Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000288

Physical Location & Seq

Genomic Coordinates Forward (+)

32841799 .. 32887536

Gene Structure 45738 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG165100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 633 bp

ATGGTGATGTCTACGCCAACTGTACATGTGAGAGATACCATTGATCTTGATGAAACTGAAGAGAAGATCTTCGAAAGGCTGCTTGGAACGCTTGACCATTATGGACTTAAGACTGAGCTTCGTGTCGCAGGTGGATGGGTCCGTGATAAGCTTCTGGGAAAAGAGTGCAAGGACATTGACATTGCTTTGGAAGATATGATGGGCAGCAAGTTTGTTGAGAAGGTGAGAGACTACTTGTTGTCTGTGGGGGACGGGGTTCAAGGAATCGCTATCATTCCAAGTAATCCTGATCAATCAAAACATTTGGAAATGGCGAGGATGCGCATCTTAAATGTATGGGTTGATTTTGTGAACTTACGTTGTGAAGAGTACAGCGATGATAGCTGCATTCCCACTATGCAAAAGTATGGCACACCAGAACAGGATGCACTGAGAAGGGATCTAACTATTAACAGCTTATTTTACAATATCAATACCAAATCCATTGAAGATTGGACTAATAGAGGAGTTGAAGATCTAAAATGTGGGAAAATTTGCTACTCCTTTACCACCAAAGGATACATTTATGGAGGATCCGCTACAAGTTCTTCGAGCTATCCGTTTTGGCGCAAGGTTCGGATTCATACTCGATGA

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

210

Amino Acids

24.08

Weight (kDa)

5.64

Isoelectric Point (pI)

36.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PolyA_pol	PF01743	40 - 178	9.6e-30	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)
AarI	CACCTGC	1 cut(s)	119
Acc16I	TGCGCA	1 cut(s)	323
Acc36I	ACCTGC	1 cut(s)	119
AccI	GTMKAC	1 cut(s)	11
AciI	CCGC	1 cut(s)	576
AclWI	GGATC	3 cut(s)	447, 567, 580
AcsI	RAATTY	1 cut(s)	531
AcuI	CTGAAG	1 cut(s)	78
AfaI	GTAC	2 cut(s)	24, 371
AflII	CTTAAG	1 cut(s)	107
AflIII	ACRYGT	1 cut(s)	25
AgsI	TTSAA	3 cut(s)	260, 488, 512
AjuI	GAANNNNNNNTTGG	2 cut(s)	66, 98
AluBI	AGCT	5 cut(s)	118, 151, 384, 456, 594
AluI	AGCT	5 cut(s)	118, 151, 384, 456, 594
Alw26I	GTCTC	1 cut(s)	222
AlwI	GGATC	3 cut(s)	447, 567, 580
ApeKI	GCWGC	3 cut(s)	79, 204, 384
ApoI	RAATTY	1 cut(s)	531
Asp700I	GAANNNNTTC	1 cut(s)	68
AspLEI	GCGC	2 cut(s)	324, 609
AspS9I	GGNCC	1 cut(s)	139
AsuHPI	GGTGA	2 cut(s)	16, 235
AsuII	TTCGAA	1 cut(s)	72
AvaII	GGWCC	1 cut(s)	139
BamHI	GGATCC	1 cut(s)	572
BbvI	GCAGC	3 cut(s)	66, 216, 371
BccI	CCATC	2 cut(s)	129, 193
BciVI	GTATCC	1 cut(s)	551
BclI	TGATCA	1 cut(s)	289
BcoDI	GTCTC	1 cut(s)	222
BfrI	CTTAAG	1 cut(s)	107
BfuAI	ACCTGC	1 cut(s)	119
BfuI	GTATCC	1 cut(s)	551
BglII	AGATCT	2 cut(s)	66, 514
BisI	GCNGC	3 cut(s)	80, 205, 385
BlsI	GCNGC	3 cut(s)	81, 206, 386
Bme18I	GGWCC	1 cut(s)	139
BmgT120I	GGNCC	1 cut(s)	139
BmiI	GGNNCC	2 cut(s)	140, 574
BmsI	GCATC	3 cut(s)	309, 333, 415
Bpu14I	TTCGAA	1 cut(s)	72
BsaBI	GATNNNNATC	1 cut(s)	323
Bse3DI	GCAATG	1 cut(s)	180
Bse8I	GATNNNNATC	1 cut(s)	323
BseGI	GGATG	3 cut(s)	140, 324, 430
BseJI	GATNNNNATC	1 cut(s)	323
BseMI	GCAATG	1 cut(s)	180
BseMII	CTCAG	2 cut(s)	105, 422
BseRI	GAGGAG	1 cut(s)	519
BseXI	GCAGC	3 cut(s)	66, 216, 371
BslFI	GGGAC	1 cut(s)	263
BsmAI	GTCTC	1 cut(s)	222
BsmFI	GGGAC	1 cut(s)	263
BsmI	GAATGC	1 cut(s)	387
Bsp119I	TTCGAA	1 cut(s)	72
Bsp1407I	TGTACA	1 cut(s)	22
Bsp143I	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
BspACI	CCGC	1 cut(s)	576
BspCNI	CTCAG	2 cut(s)	106, 423
BspLI	GGNNCC	2 cut(s)	140, 574
BspMI	ACCTGC	1 cut(s)	119
BspPI	GGATC	3 cut(s)	447, 567, 580
BspT104I	TTCGAA	1 cut(s)	72
BspTI	CTTAAG	1 cut(s)	107
BsrDI	GCAATG	1 cut(s)	180
BsrGI	TGTACA	1 cut(s)	22
BssMI	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
Bst4CI	ACNGT	1 cut(s)	22
Bst6I	CTCTTC	2 cut(s)	54, 360
BstAFI	CTTAAG	1 cut(s)	107
BstAUI	TGTACA	1 cut(s)	22
BstBI	TTCGAA	1 cut(s)	72
BstDEI	CTNAG	2 cut(s)	114, 431
BstF5I	GGATG	3 cut(s)	140, 324, 430
BstHHI	GCGC	2 cut(s)	324, 609
BstKTI	GATC	6 cut(s)	46, 69, 292, 442, 517, 575
BstMAI	GTCTC	1 cut(s)	222
BstMBI	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
BstMWI	GCNNNNNNNGC	2 cut(s)	88, 381
BstNSI	RCATGY	1 cut(s)	29
BstV1I	GCAGC	3 cut(s)	66, 216, 371
BstX2I	RGATCY	4 cut(s)	66, 439, 514, 572
BstYI	RGATCY	4 cut(s)	66, 439, 514, 572
BsuI	GTATCC	1 cut(s)	551
BtgZI	GCGATG	1 cut(s)	390
BtsCI	GGATG	3 cut(s)	140, 324, 430
BtsIMutI	CAGTG	1 cut(s)	428
BveI	ACCTGC	1 cut(s)	119
CfoI	GCGC	2 cut(s)	324, 609
Cfr13I	GGNCC	1 cut(s)	139
Csp6I	GTAC	2 cut(s)	23, 370
CviAII	CATG	1 cut(s)	26
CviJI	RGCY	6 cut(s)	79, 118, 151, 384, 456, 594
CviKI_1	RGCY	6 cut(s)	79, 118, 151, 384, 456, 594
CviQI	GTAC	2 cut(s)	23, 370
DdeI	CTNAG	2 cut(s)	114, 431
DpnI	GATC	6 cut(s)	45, 68, 291, 441, 516, 574
DpnII	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
Eam1104I	CTCTTC	2 cut(s)	54, 360
EarI	CTCTTC	2 cut(s)	54, 360
Eco47I	GGWCC	1 cut(s)	139
Eco57I	CTGAAG	1 cut(s)	78
FaeI	CATG	1 cut(s)	29
FaiI	YATR	8 cut(s)	27, 102, 197, 337, 398, 408, 567, 624
FaqI	GGGAC	1 cut(s)	263
FatI	CATG	1 cut(s)	25
FbaI	TGATCA	1 cut(s)	289
FblI	GTMKAC	1 cut(s)	11
Fnu4HI	GCNGC	3 cut(s)	80, 205, 385
FokI	GGATG	3 cut(s)	147, 331, 437
Fsp4HI	GCNGC	3 cut(s)	80, 205, 385
FspAI	RTGCGCAY	1 cut(s)	323
FspI	TGCGCA	1 cut(s)	323
GlaI	GCGC	2 cut(s)	323, 608
GluI	GCNGC	3 cut(s)	80, 205, 385
HhaI	GCGC	2 cut(s)	324, 609
Hin1II	CATG	1 cut(s)	29
Hin6I	GCGC	2 cut(s)	322, 607
HinP1I	GCGC	2 cut(s)	322, 607
HindIII	AAGCTT	1 cut(s)	149
HinfI	GANTC	2 cut(s)	264, 619
HphI	GGTGA	2 cut(s)	16, 235
Hpy166II	GTNNAC	2 cut(s)	12, 352
Hpy188I	TCNGA	1 cut(s)	618
Hpy188III	TCNNGA	2 cut(s)	47, 287
Hpy8I	GTNNAC	2 cut(s)	12, 352
HpyAV	CCTTC	2 cut(s)	214, 429
HpyCH4III	ACNGT	1 cut(s)	22
HpyCH4IV	ACGT	1 cut(s)	358
HpyCH4V	TGCA	4 cut(s)	168, 387, 400, 428
HpyF10VI	GCNNNNNNNGC	2 cut(s)	88, 381
HpyF3I	CTNAG	2 cut(s)	114, 431
HpySE526I	ACGT	1 cut(s)	358
Hsp92II	CATG	1 cut(s)	29
HspAI	GCGC	2 cut(s)	322, 607
Ksp22I	TGATCA	1 cut(s)	289
Kzo9I	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
LpnPI	CCDG	5 cut(s)	114, 140, 300, 407, 429
Lsp1109I	GCAGC	3 cut(s)	66, 216, 371
LweI	GCATC	3 cut(s)	309, 333, 415
MaeII	ACGT	1 cut(s)	358
MalI	GATC	6 cut(s)	45, 68, 291, 441, 516, 574
MboI	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
MboII	GAAGA	8 cut(s)	61, 71, 76, 203, 377, 500, 524, 579
MflI	RGATCY	4 cut(s)	66, 439, 514, 572
MluCI	AATT	1 cut(s)	531
MnlI	CCTC	3 cut(s)	309, 497, 563
MroXI	GAANNNNTTC	1 cut(s)	68
MseI	TTAA	3 cut(s)	108, 329, 450
MspCI	CTTAAG	1 cut(s)	107
Mva1269I	GAATGC	1 cut(s)	387
MwoI	GCNNNNNNNGC	2 cut(s)	88, 381
NdeII	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
NlaIII	CATG	1 cut(s)	29
NlaIV	GGNNCC	2 cut(s)	140, 574
NsbI	TGCGCA	1 cut(s)	323
NspI	RCATGY	1 cut(s)	29
NspV	TTCGAA	1 cut(s)	72
PaqCI	CACCTGC	1 cut(s)	119
PciI	ACATGT	1 cut(s)	25
PcsI	WCGNNNNNNNCGW	1 cut(s)	596
PctI	GAATGC	1 cut(s)	387
PdmI	GAANNNNTTC	1 cut(s)	68
PfeI	GAWTC	2 cut(s)	264, 619
PkrI	GCNGC	3 cut(s)	81, 206, 386
PscI	ACATGT	1 cut(s)	25
PspN4I	GGNNCC	2 cut(s)	140, 574
PspPI	GGNCC	1 cut(s)	139
PsuI	RGATCY	4 cut(s)	66, 439, 514, 572
RsaI	GTAC	2 cut(s)	24, 371
RsaNI	GTAC	2 cut(s)	23, 370
SaqAI	TTAA	3 cut(s)	108, 329, 450
SatI	GCNGC	3 cut(s)	80, 205, 385
Sau3AI	GATC	6 cut(s)	43, 66, 289, 439, 514, 572
Sau96I	GGNCC	1 cut(s)	139
SetI	ASST	9 cut(s)	120, 133, 153, 225, 361, 386, 458, 596, 615
SfaNI	GCATC	3 cut(s)	309, 333, 415
SfuI	TTCGAA	1 cut(s)	72
SinI	GGWCC	1 cut(s)	139
SmlI	CTYRAG	1 cut(s)	107
SmoI	CTYRAG	1 cut(s)	107
Sse9I	AATT	1 cut(s)	531
SsiI	CCGC	1 cut(s)	576
TaaI	ACNGT	1 cut(s)	22
TaiI	ACGT	1 cut(s)	361
TaqI	TCGA	3 cut(s)	72, 590, 628
TasI	AATT	1 cut(s)	531
TatI	WGTACW	2 cut(s)	22, 369
TfiI	GAWTC	2 cut(s)	264, 619
Tru1I	TTAA	3 cut(s)	108, 329, 450
Tru9I	TTAA	3 cut(s)	108, 329, 450
TscAI	CASTG	1 cut(s)	435
TseI	GCWGC	3 cut(s)	79, 204, 384
TspDTI	ATGAA	2 cut(s)	66, 611
TspGWI	ACGGA	2 cut(s)	131, 588
TspRI	CASTG	1 cut(s)	435
Vha464I	CTTAAG	1 cut(s)	107
VpaK11BI	GGWCC	1 cut(s)	139
XapI	RAATTY	1 cut(s)	531
XceI	RCATGY	1 cut(s)	29
XmiI	GTMKAC	1 cut(s)	11
XmnI	GAANNNNTTC	1 cut(s)	68

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