Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0000288

Physical Location & Seq

Genomic Coordinates Forward (+)

35293698 .. 35294536

Gene Structure 839 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002496

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGTCTACGCCGACCCTACAAGTGAGGGACATGGTTGAACTCGATGAAACTGAAAGAAAGATCTTCAAAATGTTGCTGGGAACGCTTGACCATTATAAATTGAAGACAGAGCTTCGTGTCGCAGGTGGATGGGTCCGTGATAAGCTTCTGGGAGCAGAATGCAATGACATTGACATTGCTTTGGAAAATATGATGGGGAGCGATTTTGTTAAAAAAGTGGAAAAGTACATGAAGTTCATGGGGGAAGAGATCCGAGGAAGTGCCATTACCAATCAAAACATTTGGAAACGGCGAGGCTGCGCATATTTGATACATGGAGGCATCAAAGATCTGAAGTCCGGGAATATTGCAACTCCTTTGTCACCAAAGGAAACTATTATGGAGGATCCAGTGCGTGGTCTGCAAGCTATTCGTATTGGCACAAGGTATGGATTCACACTAGTTGAACAGCTAAAGGAAGCCGCTGCCAGTGATGAAGTGACGGCAGCTCTTTCAGCTAAAGTTAGCAGACAGCAAATTGGAGCTGAAATTGACCTCATGATATCTGGAGACCAACCTGTCCAAGCTATGACCTTACTGTGTGACTTCAATTGGTTTTGGTATGTGTTCCGTCTTCATCCTCAGTGTGAGCCACCATCAGACAGAGCTTGTGTCACCTACTTGGAGTCTGTGTAA

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

225

Amino Acids

25.28

Weight (kDa)

5.73

Isoelectric Point (pI)

39.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PolyA_pol	PF01743	38 - 89	9.7e-08	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)
AanI	TTATAA	1 cut(s)	96
AarI	CACCTGC	1 cut(s)	113
AasI	GACNNNNNNGTC	1 cut(s)	557
Acc16I	TGCGCA	1 cut(s)	301
Acc36I	ACCTGC	1 cut(s)	113
AccB7I	CCANNNNNTGG	1 cut(s)	395
AccI	GTMKAC	1 cut(s)	5
AciI	CCGC	1 cut(s)	462
AclWI	GGATC	3 cut(s)	244, 380, 393
AcuI	CTGAAG	1 cut(s)	353
AfaI	GTAC	1 cut(s)	227
AfiI	CCNNNNNNNGG	1 cut(s)	395
AgsI	TTSAA	5 cut(s)	38, 67, 103, 446, 589
AhlI	ACTAGT	1 cut(s)	439
AluBI	AGCT	9 cut(s)	112, 145, 407, 451, 488, 497, 524, 566, 647
AluI	AGCT	9 cut(s)	112, 145, 407, 451, 488, 497, 524, 566, 647
Alw26I	GTCTC	1 cut(s)	543
AlwI	GGATC	3 cut(s)	244, 380, 393
ApeKI	GCWGC	3 cut(s)	297, 464, 485
AspLEI	GCGC	1 cut(s)	302
AspS9I	GGNCC	1 cut(s)	133
AsuC2I	CCSGG	1 cut(s)	340
AsuHPI	GGTGA	2 cut(s)	354, 646
AvaII	GGWCC	1 cut(s)	133
BamHI	GGATCC	1 cut(s)	385
BarI	GAAGNNNNNNTAC	2 cut(s)	250, 282
BbsI	GAAGAC	2 cut(s)	110, 605
BbvI	GCAGC	3 cut(s)	284, 451, 497
BccI	CCATC	3 cut(s)	123, 187, 643
BceAI	ACGGC	2 cut(s)	305, 498
BcgI	CGANNNNNNTGC	2 cut(s)	392, 426
BcnI	CCSGG	1 cut(s)	340
BcoDI	GTCTC	1 cut(s)	543
BcuI	ACTAGT	1 cut(s)	439
BfaI	CTAG	1 cut(s)	440
BfuAI	ACCTGC	1 cut(s)	113
BglII	AGATCT	2 cut(s)	60, 328
BisI	GCNGC	4 cut(s)	298, 462, 465, 486
BlsI	GCNGC	4 cut(s)	299, 463, 466, 487
Bme1390I	CCNGG	1 cut(s)	340
Bme18I	GGWCC	1 cut(s)	133
BmgT120I	GGNCC	1 cut(s)	133
BmiI	GGNNCC	2 cut(s)	134, 387
BmrFI	CCNGG	1 cut(s)	340
BmsI	GCATC	1 cut(s)	330
BpiI	GAAGAC	2 cut(s)	110, 605
BpmI	CTGGAG	1 cut(s)	567
BpuMI	CCSGG	1 cut(s)	340
BsaI	GGTCTC	1 cut(s)	543
BsaJI	CCNNGG	1 cut(s)	253
BsaXI	ACNNNNNCTCC	1 cut(s)	656
Bsc4I	CCNNNNNNNGG	1 cut(s)	395
Bse1I	ACTGG	2 cut(s)	389, 468
Bse3DI	GCAATG	2 cut(s)	169, 174
BseDI	CCNNGG	1 cut(s)	253
BseGI	GGATG	2 cut(s)	134, 616
BseLI	CCNNNNNNNGG	1 cut(s)	395
BseMI	GCAATG	2 cut(s)	169, 174
BseMII	CTCAG	1 cut(s)	635
BseNI	ACTGG	2 cut(s)	389, 468
BseXI	GCAGC	3 cut(s)	284, 451, 497
BseYI	CCCAGC	1 cut(s)	76
BsiSI	CCGG	1 cut(s)	339
BslFI	GGGAC	1 cut(s)	41
BslI	CCNNNNNNNGG	1 cut(s)	395
BsmAI	GTCTC	1 cut(s)	543
BsmFI	GGGAC	1 cut(s)	41
BsmI	GAATGC	1 cut(s)	164
Bso31I	GGTCTC	1 cut(s)	543
Bsp143I	GATC	4 cut(s)	60, 249, 328, 385
BspACI	CCGC	1 cut(s)	462
BspCNI	CTCAG	1 cut(s)	634
BspHI	TCATGA	1 cut(s)	537
BspLI	GGNNCC	2 cut(s)	134, 387
BspMI	ACCTGC	1 cut(s)	113
BspPI	GGATC	3 cut(s)	244, 380, 393
BspTNI	GGTCTC	1 cut(s)	543
BsrDI	GCAATG	2 cut(s)	169, 174
BsrI	ACTGG	2 cut(s)	389, 468
BssECI	CCNNGG	1 cut(s)	253
BssMI	GATC	4 cut(s)	60, 249, 328, 385
Bst4CI	ACNGT	1 cut(s)	579
Bst6I	CTCTTC	1 cut(s)	240
BstC8I	GCNNGC	1 cut(s)	405
BstDEI	CTNAG	1 cut(s)	621
BstF5I	GGATG	2 cut(s)	134, 616
BstHHI	GCGC	1 cut(s)	302
BstKTI	GATC	4 cut(s)	63, 252, 331, 388
BstMAI	GTCTC	1 cut(s)	543
BstMBI	GATC	4 cut(s)	60, 249, 328, 385
BstMWI	GCNNNNNNNGC	3 cut(s)	82, 400, 494
BstSCI	CCNGG	1 cut(s)	338
BstV1I	GCAGC	3 cut(s)	284, 451, 497
BstV2I	GAAGAC	2 cut(s)	110, 605
BstX2I	RGATCY	4 cut(s)	60, 249, 328, 385
BstYI	RGATCY	4 cut(s)	60, 249, 328, 385
BtsCI	GGATG	2 cut(s)	134, 616
BtsIMutI	CAGTG	3 cut(s)	396, 475, 629
BveI	ACCTGC	1 cut(s)	113
Cac8I	GCNNGC	1 cut(s)	405
CciI	TCATGA	1 cut(s)	537
CfoI	GCGC	1 cut(s)	302
Cfr13I	GGNCC	1 cut(s)	133
Csp6I	GTAC	1 cut(s)	226
CviAII	CATG	5 cut(s)	31, 229, 238, 314, 538
CviQI	GTAC	1 cut(s)	226
DdeI	CTNAG	1 cut(s)	621
DpnI	GATC	4 cut(s)	62, 251, 330, 387
DpnII	GATC	4 cut(s)	60, 249, 328, 385
DrdI	GACNNNNNNGTC	1 cut(s)	557
DseDI	GACNNNNNNGTC	1 cut(s)	557
Eam1104I	CTCTTC	1 cut(s)	240
EarI	CTCTTC	1 cut(s)	240
Eco31I	GGTCTC	1 cut(s)	543
Eco32I	GATATC	1 cut(s)	543
Eco47I	GGWCC	1 cut(s)	133
Eco57I	CTGAAG	1 cut(s)	353
EcoRV	GATATC	1 cut(s)	543
FaeI	CATG	5 cut(s)	34, 232, 241, 317, 541
FaqI	GGGAC	1 cut(s)	41
FatI	CATG	5 cut(s)	30, 228, 237, 313, 537
FblI	GTMKAC	1 cut(s)	5
Fnu4HI	GCNGC	4 cut(s)	298, 462, 465, 486
FokI	GGATG	2 cut(s)	141, 603
Fsp4HI	GCNGC	4 cut(s)	298, 462, 465, 486
FspBI	CTAG	1 cut(s)	440
FspI	TGCGCA	1 cut(s)	301
GlaI	GCGC	1 cut(s)	301
GluI	GCNGC	4 cut(s)	298, 462, 465, 486
GsaI	CCCAGC	1 cut(s)	80
GsuI	CTGGAG	1 cut(s)	567
HapII	CCGG	1 cut(s)	339
HhaI	GCGC	1 cut(s)	302
Hin1II	CATG	5 cut(s)	34, 232, 241, 317, 541
Hin6I	GCGC	1 cut(s)	300
HinP1I	GCGC	1 cut(s)	300
HindIII	AAGCTT	1 cut(s)	143
HinfI	GANTC	2 cut(s)	432, 665
HpaII	CCGG	1 cut(s)	339
HphI	GGTGA	2 cut(s)	354, 646
Hpy166II	GTNNAC	1 cut(s)	6
Hpy188I	TCNGA	3 cut(s)	254, 333, 640
Hpy188III	TCNNGA	2 cut(s)	538, 546
Hpy8I	GTNNAC	1 cut(s)	6
HpyCH4III	ACNGT	1 cut(s)	579
HpyCH4V	TGCA	3 cut(s)	162, 350, 403
HpyF10VI	GCNNNNNNNGC	3 cut(s)	82, 400, 494
HpyF3I	CTNAG	1 cut(s)	621
Hsp92II	CATG	5 cut(s)	34, 232, 241, 317, 541
HspAI	GCGC	1 cut(s)	300
Kzo9I	GATC	4 cut(s)	60, 249, 328, 385
LmnI	GCTCC	3 cut(s)	152, 198, 521
LpnPI	CCDG	8 cut(s)	62, 108, 134, 352, 402, 481, 531, 570
Lsp1109I	GCAGC	3 cut(s)	284, 451, 497
LweI	GCATC	1 cut(s)	330
MaeI	CTAG	1 cut(s)	440
MaeIII	GTNAC	4 cut(s)	360, 478, 581, 652
MalI	GATC	4 cut(s)	62, 251, 330, 387
MboI	GATC	4 cut(s)	60, 249, 328, 385
MboII	GAAGA	4 cut(s)	55, 115, 257, 605
MfeI	CAATTG	1 cut(s)	589
MflI	RGATCY	4 cut(s)	60, 249, 328, 385
MluCI	AATT	4 cut(s)	98, 516, 528, 589
MlyI	GAGTC	1 cut(s)	674
MnlI	CCTC	7 cut(s)	18, 248, 287, 311, 376, 545, 630
MseI	TTAA	1 cut(s)	210
MspA1I	CMGCKG	1 cut(s)	464
MspI	CCGG	1 cut(s)	339
MspR9I	CCNGG	1 cut(s)	340
MunI	CAATTG	1 cut(s)	589
Mva1269I	GAATGC	1 cut(s)	164
MwoI	GCNNNNNNNGC	3 cut(s)	82, 400, 494
NciI	CCSGG	1 cut(s)	340
NdeII	GATC	4 cut(s)	60, 249, 328, 385
NlaIII	CATG	5 cut(s)	34, 232, 241, 317, 541
NlaIV	GGNNCC	2 cut(s)	134, 387
NmuCI	GTSAC	4 cut(s)	360, 478, 581, 652
NsbI	TGCGCA	1 cut(s)	301
PagI	TCATGA	1 cut(s)	537
PaqCI	CACCTGC	1 cut(s)	113
PctI	GAATGC	1 cut(s)	164
PfeI	GAWTC	1 cut(s)	432
PflMI	CCANNNNNTGG	1 cut(s)	395
PfoI	TCCNGGA	1 cut(s)	338
PkrI	GCNGC	4 cut(s)	299, 463, 466, 487
PleI	GAGTC	1 cut(s)	673
PpsI	GAGTC	1 cut(s)	673
PsiI	TTATAA	1 cut(s)	96
PspFI	CCCAGC	1 cut(s)	76
PspN4I	GGNNCC	2 cut(s)	134, 387
PspPI	GGNCC	1 cut(s)	133
PsrI	GAACNNNNNNTAC	2 cut(s)	218, 250
PsuI	RGATCY	4 cut(s)	60, 249, 328, 385
RsaI	GTAC	1 cut(s)	227
RsaNI	GTAC	1 cut(s)	226
SaqAI	TTAA	1 cut(s)	210
SatI	GCNGC	4 cut(s)	298, 462, 465, 486
Sau3AI	GATC	4 cut(s)	60, 249, 328, 385
Sau96I	GGNCC	1 cut(s)	133
SchI	GAGTC	1 cut(s)	674
ScrFI	CCNGG	1 cut(s)	340
SfaNI	GCATC	1 cut(s)	330
SinI	GGWCC	1 cut(s)	133
SpeI	ACTAGT	1 cut(s)	439
Sse9I	AATT	4 cut(s)	98, 516, 528, 589
SsiI	CCGC	1 cut(s)	462
SspI	AATATT	1 cut(s)	346
SspMI	CTAG	1 cut(s)	440
StyD4I	CCNGG	1 cut(s)	338
TaaI	ACNGT	1 cut(s)	579
TaqI	TCGA	1 cut(s)	42
TasI	AATT	4 cut(s)	98, 516, 528, 589
TatI	WGTACW	1 cut(s)	225
TauI	GCSGC	1 cut(s)	464
TfiI	GAWTC	1 cut(s)	432
Tru1I	TTAA	1 cut(s)	210
Tru9I	TTAA	1 cut(s)	210
TscAI	CASTG	3 cut(s)	396, 475, 629
TseFI	GTSAC	4 cut(s)	360, 478, 581, 652
TseI	GCWGC	3 cut(s)	297, 464, 485
Tsp45I	GTSAC	4 cut(s)	360, 478, 581, 652
TspDTI	ATGAA	5 cut(s)	60, 226, 245, 489, 605
TspGWI	ACGGA	2 cut(s)	125, 599
TspRI	CASTG	3 cut(s)	396, 475, 629
Van91I	CCANNNNNTGG	1 cut(s)	395
VpaK11BI	GGWCC	1 cut(s)	133
XmiI	GTMKAC	1 cut(s)	5
XspI	CTAG	1 cut(s)	440

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