Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0003981

Physical Location & Seq

Genomic Coordinates Reverse (-)

4315632 .. 4329022

Gene Structure 13391 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG021900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1047 bp

ATGTATCATTTGAGCCAGTTTCTAGCCGGTAAATGTGCTGATGCTCCCCAGGAGGCCCTCCAAATTCTTGACATTGTTTTAAGAGAGCTCTCATCAAAAAGGTTTCCTGTTGATGAGAACTCGACGATGAAGTCAGTAATTGAATACTTCCAGGAGATGTATGGATTCACAATTCAACATGGACATCTTCCTTGCCTTCAAGTTGGCGGAAATCAGAAGAAGGCAAATTATTTACCCATGGAGACCGTTCAACAGAATGCTTATGACCAAGACCCTTATGCTAATGAGTTTGGGATCAAAATCAGTGAAAAGCTCGCTTCAGTTGAGGCTCGAATTCTTCCAGCCCCTTGGAAAATGATCAATGGAATGACAGTTAGCCGGTGGGCTTGTATTAACTTCTCACGGAGTGTGCAGGAGAGTGTTGCTCGTGGGTTTTGTAGTGAACTTGGTCAGATGTGTCAAGTCTCTGGCATGGAATTTAATCCAGAACCTGTAATTCCAATCTACAATGCCAGGCCTGAGCAAGTAGAGAAAGCTTTGAAACATGTATATCATGCATCCATGAACAAAACAAAAGGAAAAGAGTTAGAGCTCTTATTGGCTATTTTGCCTGACAACAACGGGTCCCTGTATGGTGATATCAAGCGAATATGTGAAACAGATCTTGGATTAATCTCGCAATGCTGTCTTACAAAGCATGTTTTCAAGATTAGCAAACAGTATTTGGCTAATGTGTCTCTTAAGATAAATGTTAAGGTAGTGGCTTCCCAGGATTGGCCGGAAGTGACCAAATATGCTGGGTTAGTTTGTGCTCAAGCTCACAGACAGGAACTGATACAAGATTTGTACAAGACATGGCAGGACCCTGTTCGTGGTACAGTCAGTGGCGGGATCTTCTCGTTTCCTTTAGGAAAGCAACAGGGCAGAAACCTCTCAGGATCATATTTTACAGGACCAAAACCGGAGTTCAATTTTCAAAATGTAGATGAGGCAACCCCTAGCTACCGATTTGCTGAGGTTTGGTCAGAAAAATTTACCAAACCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002252 GO:0002376 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009615 GO:0009987 GO:0010586 GO:0016070 GO:0019827 GO:0032501 GO:0032502 GO:0034641 GO:0034660 GO:0035019 GO:0035198 GO:0043170 GO:0043207 GO:0044237 GO:0044238 GO:0046483 GO:0048509 GO:0050789 GO:0050793 GO:0050896 GO:0051607 GO:0051704 GO:0051707 GO:0061980 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:0098542 GO:0098727 GO:1901360 GO:1901363 GO:1902183

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ArgoL1 ArgoL2 ArgoMid ArgoN PAZ Piwi

Protein Analysis

348

Amino Acids

39.27

Weight (kDa)

7.54

Isoelectric Point (pI)

38.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAZ	PF02170	21 - 83	3.2e-11	PAZ domain
ArgoL2	PF16488	81 - 117	2.5e-12	Argonaute linker 2 domain
ArgoMid	PF16487	118 - 184	1.6e-08	Mid domain of argonaute
Piwi	PF02171	199 - 253	9.2e-13	Piwi 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: OG0003981)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43810 AT5G43810 AT5G43810 AT5G43810
fragaria_vesca	FvH4_4g01630 FvH4_4g01630 FvH4_4g01630 FvH4_4g01630 FvH4_4g01630 FvH4_4g01630 FvH4_4g01630
malus_domestica	MD13G1201400.v1.1 MD16G1201200.v1.1
prunus_persica	Prupe.1G022900_v2.0.a1 Prupe.1G022900_v2.0.a1
pyrus_communis	pycom13g17460 pycom16g16970
rosa_chinensis	RchiOBHm_Chr4g0388221 RchiOBHm_Chr4g0388231
rosa_laevigata	RLG00000010073
rosa_roxburghii	Rroxscaffold_5G00334710
rosa_rugosa	Rorug03G0316100 Rorug03G0316200 Rorug03G0316300 Rorug03G0316300 Rorug03G0316300 Rorug03G0316300 Rorug03G0316400
rosa_samantha	Rh4AG021700 Rh4BG015800 Rh4CG021900 Rh4DG016600
rosa_wichuraiana	Rw4G001420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	130
AciI	CCGC	2 cut(s)	207, 888
AclWI	GGATC	3 cut(s)	302, 899, 946
AcoI	YGGCCR	1 cut(s)	776
AcsI	RAATTY	4 cut(s)	63, 333, 476, 1031
AcuI	CTGAAG	1 cut(s)	303
AdeI	CACNNNGTG	1 cut(s)	407
AfaI	GTAC	2 cut(s)	848, 877
AfiI	CCNNNNNNNGG	2 cut(s)	774, 872
AflII	CTTAAG	1 cut(s)	740
AflIII	ACRYGT	1 cut(s)	544
AgsI	TTSAA	8 cut(s)	143, 176, 200, 251, 541, 706, 970, 977
AjnI	CCWGG	4 cut(s)	48, 150, 512, 768
AjuI	GAANNNNNNNTTGG	2 cut(s)	648, 680
AluBI	AGCT	6 cut(s)	88, 313, 536, 592, 818, 1002
AluI	AGCT	6 cut(s)	88, 313, 536, 592, 818, 1002
Alw21I	GWGCWC	3 cut(s)	90, 594, 814
Alw26I	GTCTC	3 cut(s)	236, 469, 741
AlwI	GGATC	3 cut(s)	302, 899, 946
AlwNI	CAGNNNCTG	2 cut(s)	491, 832
AoxI	GGCC	3 cut(s)	54, 515, 776
ApoI	RAATTY	4 cut(s)	63, 333, 476, 1031
AseI	ATTAAT	1 cut(s)	671
AspS9I	GGNCC	4 cut(s)	55, 624, 862, 953
AsuHPI	GGTGA	1 cut(s)	647
AvaII	GGWCC	3 cut(s)	624, 862, 953
BanII	GRGCYC	2 cut(s)	90, 594
BauI	CACGAG	1 cut(s)	426
Bbv12I	GWGCWC	3 cut(s)	90, 594, 814
BbvCI	CCTCAGC	1 cut(s)	1014
BciT130I	CCWGG	4 cut(s)	50, 152, 514, 770
BclI	TGATCA	1 cut(s)	357
BcoDI	GTCTC	3 cut(s)	236, 469, 741
BfaI	CTAG	2 cut(s)	23, 999
BfrI	CTTAAG	1 cut(s)	740
BglII	AGATCT	1 cut(s)	661
Bme1390I	CCNGG	4 cut(s)	50, 152, 514, 770
Bme18I	GGWCC	3 cut(s)	624, 862, 953
BmgT120I	GGNCC	4 cut(s)	55, 624, 862, 953
BmiI	GGNNCC	3 cut(s)	625, 626, 864
BmrFI	CCNGG	4 cut(s)	50, 152, 514, 770
BmsI	GCATC	2 cut(s)	31, 566
BplI	GAGNNNNNCTC	2 cut(s)	409, 441
Bpu10I	CCTNAGC	2 cut(s)	519, 1014
BpuEI	CTTGAG	1 cut(s)	798
BsaBI	GATNNNNATC	1 cut(s)	299
BsaI	GGTCTC	1 cut(s)	236
BsaJI	CCNNGG	4 cut(s)	48, 237, 347, 768
BsaWI	WCCGGW	1 cut(s)	961
Bsc4I	CCNNNNNNNGG	2 cut(s)	774, 872
Bse118I	RCCGGY	2 cut(s)	26, 378
Bse1I	ACTGG	1 cut(s)	16
Bse3DI	GCAATG	1 cut(s)	686
Bse8I	GATNNNNATC	1 cut(s)	299
BseBI	CCWGG	4 cut(s)	50, 152, 514, 770
BseDI	CCNNGG	4 cut(s)	48, 237, 347, 768
BseGI	GGATG	1 cut(s)	557
BseJI	GATNNNNATC	1 cut(s)	299
BseLI	CCNNNNNNNGG	2 cut(s)	774, 872
BseMI	GCAATG	1 cut(s)	686
BseMII	CTCAG	3 cut(s)	510, 948, 1005
BseNI	ACTGG	1 cut(s)	16
BseYI	CCCAGC	1 cut(s)	797
BsgI	GTGCAG	1 cut(s)	431
BshFI	GGCC	3 cut(s)	56, 517, 778
BsiHKAI	GWGCWC	3 cut(s)	90, 594, 814
BsiSI	CCGG	4 cut(s)	27, 379, 779, 962
BslFI	GGGAC	1 cut(s)	610
BslI	CCNNNNNNNGG	2 cut(s)	774, 872
BsmAI	GTCTC	3 cut(s)	236, 469, 741
BsmFI	GGGAC	1 cut(s)	610
BsmI	GAATGC	1 cut(s)	262
BsnI	GGCC	3 cut(s)	56, 517, 778
Bso31I	GGTCTC	1 cut(s)	236
Bsp1286I	GDGCHC	3 cut(s)	90, 594, 814
Bsp1407I	TGTACA	1 cut(s)	846
Bsp143I	GATC	5 cut(s)	294, 357, 661, 891, 938
Bsp19I	CCATGG	1 cut(s)	237
BspACI	CCGC	2 cut(s)	207, 888
BspANI	GGCC	3 cut(s)	56, 517, 778
BspCNI	CTCAG	3 cut(s)	511, 947, 1006
BspLI	GGNNCC	3 cut(s)	625, 626, 864
BspPI	GGATC	3 cut(s)	302, 899, 946
BspTI	CTTAAG	1 cut(s)	740
BspTNI	GGTCTC	1 cut(s)	236
BsrDI	GCAATG	1 cut(s)	686
BsrFI	RCCGGY	2 cut(s)	26, 378
BsrGI	TGTACA	1 cut(s)	846
BsrI	ACTGG	1 cut(s)	16
BssAI	RCCGGY	2 cut(s)	26, 378
BssECI	CCNNGG	4 cut(s)	48, 237, 347, 768
BssMI	GATC	5 cut(s)	294, 357, 661, 891, 938
BssSI	CACGAG	1 cut(s)	426
BssT1I	CCWWGG	2 cut(s)	237, 347
Bst2BI	CACGAG	1 cut(s)	426
Bst2UI	CCWGG	4 cut(s)	50, 152, 514, 770
Bst4CI	ACNGT	4 cut(s)	247, 373, 720, 880
BstAFI	CTTAAG	1 cut(s)	740
BstAUI	TGTACA	1 cut(s)	846
BstC8I	GCNNGC	1 cut(s)	315
BstDEI	CTNAG	3 cut(s)	519, 934, 1014
BstDSI	CCRYGG	1 cut(s)	237
BstF5I	GGATG	1 cut(s)	557
BstKTI	GATC	5 cut(s)	297, 360, 664, 894, 941
BstMAI	GTCTC	3 cut(s)	236, 469, 741
BstMBI	GATC	5 cut(s)	294, 357, 661, 891, 938
BstNI	CCWGG	4 cut(s)	50, 152, 514, 770
BstNSI	RCATGY	2 cut(s)	548, 701
BstSCI	CCNGG	4 cut(s)	48, 150, 512, 768
BstX2I	RGATCY	2 cut(s)	661, 891
BstXI	CCANNNNNNTGG	1 cut(s)	348
BstYI	RGATCY	2 cut(s)	661, 891
BsuRI	GGCC	3 cut(s)	56, 517, 778
BtgI	CCRYGG	1 cut(s)	237
BtsCI	GGATG	1 cut(s)	557
BtsIMutI	CAGTG	2 cut(s)	310, 889
Cac8I	GCNNGC	1 cut(s)	315
CaiI	CAGNNNCTG	2 cut(s)	491, 832
Cfr10I	RCCGGY	2 cut(s)	26, 378
Cfr13I	GGNCC	4 cut(s)	55, 624, 862, 953
Csp6I	GTAC	2 cut(s)	847, 876
CviAII	CATG	8 cut(s)	179, 238, 472, 545, 554, 562, 698, 855
CviQI	GTAC	2 cut(s)	847, 876
DdeI	CTNAG	3 cut(s)	519, 934, 1014
DpnI	GATC	5 cut(s)	296, 359, 663, 893, 940
DpnII	GATC	5 cut(s)	294, 357, 661, 891, 938
DraIII	CACNNNGTG	1 cut(s)	407
DrdI	GACNNNNNNGTC	1 cut(s)	130
DseDI	GACNNNNNNGTC	1 cut(s)	130
EaeI	YGGCCR	1 cut(s)	776
EciI	GGCGGA	1 cut(s)	222
Ecl136II	GAGCTC	2 cut(s)	88, 592
Eco130I	CCWWGG	2 cut(s)	237, 347
Eco147I	AGGCCT	1 cut(s)	517
Eco24I	GRGCYC	2 cut(s)	90, 594
Eco31I	GGTCTC	1 cut(s)	236
Eco32I	GATATC	1 cut(s)	640
Eco47I	GGWCC	3 cut(s)	624, 862, 953
Eco53kI	GAGCTC	2 cut(s)	88, 592
Eco57I	CTGAAG	1 cut(s)	303
EcoICRI	GAGCTC	2 cut(s)	88, 592
EcoO109I	RGGNCCY	3 cut(s)	55, 624, 862
EcoRI	GAATTC	1 cut(s)	333
EcoRII	CCWGG	4 cut(s)	48, 150, 512, 768
EcoRV	GATATC	1 cut(s)	640
EcoT14I	CCWWGG	2 cut(s)	237, 347
EcoT22I	ATGCAT	1 cut(s)	559
EcoT38I	GRGCYC	2 cut(s)	90, 594
ErhI	CCWWGG	2 cut(s)	237, 347
FaeI	CATG	8 cut(s)	182, 241, 475, 548, 557, 565, 701, 858
FaqI	GGGAC	1 cut(s)	610
FatI	CATG	8 cut(s)	178, 237, 471, 544, 553, 561, 697, 854
FauI	CCCGC	1 cut(s)	881
FbaI	TGATCA	1 cut(s)	357
FokI	GGATG	1 cut(s)	544
FriOI	GRGCYC	2 cut(s)	90, 594
FspBI	CTAG	2 cut(s)	23, 999
GsaI	CCCAGC	1 cut(s)	801
HaeIII	GGCC	3 cut(s)	56, 517, 778
HapII	CCGG	4 cut(s)	27, 379, 779, 962
Hin1II	CATG	8 cut(s)	182, 241, 475, 548, 557, 565, 701, 858
HindIII	AAGCTT	1 cut(s)	534
HinfI	GANTC	1 cut(s)	165
HpaII	CCGG	4 cut(s)	27, 379, 779, 962
HphI	GGTGA	1 cut(s)	647
Hpy166II	GTNNAC	1 cut(s)	443
Hpy188I	TCNGA	3 cut(s)	216, 453, 1027
Hpy188III	TCNNGA	4 cut(s)	68, 485, 706, 936
Hpy8I	GTNNAC	1 cut(s)	443
Hpy99I	CGWCG	1 cut(s)	127
HpyAV	CCTTC	2 cut(s)	206, 214
HpyCH4III	ACNGT	4 cut(s)	247, 373, 720, 880
HpyCH4V	TGCA	2 cut(s)	412, 557
HpyF3I	CTNAG	3 cut(s)	519, 934, 1014
Hsp92II	CATG	8 cut(s)	182, 241, 475, 548, 557, 565, 701, 858
KflI	GGGWCCC	1 cut(s)	624
Ksp22I	TGATCA	1 cut(s)	357
Kzo9I	GATC	5 cut(s)	294, 357, 661, 891, 938
LmnI	GCTCC	1 cut(s)	49
LweI	GCATC	2 cut(s)	31, 566
MaeI	CTAG	2 cut(s)	23, 999
MaeIII	GTNAC	1 cut(s)	784
MalI	GATC	5 cut(s)	296, 359, 663, 893, 940
MboI	GATC	5 cut(s)	294, 357, 661, 891, 938
MboII	GAAGA	4 cut(s)	179, 229, 329, 886
MflI	RGATCY	2 cut(s)	661, 891
MhlI	GDGCHC	3 cut(s)	90, 594, 814
MluCI	AATT	9 cut(s)	63, 138, 171, 226, 333, 476, 495, 970, 1031
MnlI	CCTC	6 cut(s)	46, 68, 319, 941, 982, 1009
Mph1103I	ATGCAT	1 cut(s)	559
MseI	TTAA	6 cut(s)	80, 393, 480, 671, 741, 753
MspCI	CTTAAG	1 cut(s)	740
MspI	CCGG	4 cut(s)	27, 379, 779, 962
MspR9I	CCNGG	4 cut(s)	50, 152, 514, 770
Mva1269I	GAATGC	1 cut(s)	262
MvaI	CCWGG	4 cut(s)	50, 152, 514, 770
NcoI	CCATGG	1 cut(s)	237
NdeII	GATC	5 cut(s)	294, 357, 661, 891, 938
NlaIII	CATG	8 cut(s)	182, 241, 475, 548, 557, 565, 701, 858
NlaIV	GGNNCC	3 cut(s)	625, 626, 864
NmuCI	GTSAC	1 cut(s)	784
NsiI	ATGCAT	1 cut(s)	559
NspI	RCATGY	2 cut(s)	548, 701
PceI	AGGCCT	1 cut(s)	517
PciI	ACATGT	1 cut(s)	544
PctI	GAATGC	1 cut(s)	262
PfeI	GAWTC	1 cut(s)	165
PfoI	TCCNGGA	1 cut(s)	150
PpuMI	RGGWCCY	2 cut(s)	624, 862
PscI	ACATGT	1 cut(s)	544
PshBI	ATTAAT	1 cut(s)	671
Psp124BI	GAGCTC	2 cut(s)	90, 594
Psp5II	RGGWCCY	2 cut(s)	624, 862
Psp6I	CCWGG	4 cut(s)	48, 150, 512, 768
PspFI	CCCAGC	1 cut(s)	797
PspGI	CCWGG	4 cut(s)	48, 150, 512, 768
PspN4I	GGNNCC	3 cut(s)	625, 626, 864
PspPI	GGNCC	4 cut(s)	55, 624, 862, 953
PspPPI	RGGWCCY	2 cut(s)	624, 862
PstNI	CAGNNNCTG	2 cut(s)	491, 832
PsuI	RGATCY	2 cut(s)	661, 891
RsaI	GTAC	2 cut(s)	848, 877
RsaNI	GTAC	2 cut(s)	847, 876
SacI	GAGCTC	2 cut(s)	90, 594
SaqAI	TTAA	6 cut(s)	80, 393, 480, 671, 741, 753
Sau3AI	GATC	5 cut(s)	294, 357, 661, 891, 938
Sau96I	GGNCC	4 cut(s)	55, 624, 862, 953
ScrFI	CCNGG	4 cut(s)	50, 152, 514, 770
SduI	GDGCHC	3 cut(s)	90, 594, 814
SfaNI	GCATC	2 cut(s)	31, 566
SinI	GGWCC	3 cut(s)	624, 862, 953
SmlI	CTYRAG	2 cut(s)	740, 813
SmoI	CTYRAG	2 cut(s)	740, 813
Sse9I	AATT	9 cut(s)	63, 138, 171, 226, 333, 476, 495, 970, 1031
SseBI	AGGCCT	1 cut(s)	517
SsiI	CCGC	2 cut(s)	207, 888
SspMI	CTAG	2 cut(s)	23, 999
SstI	GAGCTC	2 cut(s)	90, 594
StuI	AGGCCT	1 cut(s)	517
StyD4I	CCNGG	4 cut(s)	48, 150, 512, 768
StyI	CCWWGG	2 cut(s)	237, 347
TaaI	ACNGT	4 cut(s)	247, 373, 720, 880
TaqI	TCGA	2 cut(s)	122, 331
TasI	AATT	9 cut(s)	63, 138, 171, 226, 333, 476, 495, 970, 1031
TatI	WGTACW	1 cut(s)	846
TfiI	GAWTC	1 cut(s)	165
Tru1I	TTAA	6 cut(s)	80, 393, 480, 671, 741, 753
Tru9I	TTAA	6 cut(s)	80, 393, 480, 671, 741, 753
TscAI	CASTG	2 cut(s)	310, 889
TseFI	GTSAC	1 cut(s)	784
Tsp45I	GTSAC	1 cut(s)	784
TspDTI	ATGAA	2 cut(s)	143, 578
TspGWI	ACGGA	1 cut(s)	418
TspRI	CASTG	2 cut(s)	310, 889
Vha464I	CTTAAG	1 cut(s)	740
VpaK11BI	GGWCC	3 cut(s)	624, 862, 953
VspI	ATTAAT	1 cut(s)	671
XapI	RAATTY	4 cut(s)	63, 333, 476, 1031
XceI	RCATGY	2 cut(s)	548, 701
XcmI	CCANNNNNNNNNTGG	1 cut(s)	158
XspI	CTAG	2 cut(s)	23, 999
Zsp2I	ATGCAT	1 cut(s)	559

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