Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000613

Physical Location & Seq

Genomic Coordinates Forward (+)

1683139 .. 1687858

Gene Structure 4720 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG024300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGTCTCGAATATCTCCTAAAATAATTTGCTTATTTGTGGGGCGACGTAGTGACTGTCGACTGTTGCGCATTCATATACTAAAGAAGTTTCCGTGCTGGGATGAATATGCAGGCAATGAACCTAGAGTTCCAGATGTAGCAGAAACAATTTATAAGTATCTAAATGGTCTTCGTGGCGAGAATAAAAGGTTTGGAATCCTCATCGCGGGATGGGATGCAGAGGGTCACGATCAAATTTATTGTCTCTTTATTAGAGATGATGTTGTTGTGAAACGAAAAGTAACTTCCCCATCATTCGGAGTACTAGGATCTGGGGCTGTATATGCTGCTACTAGTCTTAAAAGTGACAACCGGTGGTCAGGTCAGCCCCCGGATCTGAAGAAGTACATGGACAAGAAGCTTCAAATCAAGCTAAATGCAAACCGAATGATTGTTGGAACCTTGCGTGGATTTGACCAGTTCATGAATCTGGTGGTTGATAATACTGTAGAAGTGAATGGTGATGAAAAGACTAACATAGGCATGGTGGTGATCAGAGGAAACAGTGTGGTTAATGTTGAAGCACTTGAACCTGTGGCCAAAATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005682 GO:0005684 GO:0005685 GO:0005686 GO:0005687 GO:0005689 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030532 GO:0032991 GO:0034641 GO:0034719 GO:0035770 GO:0036464 GO:0043170 GO:0043186 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045495 GO:0046483 GO:0060293 GO:0071004 GO:0071010 GO:0071011 GO:0071013 GO:0071704 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

195

Amino Acids

21.96

Weight (kDa)

9.28

Isoelectric Point (pI)

45.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	125 - 186	1.6e-21	LSM 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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000613)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13060 AT1G13060 AT1G13060 AT3G26340
fragaria_vesca	FvH4_1g01201 FvH4_4g24020 FvH4_6g30500
malus_domestica	MD10G1030600.v1.1 MD16G1116800.v1.1
prunus_persica	Prupe.1G229300_v2.0.a1 Prupe.1G229300_v2.0.a1 Prupe.1G229300_v2.0.a1
pyrus_communis	pycom10g01980 pycom13g10110
rosa_chinensis	RchiOBHm_Chr4g0430701 RchiOBHm_Chr5g0003071
rosa_laevigata	RLG00000006954 RLG00000031090 RLG00000031094 RLG00000031099 RLG00000031107 RLG00000031108 RLG00000031111 RLG00000031116 RLG00000032188
rosa_multiflora	Rmu_sc0000131.1_g000009 Rmu_sc0000146.1_g000015 Rmu_sc0002209.1_g000027
rosa_roxburghii	Rroxscaffold_1G00061170 Rroxscaffold_1G00061240 Rroxscaffold_1G00061300 Rroxscaffold_1G00072510 Rroxscaffold_1G00072750 Rroxscaffold_1G00072760 Rroxscaffold_5G00372440 Rroxscaffold_6G00429800 Rroxscaffold_6G00429810 Rroxscaffold_6G00429820 Rroxscaffold_6G00429850
rosa_rugosa	Rorug04G0245300 Rorug04G0402100 Rorug04G0402100 Rorug04G0402100 Rorug05G0025600 Rorug05G0026200
rosa_samantha	Rh3BG233200 Rh3DG047000 Rh3DG047300 Rh3DG047400 Rh3DG047800 Rh4AG053100 Rh4AG227500 Rh4BG230300 Rh4BG309300 Rh4CG242400 Rh4DG160600 Rh4DG225800 Rh5AG024300 Rh5AG024400 Rh5AG024700 Rh5AG027100 Rh5AG119900 Rh5BG118400 Rh5CG027100 Rh5CG027300 Rh5CG027700 Rh5CG128900 Rh5DG026900 Rh5DG027000 Rh5DG027700 Rh5DG028000 Rh5DG028500
rosa_wichuraiana	Rw0G010900 Rw3G003590 Rw4G026180 Rw5G002310 Rw5G002480 Rw5G002600 Rw5G010340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	153
Acc16I	TGCGCA	1 cut(s)	68
AccI	GTMKAC	1 cut(s)	58
AccII	CGCG	1 cut(s)	206
AciI	CCGC	1 cut(s)	206
AclWI	GGATC	2 cut(s)	316, 381
AcoI	YGGCCR	1 cut(s)	576
AcsI	RAATTY	1 cut(s)	234
AcuI	CTGAAG	1 cut(s)	398
AfaI	GTAC	2 cut(s)	303, 386
AfiI	CCNNNNNNNGG	2 cut(s)	205, 296
AgeI	ACCGGT	1 cut(s)	351
AgsI	TTSAA	3 cut(s)	404, 560, 569
AhlI	ACTAGT	1 cut(s)	332
AluBI	AGCT	2 cut(s)	400, 412
AluI	AGCT	2 cut(s)	400, 412
Alw26I	GTCTC	2 cut(s)	9, 248
AlwI	GGATC	2 cut(s)	316, 381
AoxI	GGCC	1 cut(s)	576
ApeKI	GCWGC	1 cut(s)	326
ApoI	RAATTY	1 cut(s)	234
ArsI	GACNNNNNNTTYG	2 cut(s)	226, 258
AsiGI	ACCGGT	1 cut(s)	351
AspLEI	GCGC	1 cut(s)	69
AsuC2I	CCSGG	1 cut(s)	371
AsuHPI	GGTGA	2 cut(s)	512, 541
BalI	TGGCCA	1 cut(s)	578
BbsI	GAAGAC	1 cut(s)	161
BbvI	GCAGC	1 cut(s)	313
BccI	CCATC	2 cut(s)	204, 298
BclI	TGATCA	1 cut(s)	531
BcnI	CCSGG	1 cut(s)	371
BcoDI	GTCTC	2 cut(s)	9, 248
BcuI	ACTAGT	1 cut(s)	332
BfaI	CTAG	3 cut(s)	123, 305, 333
BfmI	CTRYAG	1 cut(s)	486
BisI	GCNGC	1 cut(s)	327
BlsI	GCNGC	1 cut(s)	328
BmcAI	AGTACT	1 cut(s)	303
Bme1390I	CCNGG	1 cut(s)	371
BmiI	GGNNCC	1 cut(s)	439
BmrFI	CCNGG	1 cut(s)	371
BmsI	GCATC	1 cut(s)	205
BpiI	GAAGAC	1 cut(s)	161
BpuMI	CCSGG	1 cut(s)	371
BsaJI	CCNNGG	1 cut(s)	369
BsaWI	WCCGGW	1 cut(s)	351
Bsc4I	CCNNNNNNNGG	2 cut(s)	205, 296
Bse118I	RCCGGY	1 cut(s)	351
Bse1I	ACTGG	1 cut(s)	457
Bse3DI	GCAATG	1 cut(s)	121
BseDI	CCNNGG	1 cut(s)	369
BseGI	GGATG	3 cut(s)	106, 215, 220
BseLI	CCNNNNNNNGG	2 cut(s)	205, 296
BseMI	GCAATG	1 cut(s)	121
BseNI	ACTGG	1 cut(s)	457
BseXI	GCAGC	1 cut(s)	313
BseYI	CCCAGC	1 cut(s)	96
Bsh1236I	CGCG	1 cut(s)	206
BshFI	GGCC	1 cut(s)	578
BshTI	ACCGGT	1 cut(s)	351
BsiSI	CCGG	2 cut(s)	352, 371
BslI	CCNNNNNNNGG	2 cut(s)	205, 296
BsmAI	GTCTC	2 cut(s)	9, 248
BsmI	GAATGC	1 cut(s)	69
BsnI	GGCC	1 cut(s)	578
Bsp143I	GATC	4 cut(s)	229, 308, 373, 531
BspACI	CCGC	1 cut(s)	206
BspANI	GGCC	1 cut(s)	578
BspFNI	CGCG	1 cut(s)	206
BspHI	TCATGA	1 cut(s)	462
BspLI	GGNNCC	1 cut(s)	439
BspPI	GGATC	2 cut(s)	316, 381
BsrDI	GCAATG	1 cut(s)	121
BsrFI	RCCGGY	1 cut(s)	351
BsrI	ACTGG	1 cut(s)	457
BssAI	RCCGGY	1 cut(s)	351
BssECI	CCNNGG	1 cut(s)	369
BssMI	GATC	4 cut(s)	229, 308, 373, 531
Bst4CI	ACNGT	4 cut(s)	56, 63, 487, 545
BstC8I	GCNNGC	1 cut(s)	112
BstF5I	GGATG	3 cut(s)	106, 215, 220
BstFNI	CGCG	1 cut(s)	206
BstHHI	GCGC	1 cut(s)	69
BstKTI	GATC	4 cut(s)	232, 311, 376, 534
BstMAI	GTCTC	2 cut(s)	9, 248
BstMBI	GATC	4 cut(s)	229, 308, 373, 531
BstMWI	GCNNNNNNNGC	1 cut(s)	323
BstSCI	CCNGG	1 cut(s)	369
BstSFI	CTRYAG	1 cut(s)	486
BstUI	CGCG	1 cut(s)	206
BstV1I	GCAGC	1 cut(s)	313
BstV2I	GAAGAC	1 cut(s)	161
BstX2I	RGATCY	2 cut(s)	308, 373
BstYI	RGATCY	2 cut(s)	308, 373
BsuRI	GGCC	1 cut(s)	578
BtgZI	GCGATG	1 cut(s)	187
BtsCI	GGATG	3 cut(s)	106, 215, 220
BtsIMutI	CAGTG	1 cut(s)	550
Cac8I	GCNNGC	1 cut(s)	112
CciI	TCATGA	1 cut(s)	462
CfoI	GCGC	1 cut(s)	69
Cfr10I	RCCGGY	1 cut(s)	351
Csp6I	GTAC	2 cut(s)	302, 385
CspAI	ACCGGT	1 cut(s)	351
CviAII	CATG	3 cut(s)	388, 463, 523
CviJI	RGCY	5 cut(s)	317, 367, 400, 412, 578
CviKI_1	RGCY	5 cut(s)	317, 367, 400, 412, 578
CviQI	GTAC	2 cut(s)	302, 385
DpnI	GATC	4 cut(s)	231, 310, 375, 533
DpnII	GATC	4 cut(s)	229, 308, 373, 531
EaeI	YGGCCR	1 cut(s)	576
Eco57I	CTGAAG	1 cut(s)	398
FaeI	CATG	3 cut(s)	391, 466, 526
FatI	CATG	3 cut(s)	387, 462, 522
FauI	CCCGC	1 cut(s)	199
FbaI	TGATCA	1 cut(s)	531
FblI	GTMKAC	1 cut(s)	58
Fnu4HI	GCNGC	1 cut(s)	327
FokI	GGATG	3 cut(s)	113, 222, 227
Fsp4HI	GCNGC	1 cut(s)	327
FspBI	CTAG	3 cut(s)	123, 305, 333
FspI	TGCGCA	1 cut(s)	68
GlaI	GCGC	1 cut(s)	68
GluI	GCNGC	1 cut(s)	327
GsaI	CCCAGC	1 cut(s)	100
HaeIII	GGCC	1 cut(s)	578
HapII	CCGG	2 cut(s)	352, 371
HhaI	GCGC	1 cut(s)	69
Hin1II	CATG	3 cut(s)	391, 466, 526
Hin6I	GCGC	1 cut(s)	67
HinP1I	GCGC	1 cut(s)	67
HincII	GTYRAC	1 cut(s)	59
HindII	GTYRAC	1 cut(s)	59
HindIII	AAGCTT	1 cut(s)	398
HinfI	GANTC	2 cut(s)	195, 466
HpaII	CCGG	2 cut(s)	352, 371
HphI	GGTGA	2 cut(s)	512, 541
Hpy166II	GTNNAC	1 cut(s)	59
Hpy188I	TCNGA	3 cut(s)	299, 378, 536
Hpy188III	TCNNGA	4 cut(s)	6, 131, 227, 463
Hpy8I	GTNNAC	1 cut(s)	59
Hpy99I	CGWCG	1 cut(s)	48
HpyCH4III	ACNGT	4 cut(s)	56, 63, 487, 545
HpyCH4IV	ACGT	1 cut(s)	46
HpyCH4V	TGCA	3 cut(s)	110, 218, 419
HpyF10VI	GCNNNNNNNGC	1 cut(s)	323
HpySE526I	ACGT	1 cut(s)	46
Hsp92II	CATG	3 cut(s)	391, 466, 526
HspAI	GCGC	1 cut(s)	67
Ksp22I	TGATCA	1 cut(s)	531
Kzo9I	GATC	4 cut(s)	229, 308, 373, 531
LpnPI	CCDG	9 cut(s)	82, 96, 144, 297, 345, 365, 384, 455, 470
Lsp1109I	GCAGC	1 cut(s)	313
LweI	GCATC	1 cut(s)	205
MaeI	CTAG	3 cut(s)	123, 305, 333
MaeII	ACGT	1 cut(s)	46
MaeIII	GTNAC	4 cut(s)	50, 224, 280, 344
MalI	GATC	4 cut(s)	231, 310, 375, 533
MboI	GATC	4 cut(s)	229, 308, 373, 531
MboII	GAAGA	2 cut(s)	161, 391
MflI	RGATCY	2 cut(s)	308, 373
MlsI	TGGCCA	1 cut(s)	578
MluCI	AATT	3 cut(s)	24, 147, 234
MluNI	TGGCCA	1 cut(s)	578
MmeI	TCCRAC	1 cut(s)	415
MnlI	CCTC	3 cut(s)	209, 214, 530
Mox20I	TGGCCA	1 cut(s)	578
MscI	TGGCCA	1 cut(s)	578
MseI	TTAA	2 cut(s)	339, 552
MslI	CAYNNNNRTG	2 cut(s)	521, 527
Msp20I	TGGCCA	1 cut(s)	578
MspI	CCGG	2 cut(s)	352, 371
MspR9I	CCNGG	1 cut(s)	371
Mva1269I	GAATGC	1 cut(s)	69
MvnI	CGCG	1 cut(s)	206
MwoI	GCNNNNNNNGC	1 cut(s)	323
NciI	CCSGG	1 cut(s)	371
NdeII	GATC	4 cut(s)	229, 308, 373, 531
NlaIII	CATG	3 cut(s)	391, 466, 526
NlaIV	GGNNCC	1 cut(s)	439
NmuCI	GTSAC	3 cut(s)	50, 224, 344
NsbI	TGCGCA	1 cut(s)	68
PagI	TCATGA	1 cut(s)	462
PctI	GAATGC	1 cut(s)	69
PfeI	GAWTC	2 cut(s)	195, 466
PinAI	ACCGGT	1 cut(s)	351
PkrI	GCNGC	1 cut(s)	328
PsiI	TTATAA	1 cut(s)	153
PspFI	CCCAGC	1 cut(s)	96
PspN4I	GGNNCC	1 cut(s)	439
PsuI	RGATCY	2 cut(s)	308, 373
RsaI	GTAC	2 cut(s)	303, 386
RsaNI	GTAC	2 cut(s)	302, 385
RseI	CAYNNNNRTG	2 cut(s)	521, 527
SalI	GTCGAC	1 cut(s)	57
SaqAI	TTAA	2 cut(s)	339, 552
SatI	GCNGC	1 cut(s)	327
Sau3AI	GATC	4 cut(s)	229, 308, 373, 531
ScaI	AGTACT	1 cut(s)	303
ScrFI	CCNGG	1 cut(s)	371
SetI	ASST	8 cut(s)	49, 124, 191, 364, 402, 414, 443, 574
SfaNI	GCATC	1 cut(s)	205
SfcI	CTRYAG	1 cut(s)	486
SmiMI	CAYNNNNRTG	2 cut(s)	521, 527
SpeI	ACTAGT	1 cut(s)	332
Sse9I	AATT	3 cut(s)	24, 147, 234
SsiI	CCGC	1 cut(s)	206
SspMI	CTAG	3 cut(s)	123, 305, 333
StyD4I	CCNGG	1 cut(s)	369
TaaI	ACNGT	4 cut(s)	56, 63, 487, 545
TaiI	ACGT	1 cut(s)	49
TaqI	TCGA	2 cut(s)	7, 58
TasI	AATT	3 cut(s)	24, 147, 234
TatI	WGTACW	2 cut(s)	301, 384
TfiI	GAWTC	2 cut(s)	195, 466
Tru1I	TTAA	2 cut(s)	339, 552
Tru9I	TTAA	2 cut(s)	339, 552
TscAI	CASTG	1 cut(s)	550
TseFI	GTSAC	3 cut(s)	50, 224, 344
TseI	GCWGC	1 cut(s)	326
Tsp45I	GTSAC	3 cut(s)	50, 224, 344
TspDTI	ATGAA	6 cut(s)	62, 117, 132, 451, 479, 519
TspGWI	ACGGA	1 cut(s)	81
TspRI	CASTG	1 cut(s)	550
XapI	RAATTY	1 cut(s)	234
XmiI	GTMKAC	1 cut(s)	58
XspI	CTAG	3 cut(s)	123, 305, 333
ZrmI	AGTACT	1 cut(s)	303

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