	469
AccB1I	GGYRCC	1 cut(s)	457
AciI	CCGC	1 cut(s)	629
AclWI	GGATC	1 cut(s)	808
AcsI	RAATTY	6 cut(s)	232, 743, 823, 1078, 1124, 1223
AcyI	GRCGYC	1 cut(s)	1045
AfaI	GTAC	4 cut(s)	256, 709, 850, 1153
AfiI	CCNNNNNNNGG	4 cut(s)	367, 454, 539, 1161
AflII	CTTAAG	1 cut(s)	992
AhdI	GACNNNNNGTC	1 cut(s)	364
AjnI	CCWGG	1 cut(s)	166
AluBI	AGCT	6 cut(s)	36, 191, 203, 668, 874, 1000
AluI	AGCT	6 cut(s)	36, 191, 203, 668, 874, 1000
AlwI	GGATC	1 cut(s)	808
Ama87I	CYCGRG	1 cut(s)	533
AoxI	GGCC	1 cut(s)	759
ApoI	RAATTY	6 cut(s)	232, 743, 823, 1078, 1124, 1223
Asp700I	GAANNNNTTC	1 cut(s)	787
AspLEI	GCGC	1 cut(s)	526
AspS9I	GGNCC	1 cut(s)	775
AsuHPI	GGTGA	2 cut(s)	617, 1016
AvaI	CYCGRG	1 cut(s)	533
AvaII	GGWCC	1 cut(s)	775
AxyI	CCTNAGG	1 cut(s)	756
BaeGI	GKGCMC	1 cut(s)	460
BanI	GGYRCC	1 cut(s)	457
BbsI	GAAGAC	1 cut(s)	212
BbvCI	CCTCAGC	1 cut(s)	621
BccI	CCATC	2 cut(s)	485, 1080
BcgI	CGANNNNNNTGC	2 cut(s)	896, 930
BciT130I	CCWGG	1 cut(s)	168
BfmI	CTRYAG	2 cut(s)	816, 1159
BfrI	CTTAAG	1 cut(s)	992
BfuAI	ACCTGC	1 cut(s)	469
BisI	GCNGC	1 cut(s)	629
BlsI	GCNGC	1 cut(s)	630
BmcAI	AGTACT	1 cut(s)	709
Bme1390I	CCNGG	1 cut(s)	168
Bme18I	GGWCC	1 cut(s)	775
BmeRI	GACNNNNNGTC	1 cut(s)	364
BmeT110I	CYCGRG	1 cut(s)	533
BmgT120I	GGNCC	1 cut(s)	775
BmiI	GGNNCC	5 cut(s)	64, 459, 627, 1070, 1177
BmrFI	CCNGG	1 cut(s)	168
BmsI	GCATC	4 cut(s)	535, 574, 598, 1186
BpiI	GAAGAC	1 cut(s)	212
BpmI	CTGGAG	1 cut(s)	596
Bpu10I	CCTNAGC	2 cut(s)	621, 795
BsaHI	GRCGYC	1 cut(s)	1045
Bsc4I	CCNNNNNNNGG	4 cut(s)	367, 454, 539, 1161
Bse1I	ACTGG	2 cut(s)	579, 838
Bse21I	CCTNAGG	1 cut(s)	756
Bse3DI	GCAATG	1 cut(s)	897
BseBI	CCWGG	1 cut(s)	168
BseGI	GGATG	1 cut(s)	496
BseLI	CCNNNNNNNGG	4 cut(s)	367, 454, 539, 1161
BseMI	GCAATG	1 cut(s)	897
BseMII	CTCAG	5 cut(s)	464, 612, 660, 785, 1227
BseNI	ACTGG	2 cut(s)	579, 838
BseRI	GAGGAG	1 cut(s)	638
BseSI	GKGCMC	1 cut(s)	460
BseYI	CCCAGC	1 cut(s)	5
BshFI	GGCC	1 cut(s)	761
BshNI	GGYRCC	1 cut(s)	457
BsiHKCI	CYCGRG	1 cut(s)	533
BslI	CCNNNNNNNGG	4 cut(s)	367, 454, 539, 1161
BsmI	GAATGC	4 cut(s)	622, 907, 1022, 1097
BsnI	GGCC	1 cut(s)	761
BsoBI	CYCGRG	1 cut(s)	533
Bsp1286I	GDGCHC	1 cut(s)	460
Bsp143I	GATC	2 cut(s)	800, 1202
BspACI	CCGC	1 cut(s)	629
BspANI	GGCC	1 cut(s)	761
BspCNI	CTCAG	5 cut(s)	463, 613, 661, 784, 1228
BspLI	GGNNCC	5 cut(s)	64, 459, 627, 1070, 1177
BspMI	ACCTGC	1 cut(s)	469
BspPI	GGATC	1 cut(s)	808
BspT107I	GGYRCC	1 cut(s)	457
BspTI	CTTAAG	1 cut(s)	992
BsrDI	GCAATG	1 cut(s)	897
BsrI	ACTGG	2 cut(s)	579, 838
BssMI	GATC	2 cut(s)	800, 1202
BssNI	GRCGYC	1 cut(s)	1045
Bst2UI	CCWGG	1 cut(s)	168
Bst4CI	ACNGT	1 cut(s)	1120
Bst6I	CTCTTC	1 cut(s)	138
BstACI	GRCGYC	1 cut(s)	1045
BstAFI	CTTAAG	1 cut(s)	992
BstAPI	GCANNNNNTGC	1 cut(s)	617
BstC8I	GCNNGC	2 cut(s)	763, 1242
BstDEI	CTNAG	9 cut(s)	450, 621, 633, 669, 756, 771, 795, 1188, 1236
BstENI	CCTNNNNNAGG	1 cut(s)	1159
BstF5I	GGATG	1 cut(s)	496
BstHHI	GCGC	1 cut(s)	526
BstKTI	GATC	2 cut(s)	803, 1205
BstMBI	GATC	2 cut(s)	800, 1202
BstMWI	GCNNNNNNNGC	1 cut(s)	617
BstNI	CCWGG	1 cut(s)	168
BstNSI	RCATGY	1 cut(s)	261
BstSCI	CCNGG	1 cut(s)	166
BstSFI	CTRYAG	2 cut(s)	816, 1159
BstSLI	GKGCMC	1 cut(s)	460
BstV2I	GAAGAC	1 cut(s)	212
BstX2I	RGATCY	1 cut(s)	800
BstYI	RGATCY	1 cut(s)	800
Bsu36I	CCTNAGG	1 cut(s)	756
BsuRI	GGCC	1 cut(s)	761
BtsCI	GGATG	1 cut(s)	496
BtsI	GCAGTG	1 cut(s)	618
BtsIMutI	CAGTG	1 cut(s)	618
BveI	ACCTGC	1 cut(s)	469
Cac8I	GCNNGC	2 cut(s)	763, 1242
CfoI	GCGC	1 cut(s)	526
Cfr13I	GGNCC	1 cut(s)	775
CseI	GACGC	2 cut(s)	308, 1053
CsiI	ACCWGGT	1 cut(s)	166
Csp6I	GTAC	4 cut(s)	255, 708, 849, 1152
CviAII	CATG	3 cut(s)	160, 258, 943
CviQI	GTAC	4 cut(s)	255, 708, 849, 1152
DdeI	CTNAG	9 cut(s)	450, 621, 633, 669, 756, 771, 795, 1188, 1236
DpnI	GATC	2 cut(s)	802, 1204
DpnII	GATC	2 cut(s)	800, 1202
DraI	TTTAAA	1 cut(s)	960
DriI	GACNNNNNGTC	1 cut(s)	364
Eam1104I	CTCTTC	1 cut(s)	138
Eam1105I	GACNNNNNGTC	1 cut(s)	364
EarI	CTCTTC	1 cut(s)	138
Eco47I	GGWCC	1 cut(s)	775
Eco81I	CCTNAGG	1 cut(s)	756
Eco88I	CYCGRG	1 cut(s)	533
EcoNI	CCTNNNNNAGG	1 cut(s)	1159
EcoRI	GAATTC	1 cut(s)	823
EcoRII	CCWGG	1 cut(s)	166
EcoT22I	ATGCAT	1 cut(s)	161
FaeI	CATG	3 cut(s)	163, 261, 946
FalI	AAGNNNNNCTT	2 cut(s)	697, 729
FatI	CATG	3 cut(s)	159, 257, 942
Fnu4HI	GCNGC	1 cut(s)	629
FokI	GGATG	1 cut(s)	503
Fsp4HI	GCNGC	1 cut(s)	629
GlaI	GCGC	1 cut(s)	525
GluI	GCNGC	1 cut(s)	629
GsaI	CCCAGC	1 cut(s)	9
GsuI	CTGGAG	1 cut(s)	596
HaeIII	GGCC	1 cut(s)	761
HgaI	GACGC	2 cut(s)	308, 1053
HhaI	GCGC	1 cut(s)	526
Hin1I	GRCGYC	1 cut(s)	1045
Hin1II	CATG	3 cut(s)	163, 261, 946
Hin6I	GCGC	1 cut(s)	524
HinP1I	GCGC	1 cut(s)	524
HindIII	AAGCTT	2 cut(s)	189, 998
HinfI	GANTC	7 cut(s)	350, 469, 595, 737, 938, 983, 1034
HphI	GGTGA	2 cut(s)	617, 1016
Hpy166II	GTNNAC	3 cut(s)	320, 851, 1007
Hpy188I	TCNGA	9 cut(s)	289, 355, 370, 445, 453, 927, 1077, 1195, 1237
Hpy188III	TCNNGA	1 cut(s)	1038
Hpy8I	GTNNAC	3 cut(s)	320, 851, 1007
HpyAV	CCTTC	7 cut(s)	86, 208, 326, 718, 940, 1026, 1165
HpyCH4III	ACNGT	1 cut(s)	1120
HpyCH4V	TGCA	8 cut(s)	159, 464, 548, 587, 611, 890, 1022, 1199
HpyF10VI	GCNNNNNNNGC	1 cut(s)	617
HpyF3I	CTNAG	9 cut(s)	450, 621, 633, 669, 756, 771, 795, 1188, 1236
Hsp92I	GRCGYC	1 cut(s)	1045
Hsp92II	CATG	3 cut(s)	163, 261, 946
HspAI	GCGC	1 cut(s)	524
Kzo9I	GATC	2 cut(s)	800, 1202
LmnI	GCTCC	5 cut(s)	68, 336, 625, 879, 1175
LweI	GCATC	4 cut(s)	535, 574, 598, 1186
MabI	ACCWGGT	1 cut(s)	166
MaeIII	GTNAC	4 cut(s)	400, 1141, 1169, 1210
MalI	GATC	2 cut(s)	802, 1204
MboI	GATC	2 cut(s)	800, 1202
MboII	GAAGA	9 cut(s)	29, 155, 212, 323, 431, 434, 515, 705, 867
MflI	RGATCY	1 cut(s)	800
MhlI	GDGCHC	1 cut(s)	460
MluCI	AATT	9 cut(s)	232, 511, 743, 823, 1078, 1108, 1124, 1180, 1223
MlyI	GAGTC	2 cut(s)	932, 992
MmeI	TCCRAC	1 cut(s)	348
Mph1103I	ATGCAT	1 cut(s)	161
MroXI	GAANNNNTTC	1 cut(s)	787
MseI	TTAA	6 cut(s)	210, 510, 881, 959, 978, 993
MslI	CAYNNNNRTG	1 cut(s)	603
MspA1I	CMGCKG	1 cut(s)	668
MspCI	CTTAAG	1 cut(s)	992
MspR9I	CCNGG	1 cut(s)	168
Mva1269I	GAATGC	4 cut(s)	622, 907, 1022, 1097
MvaI	CCWGG	1 cut(s)	168
MwoI	GCNNNNNNNGC	1 cut(s)	617
NdeII	GATC	2 cut(s)	800, 1202
NlaIII	CATG	3 cut(s)	163, 261, 946
NlaIV	GGNNCC	5 cut(s)	64, 459, 627, 1070, 1177
NmeAIII	GCCGAG	1 cut(s)	265
NmuCI	GTSAC	2 cut(s)	400, 1141
NsiI	ATGCAT	1 cut(s)	161
NspI	RCATGY	1 cut(s)	261
PaqCI	CACCTGC	1 cut(s)	469
PctI	GAATGC	4 cut(s)	622, 907, 1022, 1097
PdmI	GAANNNNTTC	1 cut(s)	787
PfeI	GAWTC	5 cut(s)	350, 469, 595, 737, 1034
PflFI	GACNNNGTC	1 cut(s)	1189
PkrI	GCNGC	1 cut(s)	630
PleI	GAGTC	2 cut(s)	932, 991
PpsI	GAGTC	2 cut(s)	932, 991
Psp6I	CCWGG	1 cut(s)	166
PspFI	CCCAGC	1 cut(s)	5
PspGI	CCWGG	1 cut(s)	166
PspN4I	GGNNCC	5 cut(s)	64, 459, 627, 1070, 1177
PspPI	GGNCC	1 cut(s)	775
PsuI	RGATCY	1 cut(s)	800
PsyI	GACNNNGTC	1 cut(s)	1189
PvuII	CAGCTG	1 cut(s)	668
RsaI	GTAC	4 cut(s)	256, 709, 850, 1153
RsaNI	GTAC	4 cut(s)	255, 708, 849, 1152
RseI	CAYNNNNRTG	1 cut(s)	603
SaqAI	TTAA	6 cut(s)	210, 510, 881, 959, 978, 993
SatI	GCNGC	1 cut(s)	629
Sau3AI	GATC	2 cut(s)	800, 1202
Sau96I	GGNCC	1 cut(s)	775
ScaI	AGTACT	1 cut(s)	709
SchI	GAGTC	2 cut(s)	932, 992
ScrFI	CCNGG	1 cut(s)	168
SduI	GDGCHC	1 cut(s)	460
SexAI	ACCWGGT	1 cut(s)	166
SfaNI	GCATC	4 cut(s)	535, 574, 598, 1186
SfcI	CTRYAG	2 cut(s)	816, 1159
SinI	GGWCC	1 cut(s)	775
SmiMI	CAYNNNNRTG	1 cut(s)	603
SmlI	CTYRAG	1 cut(s)	992
SmoI	CTYRAG	1 cut(s)	992
Sse9I	AATT	9 cut(s)	232, 511, 743, 823, 1078, 1108, 1124, 1180, 1223
SsiI	CCGC	1 cut(s)	629
StyD4I	CCNGG	1 cut(s)	166
TaaI	ACNGT	1 cut(s)	1120
TaqI	TCGA	1 cut(s)	560
TasI	AATT	9 cut(s)	232, 511, 743, 823, 1078, 1108, 1124, 1180, 1223
TatI	WGTACW	1 cut(s)	707
TauI	GCSGC	1 cut(s)	631
TfiI	GAWTC	5 cut(s)	350, 469, 595, 737, 1034
Tru1I	TTAA	6 cut(s)	210, 510, 881, 959, 978, 993
Tru9I	TTAA	6 cut(s)	210, 510, 881, 959, 978, 993
TscAI	CASTG	1 cut(s)	618
TseFI	GTSAC	2 cut(s)	400, 1141
Tsp45I	GTSAC	2 cut(s)	400, 1141
TspDTI	ATGAA	3 cut(s)	176, 345, 959
TspGWI	ACGGA	2 cut(s)	426, 1188
TspRI	CASTG	1 cut(s)	618
Tth111I	GACNNNGTC	1 cut(s)	1189
Vha464I	CTTAAG	1 cut(s)	992
VpaK11BI	GGWCC	1 cut(s)	775
XagI	CCTNNNNNAGG	1 cut(s)	1159
XapI	RAATTY	6 cut(s)	232, 743, 823, 1078, 1124, 1223
XceI	RCATGY	1 cut(s)	261
XmnI	GAANNNNTTC	1 cut(s)	787
ZrmI	AGTACT	1 cut(s)	709
Zsp2I	ATGCAT	1 cut(s)	161

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