Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0010344

Physical Location & Seq

Genomic Coordinates Reverse (-)

3439824 .. 3442166

Gene Structure 2343 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG043400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 780 bp

ATGAATTTTTCTGATCAAACATCGTTTATGCCGGTCCAATCACTTTATGTTGGAGGCAGTGATGCTGTTAATTGCTGGCCCCCTTTCCCTATGAACAATGAAGATCACCATTCTCAGTTTGAGCAGCAAGCTCCACCCTTTAAGAGACCTCGAAATTCCGAAGAACCCCAATCGAATCCGATGCCATACCCGCCTATGAACAACTCTAGAGTGCACCCACCGAATGCTCCGGTTAATAGAGGAGCAAACAACATTTTTTACAAGACTCGTCTGTGTGCAAATTTTAAGAATGGTTCCTGTAGGAATGGTGAGAATTGCAACTATGCACATGGCATTGAAGACATTCGCCAGCCGCCTCCCAATTGGCAAGAGCTTGTCACCGTGCGCGACGAGGACAGGCCATTAACTGGTAATTGGGAGGATGATCAGAAGATAATTCACAGGATGAAGCTGTGCAAGAAGTTTAATAACGGCGAGGAGTGTCCTTATGGAGATAGGTGTAACTTTCTTCATGAAGAACCGGCAAAGTTTAGGGAGGATTCGGGTAGGTATAGGGAGAACGCAGCAATCAGCATTGGGACTACAGGAGCACCAATGACACATGTGAGTAGCATTAATCATTCCGAGGATAATAGGCCTGTGAACACTGGTATGGATGCATTTCGAGTAAACATGAAGCCTTATTGGAAGACTAAGATATGTAATAAGTGGGAGCAAACAGGAAAATGTCCATTTGGCGAGAAGTGTCACTTTGCTCATGGGCAAGCAGGTATTTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003700 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006355 GO:0006417 GO:0008150 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0009894 GO:0009896 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031329 GO:0031331 GO:0032268 GO:0032269 GO:0034248 GO:0034249 GO:0043487 GO:0043488 GO:0044424 GO:0044444 GO:0044464 GO:0045935 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050779 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0061157 GO:0061158 GO:0065007 GO:0065008 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903311 GO:1903313 GO:1903506 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH

Protein Analysis

259

Amino Acids

29.63

Weight (kDa)

7.12

Isoelectric Point (pI)

48.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH_UNK	PF25427	86 - 118	6e-07	UNK-like, CCCH zinc finger
zf-CCCH	PF00642	87 - 111	1e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	149 - 172	9.4e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_DUS3L	PF25585	149 - 171	8.9e-06	DUS3L CCCH zinc finger domain
zf-CCCH_4	PF18044	150 - 171	7.6e-07	CCCH-type zinc finger
zf-CCCH	PF00642	229 - 255	1.4e-10	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_DUS3L	PF25585	230 - 253	8.5e-07	DUS3L CCCH zinc finger domain
zf_CCCH_4	PF18345	234 - 253	5.3e-06	Zinc finger 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

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Publication-ready

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Orthologous Genes (Group: OG0010344)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G19360 AT3G19360
fragaria_vesca	FvH4_1g03610 FvH4_1g03610
malus_domestica	MD02G1035700.v1.1 MD15G1175900.v1.1
prunus_persica	Prupe.7G239500_v2.0.a1
pyrus_communis	pycom02g02950 pycom15g15790
rosa_chinensis	RchiOBHm_Chr2g0089141
rosa_laevigata	RLG00000015995
rosa_multiflora	Rmu_sc0016750.1_g000003 Rmu_sc0029975.1_g000003
rosa_roxburghii	Rroxscaffold_2G00152210
rosa_rugosa	Rorug01G0487700 Rorug01G0487800
rosa_samantha	Rh2AG043300 Rh2BG042100 Rh2CG043400 Rh2DG042400
rosa_wichuraiana	Rw2G003430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	758
AccB7I	CCANNNNNTGG	1 cut(s)	407
AccII	CGCG	1 cut(s)	387
AciI	CCGC	2 cut(s)	191, 353
AcsI	RAATTY	3 cut(s)	4, 154, 280
AfiI	CCNNNNNNNGG	1 cut(s)	407
AflIII	ACRYGT	1 cut(s)	601
AgsI	TTSAA	1 cut(s)	338
AluBI	AGCT	3 cut(s)	131, 373, 451
AluI	AGCT	3 cut(s)	131, 373, 451
Alw21I	GWGCWC	2 cut(s)	216, 592
Alw26I	GTCTC	1 cut(s)	139
Alw44I	GTGCAC	1 cut(s)	212
AoxI	GGCC	3 cut(s)	77, 398, 635
ApaLI	GTGCAC	1 cut(s)	212
ApeKI	GCWGC	2 cut(s)	124, 563
ApoI	RAATTY	3 cut(s)	4, 154, 280
AseI	ATTAAT	1 cut(s)	615
Asp700I	GAANNNNTTC	1 cut(s)	342
AspLEI	GCGC	1 cut(s)	387
AspS9I	GGNCC	2 cut(s)	34, 78
AsuHPI	GGTGA	3 cut(s)	98, 320, 370
AvaII	GGWCC	1 cut(s)	34
BaeGI	GKGCMC	1 cut(s)	216
BbsI	GAAGAC	2 cut(s)	345, 695
Bbv12I	GWGCWC	2 cut(s)	216, 592
BbvI	GCAGC	2 cut(s)	136, 575
BceAI	ACGGC	1 cut(s)	487
BcgI	CGANNNNNNTGC	2 cut(s)	163, 197
BclI	TGATCA	2 cut(s)	13, 424
BcoDI	GTCTC	1 cut(s)	139
BfaI	CTAG	2 cut(s)	207, 778
BfmI	CTRYAG	2 cut(s)	298, 582
BfuAI	ACCTGC	1 cut(s)	758
BisI	GCNGC	3 cut(s)	125, 353, 564
BlsI	GCNGC	3 cut(s)	126, 354, 565
Bme18I	GGWCC	1 cut(s)	34
BmgT120I	GGNCC	2 cut(s)	34, 78
BmiI	GGNNCC	2 cut(s)	80, 295
BmsI	GCATC	3 cut(s)	52, 171, 646
BpiI	GAAGAC	2 cut(s)	345, 695
BsaI	GGTCTC	1 cut(s)	139
BsaJI	CCNNGG	1 cut(s)	624
BsaWI	WCCGGW	1 cut(s)	229
Bsc4I	CCNNNNNNNGG	1 cut(s)	407
Bse118I	RCCGGY	2 cut(s)	31, 520
Bse1I	ACTGG	2 cut(s)	412, 652
BseDI	CCNNGG	1 cut(s)	624
BseGI	GGATG	3 cut(s)	427, 450, 661
BseLI	CCNNNNNNNGG	1 cut(s)	407
BseMII	CTCAG	1 cut(s)	128
BseNI	ACTGG	2 cut(s)	412, 652
BseRI	GAGGAG	2 cut(s)	255, 491
BseSI	GKGCMC	1 cut(s)	216
BseXI	GCAGC	2 cut(s)	136, 575
Bsh1236I	CGCG	1 cut(s)	387
BshFI	GGCC	3 cut(s)	79, 400, 637
BsiHKAI	GWGCWC	2 cut(s)	216, 592
BsiSI	CCGG	3 cut(s)	32, 230, 521
BslFI	GGGAC	1 cut(s)	592
BslI	CCNNNNNNNGG	1 cut(s)	407
BsmAI	GTCTC	1 cut(s)	139
BsmFI	GGGAC	1 cut(s)	592
BsmI	GAATGC	1 cut(s)	229
BsnI	GGCC	3 cut(s)	79, 400, 637
Bso31I	GGTCTC	1 cut(s)	139
Bsp1286I	GDGCHC	2 cut(s)	216, 592
Bsp143I	GATC	3 cut(s)	13, 103, 424
BspACI	CCGC	2 cut(s)	191, 353
BspANI	GGCC	3 cut(s)	79, 400, 637
BspCNI	CTCAG	1 cut(s)	127
BspFNI	CGCG	1 cut(s)	387
BspHI	TCATGA	1 cut(s)	511
BspLI	GGNNCC	2 cut(s)	80, 295
BspMI	ACCTGC	1 cut(s)	758
BspTNI	GGTCTC	1 cut(s)	139
BsrFI	RCCGGY	2 cut(s)	31, 520
BsrI	ACTGG	2 cut(s)	412, 652
BssAI	RCCGGY	2 cut(s)	31, 520
BssECI	CCNNGG	1 cut(s)	624
BssMI	GATC	3 cut(s)	13, 103, 424
Bst4CI	ACNGT	1 cut(s)	382
BstC8I	GCNNGC	4 cut(s)	77, 129, 350, 765
BstDEI	CTNAG	2 cut(s)	114, 693
BstF5I	GGATG	3 cut(s)	427, 450, 661
BstFNI	CGCG	1 cut(s)	387
BstHHI	GCGC	1 cut(s)	387
BstKTI	GATC	3 cut(s)	16, 106, 427
BstMAI	GTCTC	1 cut(s)	139
BstMBI	GATC	3 cut(s)	13, 103, 424
BstMWI	GCNNNNNNNGC	1 cut(s)	190
BstNSI	RCATGY	1 cut(s)	605
BstSFI	CTRYAG	2 cut(s)	298, 582
BstSLI	GKGCMC	1 cut(s)	216
BstUI	CGCG	1 cut(s)	387
BstV1I	GCAGC	2 cut(s)	136, 575
BstV2I	GAAGAC	2 cut(s)	345, 695
BsuRI	GGCC	3 cut(s)	79, 400, 637
BtsCI	GGATG	3 cut(s)	427, 450, 661
BtsI	GCAGTG	1 cut(s)	64
BtsIMutI	CAGTG	2 cut(s)	64, 645
BveI	ACCTGC	1 cut(s)	758
Cac8I	GCNNGC	4 cut(s)	77, 129, 350, 765
CciI	TCATGA	1 cut(s)	511
CfoI	GCGC	1 cut(s)	387
Cfr10I	RCCGGY	2 cut(s)	31, 520
Cfr13I	GGNCC	2 cut(s)	34, 78
CviAII	CATG	5 cut(s)	329, 512, 602, 673, 758
CviJI	RGCY	8 cut(s)	79, 131, 352, 373, 400, 451, 637, 679
CviKI_1	RGCY	8 cut(s)	79, 131, 352, 373, 400, 451, 637, 679
DdeI	CTNAG	2 cut(s)	114, 693
DpnI	GATC	3 cut(s)	15, 105, 426
DpnII	GATC	3 cut(s)	13, 103, 424
Eco147I	AGGCCT	1 cut(s)	637
Eco31I	GGTCTC	1 cut(s)	139
Eco47I	GGWCC	1 cut(s)	34
EcoT22I	ATGCAT	1 cut(s)	661
FaeI	CATG	5 cut(s)	332, 515, 605, 676, 761
FalI	AAGNNNNNCTT	2 cut(s)	734, 766
FaqI	GGGAC	1 cut(s)	592
FatI	CATG	5 cut(s)	328, 511, 601, 672, 757
FauI	CCCGC	1 cut(s)	198
FbaI	TGATCA	2 cut(s)	13, 424
Fnu4HI	GCNGC	3 cut(s)	125, 353, 564
FokI	GGATG	3 cut(s)	434, 457, 668
Fsp4HI	GCNGC	3 cut(s)	125, 353, 564
FspBI	CTAG	2 cut(s)	207, 778
GlaI	GCGC	1 cut(s)	386
GluI	GCNGC	3 cut(s)	125, 353, 564
HaeIII	GGCC	3 cut(s)	79, 400, 637
HapII	CCGG	3 cut(s)	32, 230, 521
HhaI	GCGC	1 cut(s)	387
Hin1II	CATG	5 cut(s)	332, 515, 605, 676, 761
Hin6I	GCGC	1 cut(s)	385
HinP1I	GCGC	1 cut(s)	385
HinfI	GANTC	3 cut(s)	175, 265, 539
HpaII	CCGG	3 cut(s)	32, 230, 521
HphI	GGTGA	3 cut(s)	98, 320, 370
Hpy166II	GTNNAC	3 cut(s)	214, 643, 670
Hpy188I	TCNGA	5 cut(s)	13, 160, 180, 429, 625
Hpy188III	TCNNGA	2 cut(s)	207, 512
Hpy8I	GTNNAC	3 cut(s)	214, 643, 670
Hpy99I	CGWCG	1 cut(s)	392
HpyCH4III	ACNGT	1 cut(s)	382
HpyCH4V	TGCA	6 cut(s)	214, 278, 318, 326, 456, 659
HpyF10VI	GCNNNNNNNGC	1 cut(s)	190
HpyF3I	CTNAG	2 cut(s)	114, 693
Hsp92II	CATG	5 cut(s)	332, 515, 605, 676, 761
HspAI	GCGC	1 cut(s)	385
Ksp22I	TGATCA	2 cut(s)	13, 424
Kzo9I	GATC	3 cut(s)	13, 103, 424
LmnI	GCTCC	5 cut(s)	136, 232, 242, 587, 712
Lsp1109I	GCAGC	2 cut(s)	136, 575
LweI	GCATC	3 cut(s)	52, 171, 646
MaeI	CTAG	2 cut(s)	207, 778
MaeIII	GTNAC	3 cut(s)	376, 500, 746
MalI	GATC	3 cut(s)	15, 105, 426
MboI	GATC	3 cut(s)	13, 103, 424
MboII	GAAGA	7 cut(s)	113, 173, 350, 442, 500, 527, 700
MfeI	CAATTG	1 cut(s)	361
MhlI	GDGCHC	2 cut(s)	216, 592
MluCI	AATT	8 cut(s)	4, 70, 154, 280, 313, 361, 412, 435
MlyI	GAGTC	1 cut(s)	259
MmeI	TCCRAC	1 cut(s)	31
MnlI	CCTC	9 cut(s)	47, 159, 233, 366, 385, 412, 469, 529, 619
Mph1103I	ATGCAT	1 cut(s)	661
MroXI	GAANNNNTTC	1 cut(s)	342
MseI	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 615
MslI	CAYNNNNRTG	1 cut(s)	650
MspI	CCGG	3 cut(s)	32, 230, 521
MunI	CAATTG	1 cut(s)	361
Mva1269I	GAATGC	1 cut(s)	229
MvnI	CGCG	1 cut(s)	387
MwoI	GCNNNNNNNGC	1 cut(s)	190
NdeII	GATC	3 cut(s)	13, 103, 424
NlaIII	CATG	5 cut(s)	332, 515, 605, 676, 761
NlaIV	GGNNCC	2 cut(s)	80, 295
NmuCI	GTSAC	2 cut(s)	376, 746
NsiI	ATGCAT	1 cut(s)	661
NspI	RCATGY	1 cut(s)	605
PagI	TCATGA	1 cut(s)	511
PceI	AGGCCT	1 cut(s)	637
PciI	ACATGT	1 cut(s)	601
PctI	GAATGC	1 cut(s)	229
PdmI	GAANNNNTTC	1 cut(s)	342
PfeI	GAWTC	2 cut(s)	175, 539
PflMI	CCANNNNNTGG	1 cut(s)	407
PkrI	GCNGC	3 cut(s)	126, 354, 565
PleI	GAGTC	1 cut(s)	259
PpsI	GAGTC	1 cut(s)	259
PscI	ACATGT	1 cut(s)	601
PshBI	ATTAAT	1 cut(s)	615
PspN4I	GGNNCC	2 cut(s)	80, 295
PspPI	GGNCC	2 cut(s)	34, 78
RseI	CAYNNNNRTG	1 cut(s)	650
SaqAI	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 615
SatI	GCNGC	3 cut(s)	125, 353, 564
Sau3AI	GATC	3 cut(s)	13, 103, 424
Sau96I	GGNCC	2 cut(s)	34, 78
SchI	GAGTC	1 cut(s)	259
SduI	GDGCHC	2 cut(s)	216, 592
SetI	ASST	7 cut(s)	133, 151, 375, 453, 500, 551, 772
SfaNI	GCATC	3 cut(s)	52, 171, 646
SfcI	CTRYAG	2 cut(s)	298, 582
SinI	GGWCC	1 cut(s)	34
SmiMI	CAYNNNNRTG	1 cut(s)	650
Sse9I	AATT	8 cut(s)	4, 70, 154, 280, 313, 361, 412, 435
SseBI	AGGCCT	1 cut(s)	637
SsiI	CCGC	2 cut(s)	191, 353
SspMI	CTAG	2 cut(s)	207, 778
StuI	AGGCCT	1 cut(s)	637
TaaI	ACNGT	1 cut(s)	382
TaqI	TCGA	3 cut(s)	151, 173, 664
TasI	AATT	8 cut(s)	4, 70, 154, 280, 313, 361, 412, 435
TauI	GCSGC	1 cut(s)	355
TfiI	GAWTC	2 cut(s)	175, 539
Tru1I	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 615
Tru9I	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 615
TscAI	CASTG	2 cut(s)	64, 652
TseFI	GTSAC	2 cut(s)	376, 746
TseI	GCWGC	2 cut(s)	124, 563
Tsp45I	GTSAC	2 cut(s)	376, 746
TspDTI	ATGAA	8 cut(s)	17, 107, 114, 212, 461, 500, 528, 689
TspRI	CASTG	2 cut(s)	64, 652
Van91I	CCANNNNNTGG	1 cut(s)	407
VneI	GTGCAC	1 cut(s)	212
VpaK11BI	GGWCC	1 cut(s)	34
VspI	ATTAAT	1 cut(s)	615
XapI	RAATTY	3 cut(s)	4, 154, 280
XbaI	TCTAGA	1 cut(s)	206
XceI	RCATGY	1 cut(s)	605
XmnI	GAANNNNTTC	1 cut(s)	342
XspI	CTAG	2 cut(s)	207, 778
Zsp2I	ATGCAT	1 cut(s)	661

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