Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0010344

Physical Location & Seq

Genomic Coordinates Reverse (-)

2912996 .. 2915379

Gene Structure 2384 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG042100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1017 bp

ATGAATTTTTCTGATCAAACATCGTTCATGCCGGTCCAATCACTTTATGTTGGAGGCAGTGATGCTGTTAATTGCTGGCCTCCTTTCCCTATGAACAATGAAGATCACCATTCTCAGTTTGAGCAGCAAGCTCCACCCTTTAAGAGACCTCGAAATTCCGAAGAACCCCAATCGAATCCGATGCCATACCCGCCTATGAACAACTCTAGAGTGCACCCACCGAATGCTCCGGTTAATAGAGGAGCAAACAACATTTTTTACAAGACTCGTCTGTGTGCAAATTTTAAGAATGGTTCCTGTAGGAATGGTGAGAATTGCAACTATGCACATGGCATTGAAGACATTCGCCAGCCGCCTCCCAATTGGCAAGAGCTTGTCACAGTGCGCGACGAGGATAGGCCATTAACTGGTAATTGGGAGGATGATCAGAAGATAATTCACAGGATGAAGCTGTGCAAGAAGTTTAATAATGGCGAGGAGTGTCCTTATGGAGATAGGTGTAACTTTCTTCATGAAGAACCGGCAAAGTTTAGGGAGGATTCGGGTAGGTATAGGGAGAATGCAGCAATCAGCATTGGGACTACAGGAGCACCAATGACACATGTGAGTAGCACTAATCATTCCGAGGATAATAGGCCTGTGAACACTGGTACGGATGCATTTCGAGTAAACATGAAGCCAGTTTATTGGAAGACTAAGATATGTAATAAGTGGGAGCAAACAGGAAAATGTCCGTTTGGCGAGAAGTGTCACTTTGCTCATGGGCAAGCAGAGTTACAAGTGCCTGGGGTGCGGGTTGAAGCAGAAGTGATGACAAGTGCTCCCATTTCAACGAAACCACAAACTGTTCCCGCTAATGATTCATCTACAATTGCAATGGCAGCAATTCCTGCTGCTGTAAACGAAGAAGTTCAGGGTAAGAAGTGCGGATTTAAATGGAGAGGATCCAAGAAGATCAATCAAATCAATCGCATATATGGTGACTGGCTTGATGATGTCCCCCTGGTAGAGAGCTAA

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

338

Amino Acids

38.2

Weight (kDa)

6.79

Isoelectric Point (pI)

45.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH_UNK	PF25427	86 - 118	8.7e-07	UNK-like, CCCH zinc finger
zf-CCCH	PF00642	87 - 111	1.5e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH	PF00642	149 - 172	1.3e-06	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	150 - 171	1.1e-06	CCCH-type zinc finger
zf-CCCH	PF00642	230 - 256	1.9e-10	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_DUS3L	PF25585	231 - 254	1.2e-06	DUS3L CCCH 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

Tree File

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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)
AccB7I	CCANNNNNTGG	1 cut(s)	407
AccII	CGCG	1 cut(s)	387
AciI	CCGC	5 cut(s)	191, 353, 793, 852, 927
AclWI	GGATC	2 cut(s)	939, 952
AcsI	RAATTY	3 cut(s)	4, 154, 280
AfaI	GTAC	1 cut(s)	652
AfiI	CCNNNNNNNGG	1 cut(s)	407
AflIII	ACRYGT	1 cut(s)	601
AgsI	TTSAA	3 cut(s)	338, 800, 831
AjnI	CCWGG	2 cut(s)	784, 1002
AluBI	AGCT	4 cut(s)	131, 373, 451, 1014
AluI	AGCT	4 cut(s)	131, 373, 451, 1014
Alw21I	GWGCWC	3 cut(s)	216, 592, 823
Alw26I	GTCTC	1 cut(s)	139
Alw44I	GTGCAC	1 cut(s)	212
AlwI	GGATC	2 cut(s)	939, 952
AoxI	GGCC	3 cut(s)	77, 398, 635
ApaLI	GTGCAC	1 cut(s)	212
ApeKI	GCWGC	4 cut(s)	124, 563, 881, 893
ApoI	RAATTY	3 cut(s)	4, 154, 280
Asp700I	GAANNNNTTC	2 cut(s)	342, 909
AspLEI	GCGC	1 cut(s)	387
AspS9I	GGNCC	1 cut(s)	34
AsuHPI	GGTGA	3 cut(s)	98, 320, 992
AvaII	GGWCC	1 cut(s)	34
BaeGI	GKGCMC	1 cut(s)	216
BamHI	GGATCC	1 cut(s)	944
BbsI	GAAGAC	2 cut(s)	345, 698
Bbv12I	GWGCWC	3 cut(s)	216, 592, 823
BbvI	GCAGC	4 cut(s)	136, 575, 880, 893
BcgI	CGANNNNNNTGC	2 cut(s)	163, 197
BciT130I	CCWGG	2 cut(s)	786, 1004
BclI	TGATCA	2 cut(s)	13, 424
BcoDI	GTCTC	1 cut(s)	139
BfaI	CTAG	1 cut(s)	207
BfmI	CTRYAG	2 cut(s)	298, 582
BisI	GCNGC	5 cut(s)	125, 353, 564, 882, 894
BlsI	GCNGC	5 cut(s)	126, 354, 565, 883, 895
Bme1390I	CCNGG	2 cut(s)	786, 1004
Bme18I	GGWCC	1 cut(s)	34
BmgT120I	GGNCC	1 cut(s)	34
BmiI	GGNNCC	2 cut(s)	295, 946
BmrFI	CCNGG	2 cut(s)	786, 1004
BmsI	GCATC	3 cut(s)	52, 171, 646
BpiI	GAAGAC	2 cut(s)	345, 698
BsaI	GGTCTC	1 cut(s)	139
BsaJI	CCNNGG	3 cut(s)	624, 785, 1002
BsaWI	WCCGGW	1 cut(s)	229
BsaXI	ACNNNNNCTCC	2 cut(s)	805, 835
Bsc4I	CCNNNNNNNGG	1 cut(s)	407
Bse118I	RCCGGY	2 cut(s)	31, 520
Bse1I	ACTGG	4 cut(s)	412, 652, 680, 989
Bse3DI	GCAATG	1 cut(s)	882
BseBI	CCWGG	2 cut(s)	786, 1004
BseDI	CCNNGG	3 cut(s)	624, 785, 1002
BseGI	GGATG	3 cut(s)	427, 450, 661
BseLI	CCNNNNNNNGG	1 cut(s)	407
BseMI	GCAATG	1 cut(s)	882
BseMII	CTCAG	1 cut(s)	128
BseNI	ACTGG	4 cut(s)	412, 652, 680, 989
BseRI	GAGGAG	2 cut(s)	255, 491
BseSI	GKGCMC	1 cut(s)	216
BseXI	GCAGC	4 cut(s)	136, 575, 880, 893
Bsh1236I	CGCG	1 cut(s)	387
BshFI	GGCC	3 cut(s)	79, 400, 637
BsiHKAI	GWGCWC	3 cut(s)	216, 592, 823
BsiSI	CCGG	3 cut(s)	32, 230, 521
BslFI	GGGAC	2 cut(s)	592, 983
BslI	CCNNNNNNNGG	1 cut(s)	407
BsmAI	GTCTC	1 cut(s)	139
BsmFI	GGGAC	2 cut(s)	592, 983
BsmI	GAATGC	2 cut(s)	229, 565
BsnI	GGCC	3 cut(s)	79, 400, 637
Bso31I	GGTCTC	1 cut(s)	139
Bsp1286I	GDGCHC	3 cut(s)	216, 592, 823
Bsp143I	GATC	5 cut(s)	13, 103, 424, 944, 954
BspACI	CCGC	5 cut(s)	191, 353, 793, 852, 927
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)	295, 946
BspPI	GGATC	2 cut(s)	939, 952
BspTNI	GGTCTC	1 cut(s)	139
BsrDI	GCAATG	1 cut(s)	882
BsrFI	RCCGGY	2 cut(s)	31, 520
BsrI	ACTGG	4 cut(s)	412, 652, 680, 989
BssAI	RCCGGY	2 cut(s)	31, 520
BssECI	CCNNGG	3 cut(s)	624, 785, 1002
BssMI	GATC	5 cut(s)	13, 103, 424, 944, 954
Bst2UI	CCWGG	2 cut(s)	786, 1004
Bst4CI	ACNGT	2 cut(s)	382, 847
BstAPI	GCANNNNNTGC	1 cut(s)	890
BstC8I	GCNNGC	4 cut(s)	77, 129, 350, 768
BstDEI	CTNAG	2 cut(s)	114, 696
BstF5I	GGATG	3 cut(s)	427, 450, 661
BstFNI	CGCG	1 cut(s)	387
BstHHI	GCGC	1 cut(s)	387
BstKTI	GATC	5 cut(s)	16, 106, 427, 947, 957
BstMAI	GTCTC	1 cut(s)	139
BstMBI	GATC	5 cut(s)	13, 103, 424, 944, 954
BstMWI	GCNNNNNNNGC	4 cut(s)	190, 790, 881, 890
BstNI	CCWGG	2 cut(s)	786, 1004
BstNSI	RCATGY	1 cut(s)	605
BstSCI	CCNGG	2 cut(s)	784, 1002
BstSFI	CTRYAG	2 cut(s)	298, 582
BstSLI	GKGCMC	1 cut(s)	216
BstUI	CGCG	1 cut(s)	387
BstV1I	GCAGC	4 cut(s)	136, 575, 880, 893
BstV2I	GAAGAC	2 cut(s)	345, 698
BstX2I	RGATCY	1 cut(s)	944
BstXI	CCANNNNNNTGG	1 cut(s)	687
BstYI	RGATCY	1 cut(s)	944
BsuRI	GGCC	3 cut(s)	79, 400, 637
BtsCI	GGATG	3 cut(s)	427, 450, 661
BtsI	GCAGTG	1 cut(s)	64
BtsIMutI	CAGTG	3 cut(s)	64, 387, 645
Cac8I	GCNNGC	4 cut(s)	77, 129, 350, 768
CciI	TCATGA	1 cut(s)	511
CfoI	GCGC	1 cut(s)	387
Cfr10I	RCCGGY	2 cut(s)	31, 520
Cfr13I	GGNCC	1 cut(s)	34
Csp6I	GTAC	1 cut(s)	651
CviAII	CATG	6 cut(s)	28, 329, 512, 602, 673, 761
CviQI	GTAC	1 cut(s)	651
DdeI	CTNAG	2 cut(s)	114, 696
DpnI	GATC	5 cut(s)	15, 105, 426, 946, 956
DpnII	GATC	5 cut(s)	13, 103, 424, 944, 954
DraI	TTTAAA	1 cut(s)	934
Eco147I	AGGCCT	1 cut(s)	637
Eco31I	GGTCTC	1 cut(s)	139
Eco47I	GGWCC	1 cut(s)	34
EcoRII	CCWGG	2 cut(s)	784, 1002
EcoT22I	ATGCAT	1 cut(s)	661
FaeI	CATG	6 cut(s)	31, 332, 515, 605, 676, 764
FalI	AAGNNNNNCTT	2 cut(s)	737, 769
FaqI	GGGAC	2 cut(s)	592, 983
FatI	CATG	6 cut(s)	27, 328, 511, 601, 672, 760
FauI	CCCGC	3 cut(s)	198, 786, 859
FbaI	TGATCA	2 cut(s)	13, 424
Fnu4HI	GCNGC	5 cut(s)	125, 353, 564, 882, 894
FokI	GGATG	3 cut(s)	434, 457, 668
Fsp4HI	GCNGC	5 cut(s)	125, 353, 564, 882, 894
FspBI	CTAG	1 cut(s)	207
GlaI	GCGC	1 cut(s)	386
GluI	GCNGC	5 cut(s)	125, 353, 564, 882, 894
HaeIII	GGCC	3 cut(s)	79, 400, 637
HapII	CCGG	3 cut(s)	32, 230, 521
HhaI	GCGC	1 cut(s)	387
Hin1II	CATG	6 cut(s)	31, 332, 515, 605, 676, 764
Hin6I	GCGC	1 cut(s)	385
HinP1I	GCGC	1 cut(s)	385
HinfI	GANTC	4 cut(s)	175, 265, 539, 860
HpaII	CCGG	3 cut(s)	32, 230, 521
HphI	GGTGA	3 cut(s)	98, 320, 992
Hpy166II	GTNNAC	4 cut(s)	214, 643, 670, 901
Hpy188I	TCNGA	5 cut(s)	13, 160, 180, 429, 625
Hpy188III	TCNNGA	2 cut(s)	207, 512
Hpy8I	GTNNAC	4 cut(s)	214, 643, 670, 901
Hpy99I	CGWCG	1 cut(s)	392
HpyCH4III	ACNGT	2 cut(s)	382, 847
HpyCH4V	TGCA	8 cut(s)	214, 278, 318, 326, 456, 563, 659, 875
HpyF10VI	GCNNNNNNNGC	4 cut(s)	190, 790, 881, 890
HpyF3I	CTNAG	2 cut(s)	114, 696
Hsp92II	CATG	6 cut(s)	31, 332, 515, 605, 676, 764
HspAI	GCGC	1 cut(s)	385
Ksp22I	TGATCA	2 cut(s)	13, 424
Kzo9I	GATC	5 cut(s)	13, 103, 424, 944, 954
LmnI	GCTCC	6 cut(s)	136, 232, 242, 587, 715, 826
Lsp1109I	GCAGC	4 cut(s)	136, 575, 880, 893
LweI	GCATC	3 cut(s)	52, 171, 646
MaeI	CTAG	1 cut(s)	207
MaeIII	GTNAC	5 cut(s)	376, 500, 749, 774, 980
MalI	GATC	5 cut(s)	15, 105, 426, 946, 956
MboI	GATC	5 cut(s)	13, 103, 424, 944, 954
MboII	GAAGA	9 cut(s)	113, 173, 350, 442, 500, 527, 703, 917, 964
MfeI	CAATTG	2 cut(s)	361, 870
MflI	RGATCY	1 cut(s)	944
MhlI	GDGCHC	3 cut(s)	216, 592, 823
MlyI	GAGTC	1 cut(s)	259
MmeI	TCCRAC	1 cut(s)	31
Mph1103I	ATGCAT	1 cut(s)	661
MroXI	GAANNNNTTC	2 cut(s)	342, 909
MseI	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 933
MspI	CCGG	3 cut(s)	32, 230, 521
MspR9I	CCNGG	2 cut(s)	786, 1004
MunI	CAATTG	2 cut(s)	361, 870
Mva1269I	GAATGC	2 cut(s)	229, 565
MvaI	CCWGG	2 cut(s)	786, 1004
MvnI	CGCG	1 cut(s)	387
MwoI	GCNNNNNNNGC	4 cut(s)	190, 790, 881, 890
NdeII	GATC	5 cut(s)	13, 103, 424, 944, 954
NlaIII	CATG	6 cut(s)	31, 332, 515, 605, 676, 764
NlaIV	GGNNCC	2 cut(s)	295, 946
NmuCI	GTSAC	3 cut(s)	376, 749, 980
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	2 cut(s)	229, 565
PdmI	GAANNNNTTC	2 cut(s)	342, 909
PfeI	GAWTC	3 cut(s)	175, 539, 860
PflMI	CCANNNNNTGG	1 cut(s)	407
PkrI	GCNGC	5 cut(s)	126, 354, 565, 883, 895
PleI	GAGTC	1 cut(s)	259
PpsI	GAGTC	1 cut(s)	259
PscI	ACATGT	1 cut(s)	601
Psp6I	CCWGG	2 cut(s)	784, 1002
PspGI	CCWGG	2 cut(s)	784, 1002
PspN4I	GGNNCC	2 cut(s)	295, 946
PspPI	GGNCC	1 cut(s)	34
PsuI	RGATCY	1 cut(s)	944
RsaI	GTAC	1 cut(s)	652
RsaNI	GTAC	1 cut(s)	651
SaqAI	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 933
SatI	GCNGC	5 cut(s)	125, 353, 564, 882, 894
Sau3AI	GATC	5 cut(s)	13, 103, 424, 944, 954
Sau96I	GGNCC	1 cut(s)	34
SchI	GAGTC	1 cut(s)	259
ScrFI	CCNGG	2 cut(s)	786, 1004
SduI	GDGCHC	3 cut(s)	216, 592, 823
SetI	ASST	7 cut(s)	133, 151, 375, 453, 500, 551, 1016
SfaNI	GCATC	3 cut(s)	52, 171, 646
SfcI	CTRYAG	2 cut(s)	298, 582
SinI	GGWCC	1 cut(s)	34
SmiI	ATTTAAAT	1 cut(s)	934
SseBI	AGGCCT	1 cut(s)	637
SsiI	CCGC	5 cut(s)	191, 353, 793, 852, 927
SspMI	CTAG	1 cut(s)	207
StuI	AGGCCT	1 cut(s)	637
StyD4I	CCNGG	2 cut(s)	784, 1002
SwaI	ATTTAAAT	1 cut(s)	934
TaaI	ACNGT	2 cut(s)	382, 847
TaqI	TCGA	3 cut(s)	151, 173, 664
TauI	GCSGC	1 cut(s)	355
TfiI	GAWTC	3 cut(s)	175, 539, 860
Tru1I	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 933
Tru9I	TTAA	7 cut(s)	69, 141, 234, 285, 404, 465, 933
TscAI	CASTG	3 cut(s)	64, 387, 652
TseFI	GTSAC	3 cut(s)	376, 749, 980
TseI	GCWGC	4 cut(s)	124, 563, 881, 893
Tsp45I	GTSAC	3 cut(s)	376, 749, 980
TspGWI	ACGGA	2 cut(s)	668, 723
TspRI	CASTG	3 cut(s)	64, 387, 652
Van91I	CCANNNNNTGG	1 cut(s)	407
VneI	GTGCAC	1 cut(s)	212
VpaK11BI	GGWCC	1 cut(s)	34
XapI	RAATTY	3 cut(s)	4, 154, 280
XbaI	TCTAGA	1 cut(s)	206
XceI	RCATGY	1 cut(s)	605
XmnI	GAANNNNTTC	2 cut(s)	342, 909
XspI	CTAG	1 cut(s)	207
Zsp2I	ATGCAT	1 cut(s)	661

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