Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0003670

Physical Location & Seq

Genomic Coordinates Reverse (-)

65030069 .. 65033662

Gene Structure 3594 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG439600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGGATTCAGACACAGAAGAAACCAAGTCCAAAGCAGAGCCATCAAAGCCATCGCGCAAGCACAAGAAGAGGAAGAAACTCGCAGCAGAAGCCAACCCAGAGAAGCCCAAATCAGTGCAAGCCACCATCAAGGTCATCCCGGGAAACCCAGAGAGAATCCCACCTCTGGTGGGCTATTTCCCATCTGGGTTCGACCCTACCCAGAACCCAGACCAGGATTCGACCAAAGTTGGGGTCTTTAGGCACAAGGAGAGAGGTGGGACTAGGCTTCAGGTTGTGGTGACCCCAAATAAGGAGGCTAAGGTTGATTTTGTTGGGACTAGCTATGCTGGTGAGGCTCAGGCTGGGGAGCTCTGCTCTTATGGACTTGGGATTCTTGATAAGGACACCCAGACTTTGAAGATTGTGCCTATTGCTAGCAACAAGATATTTAGATTGGAGCCAAAAATTCAAGGCCTTCACTTCTCTGGTAAGGAGCCTGCAAGTTCAGCGATGGGAGAACTTTCTGCACATGAGAAGGCAGAAAAACGTATAGACCTTCATAATCGTTATGGAACAAAGAAGTCAATACGGCAGAATAGAAAAATGCAGACCTTGAAGCAAGAAGATGATCCTGATTCTCAAAATGATATGGATGCAATCAAACAAGGTATGACAAACAGGGAGGATACTGAAGCTTCTGAAGGCCATACAGACCGTAATACCCCACCATTTAATGCTTCTGCCACCACTCCCCAGGAGGCTTATCCACTGGATAAAATCATCACCACAGGGGAGTGGAAATTCCTCCAAGATATTAATAAGCTTTTGGAAGGTGGAGCAGAAATCTCACAGAATTCTTTTCCAACATTTGTTTGCAACCGGATCCATAAACTGCAGCTGATTGAGGTCAGGGTTCGAAAGTTAGTTGTAATGTTTAATATTCAGTTGTGTTTAGGTGAATTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_I_A49

Protein Analysis

315

Amino Acids

35.12

Weight (kDa)

8.89

Isoelectric Point (pI)

35.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_I_A49	PF06870	74 - 312	1.4e-27	A49-like RNA polymerase I associated factor

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13940
fragaria_vesca	FvH4_2g14600 FvH4_2g14600 FvH4_2g14600 FvH4_6g34180 FvH4_6g47280
malus_domestica	MD09G1187900.v1.1 MD17G1172300.v1.1
prunus_persica	Prupe.3G044800_v2.0.a1
pyrus_communis	pycom09g10420 pycom09g10430 pycom17g16990 pycom17g17000
rosa_chinensis	RchiOBHm_Chr2g0144531 RchiOBHm_Chr2g0166351
rosa_laevigata	RLG00000020086 RLG00000021613
rosa_multiflora	Rmu_sc0005789.1_g000005 Rmu_sc0007974.1_g000004 Rmu_sc0029020.1_g000001 Rmu_sc0029020.1_g000002
rosa_roxburghii	Rroxscaffold_2G00084950 Rroxscaffold_2G00101230
rosa_rugosa	Rorug02G0387600 Rorug02G0522400
rosa_samantha	Rh2AG439600 Rh2AG588500 Rh2BG449700 Rh2BG600500 Rh2CG426600 Rh2CG571300 Rh2DG459600 Rh2DG610700
rosa_wichuraiana	Rw2G035960 Rw2G049040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	55
AclWI	GGATC	3 cut(s)	605, 859, 872
AcsI	RAATTY	3 cut(s)	447, 782, 835
AcuI	CTGAAG	3 cut(s)	254, 693, 702
AfiI	CCNNNNNNNGG	5 cut(s)	166, 170, 214, 231, 292
AgsI	TTSAA	3 cut(s)	400, 452, 598
AjnI	CCWGG	2 cut(s)	213, 735
AluBI	AGCT	5 cut(s)	324, 352, 677, 805, 880
AluI	AGCT	5 cut(s)	324, 352, 677, 805, 880
Alw21I	GWGCWC	1 cut(s)	354
AlwI	GGATC	3 cut(s)	605, 859, 872
Ama87I	CYCGRG	1 cut(s)	139
AoxI	GGCC	2 cut(s)	454, 685
ApeKI	GCWGC	2 cut(s)	83, 877
ApoI	RAATTY	3 cut(s)	447, 782, 835
ArsI	GACNNNNNNTTYG	2 cut(s)	219, 251
AseI	ATTAAT	1 cut(s)	798
AspLEI	GCGC	1 cut(s)	57
AsuC2I	CCSGG	2 cut(s)	140, 141
AsuHPI	GGTGA	3 cut(s)	292, 344, 757
AsuII	TTCGAA	1 cut(s)	898
AsuNHI	GCTAGC	1 cut(s)	416
AvaI	CYCGRG	1 cut(s)	139
BamHI	GGATCC	1 cut(s)	864
BanII	GRGCYC	1 cut(s)	354
Bbv12I	GWGCWC	1 cut(s)	354
BbvI	GCAGC	2 cut(s)	95, 889
BccI	CCATC	5 cut(s)	49, 58, 134, 190, 487
BceAI	ACGGC	1 cut(s)	587
BciT130I	CCWGG	2 cut(s)	215, 737
BciVI	GTATCC	1 cut(s)	661
BcnI	CCSGG	2 cut(s)	140, 141
BfaI	CTAG	3 cut(s)	264, 321, 417
BfmI	CTRYAG	1 cut(s)	875
BfuI	GTATCC	1 cut(s)	661
BisI	GCNGC	2 cut(s)	84, 878
BlsI	GCNGC	2 cut(s)	85, 879
Bme1390I	CCNGG	4 cut(s)	140, 141, 215, 737
BmeT110I	CYCGRG	1 cut(s)	139
BmiI	GGNNCC	3 cut(s)	441, 477, 866
BmrFI	CCNGG	4 cut(s)	140, 141, 215, 737
BmsI	GCATC	1 cut(s)	625
BmtI	GCTAGC	1 cut(s)	420
BplI	GAGNNNNNCTC	2 cut(s)	341, 373
Bpu10I	CCTNAGC	2 cut(s)	300, 339
Bpu14I	TTCGAA	1 cut(s)	898
BpuMI	CCSGG	2 cut(s)	140, 141
BsaJI	CCNNGG	2 cut(s)	139, 735
BsaWI	WCCGGW	1 cut(s)	861
Bsc4I	CCNNNNNNNGG	5 cut(s)	166, 170, 214, 231, 292
Bse1I	ACTGG	1 cut(s)	756
BseBI	CCWGG	2 cut(s)	215, 737
BseDI	CCNNGG	2 cut(s)	139, 735
BseGI	GGATG	2 cut(s)	135, 640
BseLI	CCNNNNNNNGG	5 cut(s)	166, 170, 214, 231, 292
BseMII	CTCAG	1 cut(s)	353
BseNI	ACTGG	1 cut(s)	756
BseXI	GCAGC	2 cut(s)	95, 889
BseYI	CCCAGC	1 cut(s)	344
BsgI	GTGCAG	1 cut(s)	492
Bsh1236I	CGCG	1 cut(s)	55
BshFI	GGCC	2 cut(s)	456, 687
BsiHKAI	GWGCWC	1 cut(s)	354
BsiHKCI	CYCGRG	1 cut(s)	139
BsiSI	CCGG	2 cut(s)	140, 862
BslFI	GGGAC	2 cut(s)	274, 331
BslI	CCNNNNNNNGG	5 cut(s)	166, 170, 214, 231, 292
BsmFI	GGGAC	2 cut(s)	274, 331
BsnI	GGCC	2 cut(s)	456, 687
BsoBI	CYCGRG	1 cut(s)	139
Bsp119I	TTCGAA	1 cut(s)	898
Bsp1286I	GDGCHC	1 cut(s)	354
Bsp143I	GATC	2 cut(s)	610, 864
BspANI	GGCC	2 cut(s)	456, 687
BspCNI	CTCAG	1 cut(s)	352
BspFNI	CGCG	1 cut(s)	55
BspLI	GGNNCC	3 cut(s)	441, 477, 866
BspMAI	CTGCAG	1 cut(s)	879
BspOI	GCTAGC	1 cut(s)	420
BspPI	GGATC	3 cut(s)	605, 859, 872
BspT104I	TTCGAA	1 cut(s)	898
BsrI	ACTGG	1 cut(s)	756
BssECI	CCNNGG	2 cut(s)	139, 735
BssMI	GATC	2 cut(s)	610, 864
Bst2UI	CCWGG	2 cut(s)	215, 737
Bst4CI	ACNGT	1 cut(s)	698
Bst6I	CTCTTC	1 cut(s)	62
BstBI	TTCGAA	1 cut(s)	898
BstC8I	GCNNGC	4 cut(s)	59, 120, 418, 480
BstDEI	CTNAG	2 cut(s)	300, 339
BstEII	GGTNACC	1 cut(s)	280
BstF5I	GGATG	2 cut(s)	135, 640
BstFNI	CGCG	1 cut(s)	55
BstHHI	GCGC	1 cut(s)	57
BstKTI	GATC	2 cut(s)	613, 867
BstMBI	GATC	2 cut(s)	610, 864
BstMWI	GCNNNNNNNGC	4 cut(s)	46, 89, 335, 488
BstNI	CCWGG	2 cut(s)	215, 737
BstPI	GGTNACC	1 cut(s)	280
BstSCI	CCNGG	4 cut(s)	138, 139, 213, 735
BstSFI	CTRYAG	1 cut(s)	875
BstUI	CGCG	1 cut(s)	55
BstV1I	GCAGC	2 cut(s)	95, 889
BstX2I	RGATCY	1 cut(s)	864
BstYI	RGATCY	1 cut(s)	864
BsuI	GTATCC	1 cut(s)	661
BsuRI	GGCC	2 cut(s)	456, 687
BtgZI	GCGATG	2 cut(s)	36, 506
BtsCI	GGATG	2 cut(s)	135, 640
BtsIMutI	CAGTG	2 cut(s)	120, 749
Cac8I	GCNNGC	4 cut(s)	59, 120, 418, 480
CfoI	GCGC	1 cut(s)	57
Cfr9I	CCCGGG	1 cut(s)	139
CviAII	CATG	1 cut(s)	512
DdeI	CTNAG	2 cut(s)	300, 339
DpnI	GATC	2 cut(s)	612, 866
DpnII	GATC	2 cut(s)	610, 864
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
Ecl136II	GAGCTC	1 cut(s)	352
Eco147I	AGGCCT	1 cut(s)	456
Eco24I	GRGCYC	1 cut(s)	354
Eco53kI	GAGCTC	1 cut(s)	352
Eco57I	CTGAAG	3 cut(s)	254, 693, 702
Eco88I	CYCGRG	1 cut(s)	139
Eco91I	GGTNACC	1 cut(s)	280
EcoICRI	GAGCTC	1 cut(s)	352
EcoO65I	GGTNACC	1 cut(s)	280
EcoRI	GAATTC	1 cut(s)	835
EcoRII	CCWGG	2 cut(s)	213, 735
EcoT38I	GRGCYC	1 cut(s)	354
FaeI	CATG	1 cut(s)	515
FaqI	GGGAC	2 cut(s)	274, 331
FatI	CATG	1 cut(s)	511
Fnu4HI	GCNGC	2 cut(s)	84, 878
FokI	GGATG	2 cut(s)	122, 647
FriOI	GRGCYC	1 cut(s)	354
Fsp4HI	GCNGC	2 cut(s)	84, 878
FspBI	CTAG	3 cut(s)	264, 321, 417
GlaI	GCGC	1 cut(s)	56
GluI	GCNGC	2 cut(s)	84, 878
GsaI	CCCAGC	1 cut(s)	348
HaeIII	GGCC	2 cut(s)	456, 687
HapII	CCGG	2 cut(s)	140, 862
HhaI	GCGC	1 cut(s)	57
Hin1II	CATG	1 cut(s)	515
Hin6I	GCGC	1 cut(s)	55
HinP1I	GCGC	1 cut(s)	55
HindIII	AAGCTT	2 cut(s)	675, 803
HinfI	GANTC	5 cut(s)	5, 156, 218, 373, 617
HpaII	CCGG	2 cut(s)	140, 862
HphI	GGTGA	3 cut(s)	292, 344, 757
Hpy188I	TCNGA	2 cut(s)	10, 682
Hpy188III	TCNNGA	2 cut(s)	377, 614
HpyAV	CCTTC	5 cut(s)	467, 511, 548, 677, 806
HpyCH4III	ACNGT	1 cut(s)	698
HpyCH4IV	ACGT	1 cut(s)	529
HpyCH4V	TGCA	7 cut(s)	118, 482, 509, 589, 638, 858, 877
HpyF10VI	GCNNNNNNNGC	4 cut(s)	46, 89, 335, 488
HpyF3I	CTNAG	2 cut(s)	300, 339
HpySE526I	ACGT	1 cut(s)	529
Hsp92II	CATG	1 cut(s)	515
HspAI	GCGC	1 cut(s)	55
Kzo9I	GATC	2 cut(s)	610, 864
LmnI	GCTCC	4 cut(s)	349, 439, 475, 818
Lsp1109I	GCAGC	2 cut(s)	95, 889
LweI	GCATC	1 cut(s)	625
MaeI	CTAG	3 cut(s)	264, 321, 417
MaeII	ACGT	1 cut(s)	529
MaeIII	GTNAC	1 cut(s)	280
MalI	GATC	2 cut(s)	612, 866
MboI	GATC	2 cut(s)	610, 864
MboII	GAAGA	5 cut(s)	29, 79, 85, 412, 617
MflI	RGATCY	1 cut(s)	864
MhlI	GDGCHC	1 cut(s)	354
MluCI	AATT	4 cut(s)	447, 782, 835, 941
MmeI	TCCRAC	1 cut(s)	869
MnlI	CCTC	9 cut(s)	63, 174, 248, 289, 328, 658, 733, 797, 880
MseI	TTAA	3 cut(s)	714, 798, 918
MspA1I	CMGCKG	1 cut(s)	880
MspI	CCGG	2 cut(s)	140, 862
MspR9I	CCNGG	4 cut(s)	140, 141, 215, 737
MvaI	CCWGG	2 cut(s)	215, 737
MvnI	CGCG	1 cut(s)	55
MwoI	GCNNNNNNNGC	4 cut(s)	46, 89, 335, 488
NciI	CCSGG	2 cut(s)	140, 141
NdeII	GATC	2 cut(s)	610, 864
NheI	GCTAGC	1 cut(s)	416
NlaIII	CATG	1 cut(s)	515
NlaIV	GGNNCC	3 cut(s)	441, 477, 866
NmuCI	GTSAC	1 cut(s)	280
NspV	TTCGAA	1 cut(s)	898
PceI	AGGCCT	1 cut(s)	456
PfeI	GAWTC	5 cut(s)	5, 156, 218, 373, 617
PkrI	GCNGC	2 cut(s)	85, 879
PshBI	ATTAAT	1 cut(s)	798
Psp124BI	GAGCTC	1 cut(s)	354
Psp6I	CCWGG	2 cut(s)	213, 735
PspEI	GGTNACC	1 cut(s)	280
PspFI	CCCAGC	1 cut(s)	344
PspGI	CCWGG	2 cut(s)	213, 735
PspN4I	GGNNCC	3 cut(s)	441, 477, 866
PstI	CTGCAG	1 cut(s)	879
PsuI	RGATCY	1 cut(s)	864
PvuII	CAGCTG	1 cut(s)	880
SacI	GAGCTC	1 cut(s)	354
SaqAI	TTAA	3 cut(s)	714, 798, 918
SatI	GCNGC	2 cut(s)	84, 878
Sau3AI	GATC	2 cut(s)	610, 864
ScrFI	CCNGG	4 cut(s)	140, 141, 215, 737
SduI	GDGCHC	1 cut(s)	354
SfaNI	GCATC	1 cut(s)	625
SfcI	CTRYAG	1 cut(s)	875
SfuI	TTCGAA	1 cut(s)	898
SmaI	CCCGGG	1 cut(s)	141
Sse9I	AATT	4 cut(s)	447, 782, 835, 941
SseBI	AGGCCT	1 cut(s)	456
SspI	AATATT	1 cut(s)	922
SspMI	CTAG	3 cut(s)	264, 321, 417
SstI	GAGCTC	1 cut(s)	354
StuI	AGGCCT	1 cut(s)	456
StyD4I	CCNGG	4 cut(s)	138, 139, 213, 735
TaaI	ACNGT	1 cut(s)	698
TaiI	ACGT	1 cut(s)	532
TaqI	TCGA	3 cut(s)	192, 221, 898
TasI	AATT	4 cut(s)	447, 782, 835, 941
TfiI	GAWTC	5 cut(s)	5, 156, 218, 373, 617
Tru1I	TTAA	3 cut(s)	714, 798, 918
Tru9I	TTAA	3 cut(s)	714, 798, 918
TscAI	CASTG	2 cut(s)	120, 756
TseFI	GTSAC	1 cut(s)	280
TseI	GCWGC	2 cut(s)	83, 877
Tsp45I	GTSAC	1 cut(s)	280
TspDTI	ATGAA	1 cut(s)	530
TspMI	CCCGGG	1 cut(s)	139
TspRI	CASTG	2 cut(s)	120, 756
VspI	ATTAAT	1 cut(s)	798
XapI	RAATTY	3 cut(s)	447, 782, 835
XmaI	CCCGGG	1 cut(s)	139
XspI	CTAG	3 cut(s)	264, 321, 417

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