Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0000288

Physical Location & Seq

Genomic Coordinates Forward (+)

30076312 .. 30079663

Gene Structure 3352 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG167300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGGCCTTTTTGTTTTCACACAGGGCTCTGCTACTACAGAAAGTGCTTCTCTTCCACGCATTTCCTCAGCAAAAGTATGGCACACCAGAACAGGATGCACTGAGAAGGGATCTAACTATTAACAGCTTATTTTACAATATAAATACCAAATCCATTGAAGATTGGACTAATAGAGGAATCGAAGATCTAAAATGTGGGAAAATTGTTAACTCTTCAAATTCTATTCCTGTTATTTTGGTTCCTGTCGTGAATTATATTTTCAGAGACTCCCTTAAACAAAGAGTTAGTGATGCTGAAACTGTTATTAATTTACACAATGCATTGGAGAAGTTTTTGTCTTTGCTTCCTCACTTTGTACCACATGGGGATGTAAAACTCGTCGAAGTTGATTTGGGAAGAGAATATGTGGATGTCCCTCTTACATCGAAAGAATCAAAACTCCGTGTGTTAACAGGATTTCTTTTACGAGAAATTAAAGATTTTTGGCAAGTTGCTTTGCTGATGTCTACACTTTTATATCCCACCGACGTATCAAACAAGAATTTCAAACCAGAAGATCGCAGAGCTTTGTTTGTAGAAGCTGAAAGGGCCATAAGTAATCTAGGTCTAGATAAAGTCTGGGATGTAAAGCCATTACTTAATGGAAAGGAGATCATGGATGCTTTGCAGCTTAAATCTGGAGGACCACTTGTCAGTAAATGGCAAAGGAAGCTACTTGCATGGCAGCTTGCTCATCCTTTGGGGACTGCAGAGGAATGCCGCGAGTGGCTGAAGGAAACACACTCTTCAAGTACTAGATCTGGTGGAGATATGGAGGAATTGAATGGACCCAACAACAAGAAAAGTAAAACTGAAGATTGTAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001680 GO:0003674 GO:0003824 GO:0004652 GO:0004810 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0005759 GO:0006139 GO:0006396 GO:0006399 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0031123 GO:0031974 GO:0034470 GO:0034641 GO:0034660 GO:0042780 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043628 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0052928 GO:0052929 GO:0070013 GO:0070566 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1990817

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PolyA_pol PolyA_pol_RNAbd

Protein Analysis

288

Amino Acids

32.83

Weight (kDa)

7.72

Isoelectric Point (pI)

39.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PolyA_pol	PF01743	26 - 68	1.4e-10	Poly A polymerase head domain

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: OG0000288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22660 AT1G22660 AT1G22660 AT1G22660 AT1G22660
fragaria_vesca	FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440 FvH4_4g33440
malus_domestica	MD05G1045700.v1.1 MD10G1052700.v1.1
prunus_persica	Prupe.6G147900_v2.0.a1 Prupe.6G147900_v2.0.a1
pyrus_communis	pycom05g03810 pycom10g03770
rosa_chinensis	RchiOBHm_Chr3g0457671 RchiOBHm_Chr4g0411681 RchiOBHm_Chr4g0411871 RchiOBHm_Chr4g0412011 RchiOBHm_Chr4g0442691 RchiOBHm_Chr5g0054011 RchiOBHm_Chr7g0192731 RchiOBHm_Chr7g0217301 RchiOBHm_Chr7g0217311
rosa_laevigata	RLG00000002496 RLG00000002497 RLG00000004333 RLG00000005141 RLG00000005991 RLG00000008329 RLG00000008334
rosa_multiflora	Rmu_co8052866.1_g000001 Rmu_sc0000124.1_g000041 Rmu_sc0000711.1_g000018 Rmu_sc0000711.1_g000026 Rmu_sc0000711.1_g000049 Rmu_sc0001260.1_g000024 Rmu_sc0002040.1_g000016 Rmu_sc0003311.1_g000009 Rmu_sc0003541.1_g000049 Rmu_sc0007633.1_g000011 Rmu_sc0007784.1_g000001 Rmu_sc0007843.1_g000002 Rmu_sc0018873.1_g000007 Rmu_sc0037239.1_g000001 Rmu_ssc0000204.1_g000025
rosa_roxburghii	Rroxscaffold_1G00010150 Rroxscaffold_2G00085070 Rroxscaffold_3G00237950 Rroxscaffold_3G00238000 Rroxscaffold_3G00238060 Rroxscaffold_3G00242460 Rroxscaffold_5G00356230 Rroxscaffold_5G00356320 Rroxscaffold_5G00357990 Rroxscaffold_5G00383500
rosa_rugosa	Rorug04G0107400 Rorug04G0107400 Rorug04G0342400.1 Rorug04G0342500.1 Rorug04G0342600.1 Rorug06G0053100 Rorug06G0099700 Rorug07G0004300 Rorug07G0167800 Rorug07G0167900
rosa_samantha	Rh2CG570300 Rh2DG609200 Rh4AG068500 Rh4AG169600 Rh4AG169900 Rh4AG170200 Rh4AG170600 Rh4AG202600 Rh4AG394800 Rh4BG066700 Rh4BG066800 Rh4BG166500 Rh4BG166600 Rh4BG166700 Rh4BG167000 Rh4BG167300 Rh4BG168500 Rh4BG169200 Rh4BG208600 Rh4BG407700 Rh4CG074000 Rh4CG181100 Rh4CG181200 Rh4CG181700 Rh4CG423100 Rh4DG163900 Rh4DG164400 Rh4DG165100 Rh4DG165200 Rh4DG200000 Rh4DG401800 Rh6BG194500 Rh6CG100200 Rh7AG129300 Rh7AG307100 Rh7BG130700 Rh7BG298000 Rh7CG134100 Rh7DG131500 Rh7DG306700
rosa_wichuraiana	Rw0G007750 Rw4G014080 Rw4G014120 Rw4G014180 Rw4G017150 Rw4G034120 Rw7G011060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	506
AccII	CGCG	1 cut(s)	762
AciI	CCGC	1 cut(s)	760
AclWI	GGATC	1 cut(s)	117
AcsI	RAATTY	2 cut(s)	217, 541
AcuI	CTGAAG	1 cut(s)	791
AfaI	GTAC	2 cut(s)	357, 793
AgsI	TTSAA	5 cut(s)	158, 216, 547, 789, 823
AhdI	GACNNNNNGTC	1 cut(s)	689
AluBI	AGCT	6 cut(s)	126, 566, 581, 670, 712, 727
AluI	AGCT	6 cut(s)	126, 566, 581, 670, 712, 727
Alw26I	GTCTC	1 cut(s)	258
AlwI	GGATC	1 cut(s)	117
AoxI	GGCC	2 cut(s)	3, 588
ApeKI	GCWGC	2 cut(s)	667, 724
ApoI	RAATTY	2 cut(s)	217, 541
AseI	ATTAAT	1 cut(s)	306
AspS9I	GGNCC	3 cut(s)	588, 683, 827
AvaII	GGWCC	2 cut(s)	683, 827
BaeI	ACNNNNGTAYC	2 cut(s)	513, 546
BanII	GRGCYC	1 cut(s)	28
BbvCI	CCTCAGC	1 cut(s)	66
BbvI	GCAGC	2 cut(s)	679, 736
BcoDI	GTCTC	1 cut(s)	258
BfaI	CTAG	3 cut(s)	602, 608, 795
BfmI	CTRYAG	2 cut(s)	35, 747
BglII	AGATCT	2 cut(s)	184, 797
BisI	GCNGC	3 cut(s)	668, 725, 760
BlsI	GCNGC	3 cut(s)	669, 726, 761
BmcAI	AGTACT	1 cut(s)	793
Bme18I	GGWCC	2 cut(s)	683, 827
BmeRI	GACNNNNNGTC	1 cut(s)	689
BmgT120I	GGNCC	3 cut(s)	588, 683, 827
BmiI	GGNNCC	2 cut(s)	240, 829
BmsI	GCATC	3 cut(s)	85, 280, 649
BpmI	CTGGAG	1 cut(s)	699
Bpu10I	CCTNAGC	1 cut(s)	66
BseGI	GGATG	6 cut(s)	100, 373, 415, 628, 664, 733
BseMII	CTCAG	2 cut(s)	80, 92
BseXI	GCAGC	2 cut(s)	679, 736
Bsh1236I	CGCG	1 cut(s)	762
BshFI	GGCC	2 cut(s)	5, 590
BslFI	GGGAC	2 cut(s)	398, 757
BsmAI	GTCTC	1 cut(s)	258
BsmFI	GGGAC	2 cut(s)	398, 757
BsmI	GAATGC	1 cut(s)	761
BsnI	GGCC	2 cut(s)	5, 590
Bsp1286I	GDGCHC	1 cut(s)	28
Bsp143I	GATC	5 cut(s)	109, 184, 556, 651, 797
BspACI	CCGC	1 cut(s)	760
BspANI	GGCC	2 cut(s)	5, 590
BspCNI	CTCAG	2 cut(s)	79, 93
BspFNI	CGCG	1 cut(s)	762
BspLI	GGNNCC	2 cut(s)	240, 829
BspMAI	CTGCAG	1 cut(s)	751
BspPI	GGATC	1 cut(s)	117
BssMI	GATC	5 cut(s)	109, 184, 556, 651, 797
Bst4CI	ACNGT	1 cut(s)	301
Bst6I	CTCTTC	4 cut(s)	56, 217, 391, 790
BstC8I	GCNNGC	1 cut(s)	729
BstDEI	CTNAG	2 cut(s)	66, 101
BstF5I	GGATG	6 cut(s)	100, 373, 415, 628, 664, 733
BstFNI	CGCG	1 cut(s)	762
BstKTI	GATC	5 cut(s)	112, 187, 559, 654, 800
BstMAI	GTCTC	1 cut(s)	258
BstMBI	GATC	5 cut(s)	109, 184, 556, 651, 797
BstMWI	GCNNNNNNNGC	2 cut(s)	587, 709
BstSFI	CTRYAG	2 cut(s)	35, 747
BstUI	CGCG	1 cut(s)	762
BstV1I	GCAGC	2 cut(s)	679, 736
BstX2I	RGATCY	3 cut(s)	109, 184, 797
BstYI	RGATCY	3 cut(s)	109, 184, 797
BsuRI	GGCC	2 cut(s)	5, 590
BtsCI	GGATG	6 cut(s)	100, 373, 415, 628, 664, 733
BtsIMutI	CAGTG	1 cut(s)	98
Cac8I	GCNNGC	1 cut(s)	729
Cfr13I	GGNCC	3 cut(s)	588, 683, 827
Csp6I	GTAC	2 cut(s)	356, 792
CviAII	CATG	3 cut(s)	362, 655, 720
CviQI	GTAC	2 cut(s)	356, 792
DdeI	CTNAG	2 cut(s)	66, 101
DpnI	GATC	5 cut(s)	111, 186, 558, 653, 799
DpnII	GATC	5 cut(s)	109, 184, 556, 651, 797
DriI	GACNNNNNGTC	1 cut(s)	689
Eam1104I	CTCTTC	4 cut(s)	56, 217, 391, 790
Eam1105I	GACNNNNNGTC	1 cut(s)	689
EarI	CTCTTC	4 cut(s)	56, 217, 391, 790
Eco24I	GRGCYC	1 cut(s)	28
Eco47I	GGWCC	2 cut(s)	683, 827
Eco57I	CTGAAG	1 cut(s)	791
EcoT22I	ATGCAT	1 cut(s)	322
EcoT38I	GRGCYC	1 cut(s)	28
FaeI	CATG	3 cut(s)	365, 658, 723
FaqI	GGGAC	2 cut(s)	398, 757
FatI	CATG	3 cut(s)	361, 654, 719
FblI	GTMKAC	1 cut(s)	506
Fnu4HI	GCNGC	3 cut(s)	668, 725, 760
FokI	GGATG	6 cut(s)	107, 380, 422, 635, 671, 720
FriOI	GRGCYC	1 cut(s)	28
Fsp4HI	GCNGC	3 cut(s)	668, 725, 760
FspBI	CTAG	3 cut(s)	602, 608, 795
GluI	GCNGC	3 cut(s)	668, 725, 760
GsuI	CTGGAG	1 cut(s)	699
HaeIII	GGCC	2 cut(s)	5, 590
Hin1II	CATG	3 cut(s)	365, 658, 723
HincII	GTYRAC	2 cut(s)	208, 450
HindII	GTYRAC	2 cut(s)	208, 450
HinfI	GANTC	3 cut(s)	177, 266, 431
HpaI	GTTAAC	2 cut(s)	208, 450
Hpy166II	GTNNAC	3 cut(s)	208, 450, 507
Hpy188I	TCNGA	1 cut(s)	263
Hpy188III	TCNNGA	3 cut(s)	247, 608, 678
Hpy8I	GTNNAC	3 cut(s)	208, 450, 507
Hpy99I	CGWCG	2 cut(s)	383, 530
HpyAV	CCTTC	2 cut(s)	99, 766
HpyCH4III	ACNGT	1 cut(s)	301
HpyCH4IV	ACGT	1 cut(s)	528
HpyCH4V	TGCA	5 cut(s)	98, 320, 667, 719, 749
HpyF10VI	GCNNNNNNNGC	2 cut(s)	587, 709
HpyF3I	CTNAG	2 cut(s)	66, 101
HpySE526I	ACGT	1 cut(s)	528
Hsp92II	CATG	3 cut(s)	365, 658, 723
KspAI	GTTAAC	2 cut(s)	208, 450
Kzo9I	GATC	5 cut(s)	109, 184, 556, 651, 797
Lsp1109I	GCAGC	2 cut(s)	679, 736
LweI	GCATC	3 cut(s)	85, 280, 649
MaeI	CTAG	3 cut(s)	602, 608, 795
MaeII	ACGT	1 cut(s)	528
MaeIII	GTNAC	1 cut(s)	860
MalI	GATC	5 cut(s)	111, 186, 558, 653, 799
MboI	GATC	5 cut(s)	109, 184, 556, 651, 797
MboII	GAAGA	8 cut(s)	43, 170, 194, 204, 408, 566, 777, 866
MflI	RGATCY	3 cut(s)	109, 184, 797
MhlI	GDGCHC	1 cut(s)	28
MluCI	AATT	7 cut(s)	201, 217, 250, 307, 471, 541, 818
MlyI	GAGTC	1 cut(s)	260
MnlI	CCTC	7 cut(s)	75, 167, 357, 426, 674, 745, 808
Mph1103I	ATGCAT	1 cut(s)	322
MseI	TTAA	8 cut(s)	120, 207, 273, 306, 449, 474, 639, 672
MslI	CAYNNNNRTG	1 cut(s)	366
Mva1269I	GAATGC	1 cut(s)	761
MvnI	CGCG	1 cut(s)	762
MwoI	GCNNNNNNNGC	2 cut(s)	587, 709
NdeII	GATC	5 cut(s)	109, 184, 556, 651, 797
NlaIII	CATG	3 cut(s)	365, 658, 723
NlaIV	GGNNCC	2 cut(s)	240, 829
NsiI	ATGCAT	1 cut(s)	322
PctI	GAATGC	1 cut(s)	761
PfeI	GAWTC	2 cut(s)	177, 431
PkrI	GCNGC	3 cut(s)	669, 726, 761
PleI	GAGTC	1 cut(s)	260
PpsI	GAGTC	1 cut(s)	260
PshBI	ATTAAT	1 cut(s)	306
PspN4I	GGNNCC	2 cut(s)	240, 829
PspPI	GGNCC	3 cut(s)	588, 683, 827
PstI	CTGCAG	1 cut(s)	751
PsuI	RGATCY	3 cut(s)	109, 184, 797
RsaI	GTAC	2 cut(s)	357, 793
RsaNI	GTAC	2 cut(s)	356, 792
RseI	CAYNNNNRTG	1 cut(s)	366
SaqAI	TTAA	8 cut(s)	120, 207, 273, 306, 449, 474, 639, 672
SatI	GCNGC	3 cut(s)	668, 725, 760
Sau3AI	GATC	5 cut(s)	109, 184, 556, 651, 797
Sau96I	GGNCC	3 cut(s)	588, 683, 827
ScaI	AGTACT	1 cut(s)	793
SchI	GAGTC	1 cut(s)	260
SduI	GDGCHC	1 cut(s)	28
SetI	ASST	8 cut(s)	128, 531, 568, 583, 607, 672, 714, 729
SfaNI	GCATC	3 cut(s)	85, 280, 649
SfcI	CTRYAG	2 cut(s)	35, 747
SinI	GGWCC	2 cut(s)	683, 827
SmiMI	CAYNNNNRTG	1 cut(s)	366
Sse9I	AATT	7 cut(s)	201, 217, 250, 307, 471, 541, 818
SsiI	CCGC	1 cut(s)	760
SspMI	CTAG	3 cut(s)	602, 608, 795
TaaI	ACNGT	1 cut(s)	301
TaiI	ACGT	1 cut(s)	531
TaqI	TCGA	3 cut(s)	180, 381, 425
TasI	AATT	7 cut(s)	201, 217, 250, 307, 471, 541, 818
TatI	WGTACW	1 cut(s)	791
TauI	GCSGC	1 cut(s)	762
TfiI	GAWTC	2 cut(s)	177, 431
Tru1I	TTAA	8 cut(s)	120, 207, 273, 306, 449, 474, 639, 672
Tru9I	TTAA	8 cut(s)	120, 207, 273, 306, 449, 474, 639, 672
TscAI	CASTG	1 cut(s)	105
TseI	GCWGC	2 cut(s)	667, 724
TspGWI	ACGGA	1 cut(s)	431
TspRI	CASTG	1 cut(s)	105
VpaK11BI	GGWCC	2 cut(s)	683, 827
VspI	ATTAAT	1 cut(s)	306
XapI	RAATTY	2 cut(s)	217, 541
XbaI	TCTAGA	1 cut(s)	607
XmiI	GTMKAC	1 cut(s)	506
XspI	CTAG	3 cut(s)	602, 608, 795
ZrmI	AGTACT	1 cut(s)	793
Zsp2I	ATGCAT	1 cut(s)	322

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