Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0017335

Physical Location & Seq

Genomic Coordinates Reverse (-)

27260287 .. 27261755

Gene Structure 1469 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG277700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGCTTCTTCTCGCCGGATTTTCGTTGGGAACATCCCTTATGATGCCACCGAGCAACAGGTCAAGGCTCTCTGCGAGGAGGTTGGCCCTGTTGTGACTTTCAGATTGGTTACAGATAAAGACACCGGGAAGCCAAAGGGTTTTGGGTTCTGTGAGTACAGGGATGAAGCGACGGCGTTTAGTGCGCTGCGGAATCTTCAGGATTGTGAGCTCAATGGCCGGCGTTTGAAGGTTAATTTTGCTGCTAATGAGAAGGCCAATCATCAGCCGATTGGTCTCCAAGCAGCTGTTGATGCAGCCGCCGCAATGGCGGGAGCTCTAGGTGGTTCTCAGCAGCAGCAGGCATTGGCTAATGATCCTTTGACAGTCCATCTGTCCAAAATGTCGAGGAATCAGTTGGCGCAAATGGTCTCGGAGATGAAGGGAATTGCTGTGGAAAATAAGGAGATGGCTCAGGAGCTGTTGCTTGAAAAGCCGCAGTTAAACAGGGCTCTGCTTCAGGCACAAATGATGCTAGGAATGGTCACACCACAAATGTTGGGACAGGTTAATATGAGGCCAATGCCTCCCTTCAATAATGGCCAGCCGCAGCCGCAGCAGCAGCAGCTCGTTCCAAAATCGGAACCAGTACAGATCTCGGAGCCTCAGACTCTGGTCACCCCACAAATGATGCAAAAGAGGTCAATGCCTCCATTCAATATTGGCCAGCAGCAGCAGCAGCAAGTTCCAAAATCAGAACCAGTGCAAATCTCTGAGCCTCAGATTCTTCCACCGGGAGTGGACCCTGCTTTATTGCAACAAGTTTTGAGCCTACCTCCTGAAACGGTGGCTTCGTTGGCACCGGAACTGCGACAACAAGTCATTCAACTCCAACAGATGTATAGGCAAGATCAGAGGATCCCTTGCAGCAGTGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005847 GO:0005849 GO:0006139 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016604 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071920 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0098787 GO:0098789 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

CSTF2_hinge CSTF_C RRM_1

Protein Analysis

305

Amino Acids

33.64

Weight (kDa)

6.76

Isoelectric Point (pI)

66.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	7 - 77	2.4e-20	RNA recognition motif
CSTF2_hinge	PF14327	112 - 183	2.3e-14	Hinge domain of cleavage stimulation factor subunit 2
CSTF_C	PF14304	263 - 296	2.1e-07	Transcription termination and cleavage factor C-terminal

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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Publication-ready

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Orthologous Genes (Group: OG0017335)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g22940 FvH4_6g23390
rosa_chinensis	RchiOBHm_Chr3g0481441
rosa_laevigata	RLG00000023400
rosa_multiflora	Rmu_sc0000064.1_g000026 Rmu_sc0021886.1_g000005
rosa_roxburghii	Rroxscaffold_6G00400450
rosa_rugosa	Rorug03G0191800
rosa_samantha	Rh3AG242700 Rh3BG277700 Rh3CG272700 Rh3DG269700
rosa_wichuraiana	Rw3G021690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	838
AciI	CCGC	7 cut(s)	190, 300, 303, 311, 476, 587, 593
AclWI	GGATC	3 cut(s)	350, 892, 905
AcoI	YGGCCR	3 cut(s)	217, 580, 703
AcuI	CTGAAG	2 cut(s)	182, 482
AfaI	GTAC	2 cut(s)	158, 630
AgsI	TTSAA	5 cut(s)	229, 470, 574, 697, 866
AhdI	GACNNNNNGTC	1 cut(s)	857
AluBI	AGCT	5 cut(s)	211, 287, 317, 460, 607
AluI	AGCT	5 cut(s)	211, 287, 317, 460, 607
Alw21I	GWGCWC	2 cut(s)	213, 319
Alw26I	GTCTC	2 cut(s)	281, 415
AlwI	GGATC	3 cut(s)	350, 892, 905
AlwNI	CAGNNNCTG	2 cut(s)	460, 652
AoxI	GGCC	6 cut(s)	85, 217, 255, 557, 580, 703
AspLEI	GCGC	2 cut(s)	187, 403
AspS9I	GGNCC	2 cut(s)	86, 781
AsuC2I	CCSGG	2 cut(s)	127, 774
AsuHPI	GGTGA	1 cut(s)	649
AvaII	GGWCC	1 cut(s)	781
BalI	TGGCCA	2 cut(s)	582, 705
BamHI	GGATCC	1 cut(s)	897
BanI	GGYRCC	1 cut(s)	838
BanII	GRGCYC	3 cut(s)	213, 319, 493
Bbv12I	GWGCWC	2 cut(s)	213, 319
BccI	CCATC	2 cut(s)	378, 442
BceAI	ACGGC	1 cut(s)	189
BcnI	CCSGG	2 cut(s)	127, 774
BcoDI	GTCTC	2 cut(s)	281, 415
BfaI	CTAG	2 cut(s)	320, 515
BglI	GCCNNNNNGGC	1 cut(s)	308
BglII	AGATCT	1 cut(s)	633
Bme1390I	CCNGG	2 cut(s)	127, 774
Bme18I	GGWCC	1 cut(s)	781
BmeRI	GACNNNNNGTC	1 cut(s)	857
BmgT120I	GGNCC	2 cut(s)	86, 781
BmiI	GGNNCC	5 cut(s)	624, 642, 783, 840, 899
BmrFI	CCNGG	2 cut(s)	127, 774
BmsI	GCATC	4 cut(s)	34, 283, 501, 660
BoxI	GACNNNNGTC	1 cut(s)	653
BplI	GAGNNNNNCTC	2 cut(s)	799, 831
Bpu10I	CCTNAGC	1 cut(s)	453
BpuMI	CCSGG	2 cut(s)	127, 774
BsaI	GGTCTC	2 cut(s)	281, 415
BsaWI	WCCGGW	1 cut(s)	841
Bse118I	RCCGGY	1 cut(s)	219
Bse1I	ACTGG	2 cut(s)	626, 740
Bse3DI	GCAATG	1 cut(s)	312
BseGI	GGATG	2 cut(s)	33, 169
BseMI	GCAATG	1 cut(s)	312
BseMII	CTCAG	5 cut(s)	344, 467, 659, 744, 773
BseNI	ACTGG	2 cut(s)	626, 740
BseRI	GAGGAG	1 cut(s)	92
BshFI	GGCC	6 cut(s)	87, 219, 257, 559, 582, 705
BshNI	GGYRCC	1 cut(s)	838
BsiHKAI	GWGCWC	2 cut(s)	213, 319
BsiSI	CCGG	5 cut(s)	16, 126, 220, 773, 842
BslFI	GGGAC	1 cut(s)	555
BsmAI	GTCTC	2 cut(s)	281, 415
BsmFI	GGGAC	1 cut(s)	555
BsnI	GGCC	6 cut(s)	87, 219, 257, 559, 582, 705
Bso31I	GGTCTC	2 cut(s)	281, 415
Bsp1286I	GDGCHC	3 cut(s)	213, 319, 493
Bsp143I	GATC	4 cut(s)	355, 633, 889, 897
BspACI	CCGC	7 cut(s)	190, 300, 303, 311, 476, 587, 593
BspANI	GGCC	6 cut(s)	87, 219, 257, 559, 582, 705
BspCNI	CTCAG	5 cut(s)	343, 466, 658, 745, 772
BspLI	GGNNCC	5 cut(s)	624, 642, 783, 840, 899
BspPI	GGATC	3 cut(s)	350, 892, 905
BspT107I	GGYRCC	1 cut(s)	838
BspTNI	GGTCTC	2 cut(s)	281, 415
BsrDI	GCAATG	1 cut(s)	312
BsrFI	RCCGGY	1 cut(s)	219
BsrI	ACTGG	2 cut(s)	626, 740
BssAI	RCCGGY	1 cut(s)	219
BssMI	GATC	4 cut(s)	355, 633, 889, 897
Bst4CI	ACNGT	2 cut(s)	367, 826
BstC8I	GCNNGC	4 cut(s)	221, 342, 584, 707
BstDEI	CTNAG	5 cut(s)	330, 453, 645, 753, 759
BstEII	GGTNACC	1 cut(s)	655
BstF5I	GGATG	2 cut(s)	33, 169
BstHHI	GCGC	2 cut(s)	187, 403
BstKTI	GATC	4 cut(s)	358, 636, 892, 900
BstMAI	GTCTC	2 cut(s)	281, 415
BstMBI	GATC	4 cut(s)	355, 633, 889, 897
BstPAI	GACNNNNGTC	1 cut(s)	653
BstPI	GGTNACC	1 cut(s)	655
BstSCI	CCNGG	2 cut(s)	125, 772
BstX2I	RGATCY	2 cut(s)	633, 897
BstYI	RGATCY	2 cut(s)	633, 897
BsuRI	GGCC	6 cut(s)	87, 219, 257, 559, 582, 705
BtsCI	GGATG	2 cut(s)	33, 169
BtsI	GCAGTG	1 cut(s)	916
BtsIMutI	CAGTG	2 cut(s)	747, 916
Cac8I	GCNNGC	4 cut(s)	221, 342, 584, 707
CaiI	CAGNNNCTG	2 cut(s)	460, 652
CfoI	GCGC	2 cut(s)	187, 403
Cfr10I	RCCGGY	1 cut(s)	219
Cfr13I	GGNCC	2 cut(s)	86, 781
Csp6I	GTAC	2 cut(s)	157, 629
CspCI	CAANNNNNGTGG	2 cut(s)	519, 554
CviQI	GTAC	2 cut(s)	157, 629
DdeI	CTNAG	5 cut(s)	330, 453, 645, 753, 759
DpnI	GATC	4 cut(s)	357, 635, 891, 899
DpnII	GATC	4 cut(s)	355, 633, 889, 897
DriI	GACNNNNNGTC	1 cut(s)	857
EaeI	YGGCCR	3 cut(s)	217, 580, 703
Eam1105I	GACNNNNNGTC	1 cut(s)	857
Ecl136II	GAGCTC	2 cut(s)	211, 317
Eco24I	GRGCYC	3 cut(s)	213, 319, 493
Eco31I	GGTCTC	2 cut(s)	281, 415
Eco47I	GGWCC	1 cut(s)	781
Eco53kI	GAGCTC	2 cut(s)	211, 317
Eco57I	CTGAAG	2 cut(s)	182, 482
Eco91I	GGTNACC	1 cut(s)	655
EcoICRI	GAGCTC	2 cut(s)	211, 317
EcoO65I	GGTNACC	1 cut(s)	655
EcoT38I	GRGCYC	3 cut(s)	213, 319, 493
FaiI	YATR	3 cut(s)	42, 554, 882
FaqI	GGGAC	1 cut(s)	555
FauI	CCCGC	1 cut(s)	304
FokI	GGATG	2 cut(s)	20, 176
FriOI	GRGCYC	3 cut(s)	213, 319, 493
FspBI	CTAG	2 cut(s)	320, 515
GlaI	GCGC	2 cut(s)	186, 402
HaeIII	GGCC	6 cut(s)	87, 219, 257, 559, 582, 705
HapII	CCGG	5 cut(s)	16, 126, 220, 773, 842
HhaI	GCGC	2 cut(s)	187, 403
Hin6I	GCGC	2 cut(s)	185, 401
HinP1I	GCGC	2 cut(s)	185, 401
HinfI	GANTC	4 cut(s)	193, 391, 649, 763
HpaII	CCGG	5 cut(s)	16, 126, 220, 773, 842
HphI	GGTGA	1 cut(s)	649
Hpy166II	GTNNAC	1 cut(s)	781
Hpy188I	TCNGA	9 cut(s)	104, 415, 622, 640, 648, 736, 754, 762, 894
Hpy188III	TCNNGA	3 cut(s)	200, 455, 818
Hpy8I	GTNNAC	1 cut(s)	781
Hpy99I	CGWCG	1 cut(s)	175
HpyAV	CCTTC	4 cut(s)	223, 247, 415, 580
HpyCH4III	ACNGT	2 cut(s)	367, 826
HpyCH4V	TGCA	5 cut(s)	296, 673, 745, 796, 906
HpyF3I	CTNAG	5 cut(s)	330, 453, 645, 753, 759
HspAI	GCGC	2 cut(s)	185, 401
KroI	GCCGGC	1 cut(s)	219
KroNI	GCCGGC	1 cut(s)	221
Kzo9I	GATC	4 cut(s)	355, 633, 889, 897
LmnI	GCTCC	3 cut(s)	314, 457, 640
LweI	GCATC	4 cut(s)	34, 283, 501, 660
MaeI	CTAG	2 cut(s)	320, 515
MaeIII	GTNAC	4 cut(s)	94, 109, 523, 655
MalI	GATC	4 cut(s)	357, 635, 891, 899
MboI	GATC	4 cut(s)	355, 633, 889, 897
MboII	GAAGA	2 cut(s)	188, 758
MflI	RGATCY	2 cut(s)	633, 897
MhlI	GDGCHC	3 cut(s)	213, 319, 493
MlsI	TGGCCA	2 cut(s)	582, 705
MluCI	AATT	2 cut(s)	235, 426
MluNI	TGGCCA	2 cut(s)	582, 705
MlyI	GAGTC	1 cut(s)	643
MmeI	TCCRAC	1 cut(s)	895
Mox20I	TGGCCA	2 cut(s)	582, 705
MroNI	GCCGGC	1 cut(s)	219
MscI	TGGCCA	2 cut(s)	582, 705
MseI	TTAA	3 cut(s)	234, 482, 549
Msp20I	TGGCCA	2 cut(s)	582, 705
MspA1I	CMGCKG	1 cut(s)	287
MspI	CCGG	5 cut(s)	16, 126, 220, 773, 842
MspR9I	CCNGG	2 cut(s)	127, 774
NaeI	GCCGGC	1 cut(s)	221
NciI	CCSGG	2 cut(s)	127, 774
NdeII	GATC	4 cut(s)	355, 633, 889, 897
NgoMIV	GCCGGC	1 cut(s)	219
NlaIV	GGNNCC	5 cut(s)	624, 642, 783, 840, 899
NmuCI	GTSAC	3 cut(s)	94, 523, 655
PcsI	WCGNNNNNNNCGW	1 cut(s)	830
PdiI	GCCGGC	1 cut(s)	221
PfeI	GAWTC	3 cut(s)	193, 391, 763
PleI	GAGTC	1 cut(s)	643
PpsI	GAGTC	1 cut(s)	643
PshAI	GACNNNNGTC	1 cut(s)	653
Psp124BI	GAGCTC	2 cut(s)	213, 319
PspEI	GGTNACC	1 cut(s)	655
PspN4I	GGNNCC	5 cut(s)	624, 642, 783, 840, 899
PspPI	GGNCC	2 cut(s)	86, 781
PstNI	CAGNNNCTG	2 cut(s)	460, 652
PsuI	RGATCY	2 cut(s)	633, 897
PvuII	CAGCTG	1 cut(s)	287
RsaI	GTAC	2 cut(s)	158, 630
RsaNI	GTAC	2 cut(s)	157, 629
SacI	GAGCTC	2 cut(s)	213, 319
SaqAI	TTAA	3 cut(s)	234, 482, 549
Sau3AI	GATC	4 cut(s)	355, 633, 889, 897
Sau96I	GGNCC	2 cut(s)	86, 781
SchI	GAGTC	1 cut(s)	643
ScrFI	CCNGG	2 cut(s)	127, 774
SduI	GDGCHC	3 cut(s)	213, 319, 493
SfaNI	GCATC	4 cut(s)	34, 283, 501, 660
SinI	GGWCC	1 cut(s)	781
Sse9I	AATT	2 cut(s)	235, 426
SsiI	CCGC	7 cut(s)	190, 300, 303, 311, 476, 587, 593
SspI	AATATT	1 cut(s)	700
SspMI	CTAG	2 cut(s)	320, 515
SstI	GAGCTC	2 cut(s)	213, 319
StyD4I	CCNGG	2 cut(s)	125, 772
TaaI	ACNGT	2 cut(s)	367, 826
TaqI	TCGA	1 cut(s)	386
TasI	AATT	2 cut(s)	235, 426
TatI	WGTACW	2 cut(s)	156, 628
TauI	GCSGC	5 cut(s)	302, 305, 478, 589, 595
TfiI	GAWTC	3 cut(s)	193, 391, 763
Tru1I	TTAA	3 cut(s)	234, 482, 549
Tru9I	TTAA	3 cut(s)	234, 482, 549
TscAI	CASTG	2 cut(s)	747, 916
TseFI	GTSAC	3 cut(s)	94, 523, 655
Tsp45I	GTSAC	3 cut(s)	94, 523, 655
TspDTI	ATGAA	2 cut(s)	180, 434
TspRI	CASTG	2 cut(s)	747, 916
VpaK11BI	GGWCC	1 cut(s)	781
XspI	CTAG	2 cut(s)	320, 515

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