Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0015862

Physical Location & Seq

Genomic Coordinates Forward (+)

63137431 .. 63140868

Gene Structure 3438 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG415300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGGCACCTCCTCGAGGCCGTGGTGGTTCTAGTGGGTTCAGGGGTGGTGGAAGGAGTGATGGAGGGAGAGGCCGAGGTGGAGGCCGAGGATTTGGTGACAGAAGTAACAGTGGTTTTAAGCCCAGTGGAGGCCGAGGTGACCGTGGTGGTCGGGGCCGTGGTGACCGCGGCCGTGGAAGAGGCCGTGGGGGCAGAGGAGGAATGAAGGGCGGAACTAAGGTTGTGGTTGAGCCCCATAGACATGCTGGGGTTTTCCTTGCTAAGGGTAAAGAAGATGCTCTTGTGACCAAGAACATGGTCCCCGGAGAAGCTGTCTATAATGAGAAGAGGATTTCCGTTCAGCAAGAGGATGGAACAAAAGTTGAGTATAGGATTTGGAACCCTTTCCGTTCCAAGCTGGCAGCTACTATTCTTGGTGGTGTTGATGAGATCTGGATTAAACCTGGTGCCAGGGTTCTCTACCTGGGGGCTGCTTCTGGTACCACAGTCTCTCATGTCTCCGACATTGTTGGCCCTACTGGATGTGTCTATGCAGTGGAGTTTTCTCATAGAAGTGGCAGAGACTTGGTAAACATGGCTAAGAAGAGAACTAATGTCATACCAATTATTGAAGATGCTAGGCATCCAGCGAAGTACCGTATGCTTGTTGGCATGGTTGACGTGGTATTTTCTGATGTTGCACAACCCGATCAGGTTTGTTTCTTGAAATTTGTTTTAGCTAACCGTGAACTTGGTGATAATTCTGTTATTATGTGGTTGATGGTTGCTTATGTCTTCATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0000494 GO:0001510 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005732 GO:0006139 GO:0006325 GO:0006364 GO:0006396 GO:0006464 GO:0006479 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0008168 GO:0008170 GO:0008173 GO:0008213 GO:0008276 GO:0008649 GO:0008757 GO:0009451 GO:0009987 GO:0010467 GO:0015030 GO:0016020 GO:0016043 GO:0016070 GO:0016072 GO:0016074 GO:0016569 GO:0016570 GO:0016571 GO:0016592 GO:0016604 GO:0016740 GO:0016741 GO:0016787 GO:0016788 GO:0018364 GO:0019538 GO:0022613 GO:0030515 GO:0030684 GO:0031123 GO:0031126 GO:0031167 GO:0031428 GO:0031974 GO:0031981 GO:0032040 GO:0032259 GO:0032991 GO:0033967 GO:0034470 GO:0034641 GO:0034660 GO:0034963 GO:0036009 GO:0036211 GO:0042054 GO:0042254 GO:0043144 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0043414 GO:0043628 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0051276 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140096 GO:0140098 GO:0140102 GO:1901360 GO:1901363 GO:1901564 GO:1990258 GO:1990259 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

Fibrillarin

Protein Analysis

260

Amino Acids

27.86

Weight (kDa)

10.41

Isoelectric Point (pI)

24.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Fibrillarin	PF01269	76 - 234	2.4e-76	Fibrillarin

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0015862)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G52470
fragaria_vesca	FvH4_7g30020
rosa_chinensis	RchiOBHm_Chr1g0377981
rosa_laevigata	RLG00000026480
rosa_multiflora	Rmu_sc0002068.1_g000004
rosa_roxburghii	Rroxscaffold_156G00440430 Rroxscaffold_4G00280860
rosa_rugosa	Rorug01G0406000 Rorug01G0406000 Rorug02G0371900
rosa_samantha	Rh1AG425300 Rh1BG384000 Rh1CG397800 Rh1DG415300
rosa_wichuraiana	Rw1G037300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AbsI	CCTCGAGG	1 cut(s)	12
Acc65I	GGTACC	1 cut(s)	479
AccB1I	GGYRCC	3 cut(s)	4, 446, 479
AccII	CGCG	1 cut(s)	168
AciI	CCGC	3 cut(s)	166, 168, 210
AcoI	YGGCCR	1 cut(s)	169
AcsI	RAATTY	1 cut(s)	707
AfaI	GTAC	2 cut(s)	481, 635
AfiI	CCNNNNNNNGG	3 cut(s)	14, 128, 262
AgsI	TTSAA	2 cut(s)	611, 706
AjiI	CACGTC	1 cut(s)	661
AjnI	CCWGG	3 cut(s)	442, 449, 462
AluBI	AGCT	4 cut(s)	311, 397, 404, 719
AluI	AGCT	4 cut(s)	311, 397, 404, 719
Alw26I	GTCTC	3 cut(s)	493, 502, 555
Ama87I	CYCGRG	1 cut(s)	12
AoxI	GGCC	8 cut(s)	16, 70, 82, 130, 154, 169, 181, 511
ApeKI	GCWGC	2 cut(s)	401, 470
ApoI	RAATTY	1 cut(s)	707
Asp700I	GAANNNNTTC	1 cut(s)	383
Asp718I	GGTACC	1 cut(s)	479
AspS9I	GGNCC	3 cut(s)	154, 298, 512
AsuC2I	CCSGG	1 cut(s)	303
AsuHPI	GGTGA	4 cut(s)	107, 149, 173, 746
AvaI	CYCGRG	1 cut(s)	12
AvaII	GGWCC	1 cut(s)	298
BaeI	ACNNNNGTAYC	2 cut(s)	471, 504
BanI	GGYRCC	3 cut(s)	4, 446, 479
BanII	GRGCYC	1 cut(s)	234
BbsI	GAAGAC	1 cut(s)	766
BbvI	GCAGC	2 cut(s)	413, 457
BccI	CCATC	3 cut(s)	53, 344, 754
BceAI	ACGGC	4 cut(s)	3, 141, 156, 168
BciT130I	CCWGG	3 cut(s)	444, 451, 464
BcnI	CCSGG	1 cut(s)	303
BcoDI	GTCTC	3 cut(s)	493, 502, 555
BfaI	CTAG	2 cut(s)	30, 618
BglI	GCCNNNNNGGC	1 cut(s)	189
BglII	AGATCT	1 cut(s)	429
BisI	GCNGC	3 cut(s)	169, 402, 471
BlsI	GCNGC	3 cut(s)	170, 403, 472
Bme1390I	CCNGG	4 cut(s)	303, 444, 451, 464
Bme18I	GGWCC	1 cut(s)	298
BmeT110I	CYCGRG	1 cut(s)	12
BmgBI	CACGTC	1 cut(s)	661
BmgT120I	GGNCC	3 cut(s)	154, 298, 512
BmiI	GGNNCC	6 cut(s)	6, 155, 300, 380, 448, 481
BmrFI	CCNGG	4 cut(s)	303, 444, 451, 464
BmrI	ACTGGG	1 cut(s)	117
BmsI	GCATC	3 cut(s)	265, 604, 631
BmuI	ACTGGG	1 cut(s)	117
BpiI	GAAGAC	1 cut(s)	766
Bpu10I	CCTNAGC	1 cut(s)	261
BpuMI	CCSGG	1 cut(s)	303
BsaXI	ACNNNNNCTCC	2 cut(s)	297, 327
Bsc4I	CCNNNNNNNGG	3 cut(s)	14, 128, 262
Bse1I	ACTGG	2 cut(s)	123, 523
BseBI	CCWGG	3 cut(s)	444, 451, 464
BseGI	GGATG	3 cut(s)	355, 527, 622
BseLI	CCNNNNNNNGG	3 cut(s)	14, 128, 262
BseNI	ACTGG	2 cut(s)	123, 523
BseRI	GAGGAG	1 cut(s)	210
BseX3I	CGGCCG	1 cut(s)	169
BseXI	GCAGC	2 cut(s)	413, 457
BseYI	CCCAGC	1 cut(s)	245
Bsh1236I	CGCG	1 cut(s)	168
Bsh1285I	CGRYCG	1 cut(s)	172
BshFI	GGCC	8 cut(s)	18, 72, 84, 132, 156, 171, 183, 513
BshNI	GGYRCC	3 cut(s)	4, 446, 479
BsiEI	CGRYCG	1 cut(s)	172
BsiHKCI	CYCGRG	1 cut(s)	12
BsiSI	CCGG	1 cut(s)	303
BslFI	GGGAC	1 cut(s)	284
BslI	CCNNNNNNNGG	3 cut(s)	14, 128, 262
BsmAI	GTCTC	3 cut(s)	493, 502, 555
BsmFI	GGGAC	1 cut(s)	284
BsnI	GGCC	8 cut(s)	18, 72, 84, 132, 156, 171, 183, 513
BsoBI	CYCGRG	1 cut(s)	12
Bsp1286I	GDGCHC	1 cut(s)	234
Bsp143I	GATC	2 cut(s)	429, 688
BspACI	CCGC	3 cut(s)	166, 168, 210
BspANI	GGCC	8 cut(s)	18, 72, 84, 132, 156, 171, 183, 513
BspFNI	CGCG	1 cut(s)	168
BspLI	GGNNCC	6 cut(s)	6, 155, 300, 380, 448, 481
BspT107I	GGYRCC	3 cut(s)	4, 446, 479
BsrI	ACTGG	2 cut(s)	123, 523
BssMI	GATC	2 cut(s)	429, 688
Bst2UI	CCWGG	3 cut(s)	444, 451, 464
Bst4CI	ACNGT	5 cut(s)	110, 143, 487, 638, 725
Bst6I	CTCTTC	3 cut(s)	172, 320, 578
BstC8I	GCNNGC	1 cut(s)	399
BstDEI	CTNAG	3 cut(s)	216, 261, 579
BstDSI	CCRYGG	6 cut(s)	19, 142, 157, 166, 172, 184
BstEII	GGTNACC	2 cut(s)	137, 161
BstENI	CCTNNNNNAGG	2 cut(s)	12, 260
BstF5I	GGATG	3 cut(s)	355, 527, 622
BstFNI	CGCG	1 cut(s)	168
BstKTI	GATC	2 cut(s)	432, 691
BstMAI	GTCTC	3 cut(s)	493, 502, 555
BstMBI	GATC	2 cut(s)	429, 688
BstMCI	CGRYCG	1 cut(s)	172
BstMWI	GCNNNNNNNGC	1 cut(s)	189
BstNI	CCWGG	3 cut(s)	444, 451, 464
BstNSI	RCATGY	1 cut(s)	245
BstPI	GGTNACC	2 cut(s)	137, 161
BstSCI	CCNGG	4 cut(s)	301, 442, 449, 462
BstUI	CGCG	1 cut(s)	168
BstV1I	GCAGC	2 cut(s)	413, 457
BstV2I	GAAGAC	1 cut(s)	766
BstX2I	RGATCY	1 cut(s)	429
BstXI	CCANNNNNNTGG	1 cut(s)	295
BstYI	RGATCY	1 cut(s)	429
BstZI	CGGCCG	1 cut(s)	169
BsuRI	GGCC	8 cut(s)	18, 72, 84, 132, 156, 171, 183, 513
BtgI	CCRYGG	6 cut(s)	19, 142, 157, 166, 172, 184
BtrI	CACGTC	1 cut(s)	661
BtsCI	GGATG	3 cut(s)	355, 527, 622
BtsI	GCAGTG	1 cut(s)	540
BtsIMutI	CAGTG	3 cut(s)	115, 130, 540
Cac8I	GCNNGC	1 cut(s)	399
Cfr13I	GGNCC	3 cut(s)	154, 298, 512
Cfr42I	CCGCGG	1 cut(s)	169
CsiI	ACCWGGT	1 cut(s)	442
Csp6I	GTAC	2 cut(s)	480, 634
CviAII	CATG	5 cut(s)	242, 295, 494, 574, 652
CviQI	GTAC	2 cut(s)	480, 634
DdeI	CTNAG	3 cut(s)	216, 261, 579
DpnI	GATC	2 cut(s)	431, 690
DpnII	GATC	2 cut(s)	429, 688
EaeI	YGGCCR	1 cut(s)	169
EagI	CGGCCG	1 cut(s)	169
Eam1104I	CTCTTC	3 cut(s)	172, 320, 578
EarI	CTCTTC	3 cut(s)	172, 320, 578
EciI	GGCGGA	1 cut(s)	225
EclXI	CGGCCG	1 cut(s)	169
Eco24I	GRGCYC	1 cut(s)	234
Eco47I	GGWCC	1 cut(s)	298
Eco52I	CGGCCG	1 cut(s)	169
Eco88I	CYCGRG	1 cut(s)	12
Eco91I	GGTNACC	2 cut(s)	137, 161
EcoNI	CCTNNNNNAGG	2 cut(s)	12, 260
EcoO65I	GGTNACC	2 cut(s)	137, 161
EcoRII	CCWGG	3 cut(s)	442, 449, 462
EcoT38I	GRGCYC	1 cut(s)	234
FaeI	CATG	5 cut(s)	245, 298, 497, 577, 655
FalI	AAGNNNNNCTT	2 cut(s)	264, 296
FaqI	GGGAC	1 cut(s)	284
FatI	CATG	5 cut(s)	241, 294, 493, 573, 651
Fnu4HI	GCNGC	3 cut(s)	169, 402, 471
FokI	GGATG	3 cut(s)	362, 534, 609
FriOI	GRGCYC	1 cut(s)	234
Fsp4HI	GCNGC	3 cut(s)	169, 402, 471
FspBI	CTAG	2 cut(s)	30, 618
GluI	GCNGC	3 cut(s)	169, 402, 471
GsaI	CCCAGC	1 cut(s)	249
HaeIII	GGCC	8 cut(s)	18, 72, 84, 132, 156, 171, 183, 513
HapII	CCGG	1 cut(s)	303
Hin1II	CATG	5 cut(s)	245, 298, 497, 577, 655
HincII	GTYRAC	1 cut(s)	658
HindII	GTYRAC	1 cut(s)	658
HpaII	CCGG	1 cut(s)	303
HphI	GGTGA	4 cut(s)	107, 149, 173, 746
Hpy166II	GTNNAC	3 cut(s)	571, 658, 728
Hpy188I	TCNGA	2 cut(s)	502, 673
Hpy188III	TCNNGA	2 cut(s)	433, 703
Hpy8I	GTNNAC	3 cut(s)	571, 658, 728
HpyAV	CCTTC	2 cut(s)	45, 199
HpyCH4III	ACNGT	5 cut(s)	110, 143, 487, 638, 725
HpyCH4IV	ACGT	1 cut(s)	660
HpyCH4V	TGCA	2 cut(s)	533, 680
HpyF10VI	GCNNNNNNNGC	1 cut(s)	189
HpyF3I	CTNAG	3 cut(s)	216, 261, 579
HpySE526I	ACGT	1 cut(s)	660
Hsp92II	CATG	5 cut(s)	245, 298, 497, 577, 655
KpnI	GGTACC	1 cut(s)	483
KspI	CCGCGG	1 cut(s)	169
Kzo9I	GATC	2 cut(s)	429, 688
Lsp1109I	GCAGC	2 cut(s)	413, 457
LweI	GCATC	3 cut(s)	265, 604, 631
MabI	ACCWGGT	1 cut(s)	442
MaeI	CTAG	2 cut(s)	30, 618
MaeII	ACGT	1 cut(s)	660
MaeIII	GTNAC	5 cut(s)	95, 104, 137, 161, 283
MalI	GATC	2 cut(s)	431, 690
MboI	GATC	2 cut(s)	429, 688
MboII	GAAGA	6 cut(s)	189, 284, 337, 595, 623, 766
MflI	RGATCY	1 cut(s)	429
MhlI	GDGCHC	1 cut(s)	234
MluCI	AATT	3 cut(s)	603, 707, 739
MmeI	TCCRAC	1 cut(s)	525
MroXI	GAANNNNTTC	1 cut(s)	383
MseI	TTAA	2 cut(s)	117, 438
MslI	CAYNNNNRTG	2 cut(s)	240, 552
MspA1I	CMGCKG	1 cut(s)	168
MspI	CCGG	1 cut(s)	303
MspR9I	CCNGG	4 cut(s)	303, 444, 451, 464
MvaI	CCWGG	3 cut(s)	444, 451, 464
MvnI	CGCG	1 cut(s)	168
MwoI	GCNNNNNNNGC	1 cut(s)	189
NciI	CCSGG	1 cut(s)	303
NdeII	GATC	2 cut(s)	429, 688
NlaIII	CATG	5 cut(s)	245, 298, 497, 577, 655
NlaIV	GGNNCC	6 cut(s)	6, 155, 300, 380, 448, 481
NmeAIII	GCCGAG	3 cut(s)	98, 110, 158
NmuCI	GTSAC	4 cut(s)	95, 137, 161, 283
NspI	RCATGY	1 cut(s)	245
PaeR7I	CTCGAG	1 cut(s)	12
PdmI	GAANNNNTTC	1 cut(s)	383
PkrI	GCNGC	3 cut(s)	170, 403, 472
Psp6I	CCWGG	3 cut(s)	442, 449, 462
PspEI	GGTNACC	2 cut(s)	137, 161
PspFI	CCCAGC	1 cut(s)	245
PspGI	CCWGG	3 cut(s)	442, 449, 462
PspN4I	GGNNCC	6 cut(s)	6, 155, 300, 380, 448, 481
PspPI	GGNCC	3 cut(s)	154, 298, 512
PspXI	VCTCGAGB	1 cut(s)	12
PsuI	RGATCY	1 cut(s)	429
RsaI	GTAC	2 cut(s)	481, 635
RsaNI	GTAC	2 cut(s)	480, 634
RseI	CAYNNNNRTG	2 cut(s)	240, 552
SacII	CCGCGG	1 cut(s)	169
SaqAI	TTAA	2 cut(s)	117, 438
SatI	GCNGC	3 cut(s)	169, 402, 471
Sau3AI	GATC	2 cut(s)	429, 688
Sau96I	GGNCC	3 cut(s)	154, 298, 512
ScrFI	CCNGG	4 cut(s)	303, 444, 451, 464
SduI	GDGCHC	1 cut(s)	234
SexAI	ACCWGGT	1 cut(s)	442
SfaNI	GCATC	3 cut(s)	265, 604, 631
Sfr274I	CTCGAG	1 cut(s)	12
Sfr303I	CCGCGG	1 cut(s)	169
SgrBI	CCGCGG	1 cut(s)	169
SinI	GGWCC	1 cut(s)	298
SlaI	CTCGAG	1 cut(s)	12
SmiMI	CAYNNNNRTG	2 cut(s)	240, 552
SmlI	CTYRAG	1 cut(s)	12
SmoI	CTYRAG	1 cut(s)	12
Sse9I	AATT	3 cut(s)	603, 707, 739
SsiI	CCGC	3 cut(s)	166, 168, 210
SspMI	CTAG	2 cut(s)	30, 618
StyD4I	CCNGG	4 cut(s)	301, 442, 449, 462
TaaI	ACNGT	5 cut(s)	110, 143, 487, 638, 725
TaiI	ACGT	1 cut(s)	663
TaqI	TCGA	1 cut(s)	13
TasI	AATT	3 cut(s)	603, 707, 739
TauI	GCSGC	1 cut(s)	171
Tru1I	TTAA	2 cut(s)	117, 438
Tru9I	TTAA	2 cut(s)	117, 438
TscAI	CASTG	3 cut(s)	115, 130, 540
TseFI	GTSAC	4 cut(s)	95, 137, 161, 283
TseI	GCWGC	2 cut(s)	401, 470
Tsp45I	GTSAC	4 cut(s)	95, 137, 161, 283
TspDTI	ATGAA	2 cut(s)	218, 766
TspGWI	ACGGA	2 cut(s)	325, 377
TspRI	CASTG	3 cut(s)	115, 130, 540
VpaK11BI	GGWCC	1 cut(s)	298
XagI	CCTNNNNNAGG	2 cut(s)	12, 260
XapI	RAATTY	1 cut(s)	707
XceI	RCATGY	1 cut(s)	245
XcmI	CCANNNNNNNNNTGG	1 cut(s)	242
XhoI	CTCGAG	1 cut(s)	12
XmnI	GAANNNNTTC	1 cut(s)	383
XspI	CTAG	2 cut(s)	30, 618

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