Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0005990

Physical Location & Seq

Genomic Coordinates Reverse (-)

1596155 .. 1598452

Gene Structure 2298 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG009800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 972 bp

ATGACAGACCCTAAAAATTACAACTCCAGCGGCTTCAATAATAGATGGATCAACTTCATGCCTCCCCATCCACAATACTACTGCTTTGAATCCACTTCTTCTTTCAATTCCAATCCTTATCCACATCATCAGTTCTCTCATAACTTGATGTATAACAACTCCTCCTGTGTTGTTCAGAGCCAACCCTCATCATCTCATGACTCCCATCTGAAAGAAGCTCTGCCTTTAATAAACAAACTAAACCCTAGAGGAGCACAATTAGAGGAAGATGAAGAGGGCACAAGTCACAACCCCAAGAACAAAGCTGATGTCGATGATGATGTAGCCCTACGTATAGGCCTCCCAAGTAGTAATTATAGTAGTGATCCAGGTAGTGGTGGTATGGAAGTAGATCAATCTAATGATGATGAATTAGGAGCAGCTGCGAGTGTGGACAGATTAAACAAGGGTCATTACTGGATTCCCACCCCTTCTCAGATTCTAAATGGCCCAACTCAATTCTCATGTCCTCTGTGCTTCAAAACCTTTAACAGATACAATAACTTGCAGATGCATATGTGGGGACATGGATCTCAATACAGGAAAGGACCGGACTCTCTAAAAGGAAATAAGCCCACAGCAATGCTAAGACTCCCTTGCTACTGCTGCGCACAAGGTTGCAAGCACAACATTGACCACCCAAGAGCCAAACAACTCAAGGACTTCAGAACTCTCCAAGCACATTACAAGAGAAAGCATGGGATAAGGTCCTTCATCTGCAAAAGATGTGGCAAGTCACTTGCTCTGAAAGGTGATTGGAGAACTCATGAAAAAAATTGTGGCAAGATTTGGCATTGCATTTGCGGCTCTGAATTTAAGCACAAGAGATCTCTCAAAGACCACATTAAGTCCTTCGGTGAAGGACATGGAGCTTTCGATATCGAGTATTTTGAAGAGGATGATGAACCAGCATCTGAAATAGAACACATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0008152 GO:0009058 GO:0009812 GO:0009813 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0140110 GO:1901576 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2 zf-C2H2_4 zf-C2H2_6

Protein Analysis

323

Amino Acids

36.75

Weight (kDa)

7.62

Isoelectric Point (pI)

52.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C2H2_STOP2_3rd	PF23115	213 - 247	5.2e-16	STOP2-like, C2H2-type zinc finger
C2CH-3rd_BIRD-IDD	PF22995	251 - 274	8.7e-10	BIRD-IDD transcription factor, third C2HC zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005990)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G34790
fragaria_vesca	FvH4_5g37050
malus_domestica	MD02G1313400.v1.1 MD07G1008700.v1.1
prunus_persica	Prupe.1G519400_v2.0.a1
pyrus_communis	pycom07g00750
rosa_chinensis	RchiOBHm_Chr1g0315831 RchiOBHm_Chr7g0243841
rosa_laevigata	RLG00000000829 RLG00000030730
rosa_multiflora	Rmu_sc0003888.1_g000005 Rmu_sc0011973.1_g000005 Rmu_ssc0000154.1_g000005
rosa_roxburghii	Rroxscaffold_3G00221730 Rroxscaffold_4G00331410
rosa_rugosa	Rorug01G0005800 Rorug01G0005900 Rorug07G0321800
rosa_samantha	Rh1AG016800 Rh1BG009300 Rh1DG009800 Rh7AG476400 Rh7BG447600 Rh7CG494600 Rh7DG461700
rosa_wichuraiana	Rw1G000990 Rw7G039760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	649
AccB7I	CCANNNNNTGG	1 cut(s)	374
AciI	CCGC	2 cut(s)	30, 843
AclWI	GGATC	3 cut(s)	56, 359, 577
AcsI	RAATTY	1 cut(s)	851
AcuI	CTGAAG	1 cut(s)	688
AfiI	CCNNNNNNNGG	1 cut(s)	374
AflIII	ACRYGT	1 cut(s)	966
AgsI	TTSAA	5 cut(s)	37, 89, 106, 520, 932
AjnI	CCWGG	1 cut(s)	367
AluBI	AGCT	4 cut(s)	218, 305, 422, 911
AluI	AGCT	4 cut(s)	218, 305, 422, 911
Alw21I	GWGCWC	1 cut(s)	256
AlwI	GGATC	3 cut(s)	56, 359, 577
AlwNI	CAGNNNCTG	1 cut(s)	953
AoxI	GGCC	2 cut(s)	337, 487
ApeKI	GCWGC	3 cut(s)	419, 422, 645
ApoI	RAATTY	1 cut(s)	851
ArsI	GACNNNNNNTTYG	2 cut(s)	294, 326
AspLEI	GCGC	1 cut(s)	650
AspS9I	GGNCC	3 cut(s)	488, 587, 747
AsuHPI	GGTGA	2 cut(s)	803, 908
AvaII	GGWCC	2 cut(s)	587, 747
BaeGI	GKGCMC	1 cut(s)	281
Bbv12I	GWGCWC	1 cut(s)	256
BbvI	GCAGC	3 cut(s)	409, 431, 632
BccI	CCATC	3 cut(s)	39, 75, 213
BciT130I	CCWGG	1 cut(s)	369
BfaI	CTAG	1 cut(s)	246
BglII	AGATCT	1 cut(s)	866
BisI	GCNGC	5 cut(s)	31, 420, 423, 646, 844
BlsI	GCNGC	5 cut(s)	32, 421, 424, 647, 845
Bme1390I	CCNGG	1 cut(s)	369
Bme18I	GGWCC	2 cut(s)	587, 747
BmgT120I	GGNCC	3 cut(s)	488, 587, 747
BmrFI	CCNGG	1 cut(s)	369
BmsI	GCATC	2 cut(s)	540, 959
BpmI	CTGGAG	1 cut(s)	10
BpuEI	CTTGAG	1 cut(s)	680
BsaAI	YACGTR	1 cut(s)	332
BsaWI	WCCGGW	1 cut(s)	589
BsaXI	ACNNNNNCTCC	2 cut(s)	146, 176
Bsc4I	CCNNNNNNNGG	1 cut(s)	374
Bse1I	ACTGG	1 cut(s)	461
Bse3DI	GCAATG	2 cut(s)	627, 832
BseBI	CCWGG	1 cut(s)	369
BseGI	GGATG	2 cut(s)	67, 943
BseLI	CCNNNNNNNGG	1 cut(s)	374
BseMI	GCAATG	2 cut(s)	627, 832
BseMII	CTCAG	1 cut(s)	488
BseNI	ACTGG	1 cut(s)	461
BseRI	GAGGAG	2 cut(s)	151, 264
BseSI	GKGCMC	1 cut(s)	281
BseXI	GCAGC	3 cut(s)	409, 431, 632
BshFI	GGCC	2 cut(s)	339, 489
BsiHKAI	GWGCWC	1 cut(s)	256
BsiSI	CCGG	1 cut(s)	590
BslFI	GGGAC	1 cut(s)	576
BslI	CCNNNNNNNGG	1 cut(s)	374
BsmFI	GGGAC	1 cut(s)	576
BsnI	GGCC	2 cut(s)	339, 489
Bsp1286I	GDGCHC	2 cut(s)	256, 281
Bsp143I	GATC	5 cut(s)	48, 364, 391, 569, 866
BspACI	CCGC	2 cut(s)	30, 843
BspANI	GGCC	2 cut(s)	339, 489
BspCNI	CTCAG	1 cut(s)	487
BspHI	TCATGA	2 cut(s)	196, 805
BspPI	GGATC	3 cut(s)	56, 359, 577
BsrDI	GCAATG	2 cut(s)	627, 832
BsrI	ACTGG	1 cut(s)	461
BssMI	GATC	5 cut(s)	48, 364, 391, 569, 866
Bst2UI	CCWGG	1 cut(s)	369
Bst6I	CTCTTC	2 cut(s)	267, 927
BstBAI	YACGTR	1 cut(s)	332
BstC8I	GCNNGC	1 cut(s)	662
BstDEI	CTNAG	2 cut(s)	474, 626
BstF5I	GGATG	2 cut(s)	67, 943
BstHHI	GCGC	1 cut(s)	650
BstKTI	GATC	5 cut(s)	51, 367, 394, 572, 869
BstMBI	GATC	5 cut(s)	48, 364, 391, 569, 866
BstMWI	GCNNNNNNNGC	2 cut(s)	645, 843
BstNI	CCWGG	1 cut(s)	369
BstNSI	RCATGY	1 cut(s)	970
BstSCI	CCNGG	1 cut(s)	367
BstSLI	GKGCMC	1 cut(s)	281
BstSNI	TACGTA	1 cut(s)	332
BstV1I	GCAGC	3 cut(s)	409, 431, 632
BstX2I	RGATCY	2 cut(s)	569, 866
BstYI	RGATCY	2 cut(s)	569, 866
BsuRI	GGCC	2 cut(s)	339, 489
BtsCI	GGATG	2 cut(s)	67, 943
Cac8I	GCNNGC	1 cut(s)	662
CaiI	CAGNNNCTG	1 cut(s)	953
CciI	TCATGA	2 cut(s)	196, 805
CfoI	GCGC	1 cut(s)	650
Cfr13I	GGNCC	3 cut(s)	488, 587, 747
CspCI	CAANNNNNGTGG	2 cut(s)	748, 783
CviAII	CATG	8 cut(s)	58, 197, 504, 566, 737, 806, 905, 967
DdeI	CTNAG	2 cut(s)	474, 626
DpnI	GATC	5 cut(s)	50, 366, 393, 571, 868
DpnII	GATC	5 cut(s)	48, 364, 391, 569, 866
Eam1104I	CTCTTC	2 cut(s)	267, 927
EarI	CTCTTC	2 cut(s)	267, 927
Eco105I	TACGTA	1 cut(s)	332
Eco147I	AGGCCT	1 cut(s)	339
Eco32I	GATATC	1 cut(s)	919
Eco47I	GGWCC	2 cut(s)	587, 747
Eco57I	CTGAAG	1 cut(s)	688
EcoO109I	RGGNCCY	1 cut(s)	747
EcoRII	CCWGG	1 cut(s)	367
EcoRV	GATATC	1 cut(s)	919
EcoT22I	ATGCAT	1 cut(s)	555
FaeI	CATG	8 cut(s)	61, 200, 507, 569, 740, 809, 908, 970
FalI	AAGNNNNNCTT	2 cut(s)	619, 651
FaqI	GGGAC	1 cut(s)	576
FatI	CATG	8 cut(s)	57, 196, 503, 565, 736, 805, 904, 966
FauNDI	CATATG	1 cut(s)	555
Fnu4HI	GCNGC	5 cut(s)	31, 420, 423, 646, 844
FokI	GGATG	2 cut(s)	54, 950
Fsp4HI	GCNGC	5 cut(s)	31, 420, 423, 646, 844
FspBI	CTAG	1 cut(s)	246
FspI	TGCGCA	1 cut(s)	649
GlaI	GCGC	1 cut(s)	649
GluI	GCNGC	5 cut(s)	31, 420, 423, 646, 844
GsuI	CTGGAG	1 cut(s)	10
HaeIII	GGCC	2 cut(s)	339, 489
HapII	CCGG	1 cut(s)	590
HhaI	GCGC	1 cut(s)	650
Hin1II	CATG	8 cut(s)	61, 200, 507, 569, 740, 809, 908, 970
Hin6I	GCGC	1 cut(s)	648
HinP1I	GCGC	1 cut(s)	648
HinfI	GANTC	6 cut(s)	89, 200, 460, 478, 593, 630
HpaII	CCGG	1 cut(s)	590
HphI	GGTGA	2 cut(s)	803, 908
Hpy166II	GTNNAC	1 cut(s)	433
Hpy188I	TCNGA	7 cut(s)	177, 210, 477, 707, 786, 850, 955
Hpy188III	TCNNGA	2 cut(s)	197, 806
Hpy8I	GTNNAC	1 cut(s)	433
HpyAV	CCTTC	4 cut(s)	480, 760, 893, 901
HpyCH4IV	ACGT	1 cut(s)	331
HpyCH4V	TGCA	5 cut(s)	547, 553, 660, 759, 837
HpyF10VI	GCNNNNNNNGC	2 cut(s)	645, 843
HpyF3I	CTNAG	2 cut(s)	474, 626
HpySE526I	ACGT	1 cut(s)	331
Hsp92II	CATG	8 cut(s)	61, 200, 507, 569, 740, 809, 908, 970
HspAI	GCGC	1 cut(s)	648
Kzo9I	GATC	5 cut(s)	48, 364, 391, 569, 866
LmnI	GCTCC	3 cut(s)	251, 416, 908
LpnPI	CCDG	8 cut(s)	40, 178, 354, 381, 442, 565, 603, 960
Lsp1109I	GCAGC	3 cut(s)	409, 431, 632
LweI	GCATC	2 cut(s)	540, 959
MaeI	CTAG	1 cut(s)	246
MaeII	ACGT	1 cut(s)	331
MaeIII	GTNAC	2 cut(s)	284, 774
MalI	GATC	5 cut(s)	50, 366, 393, 571, 868
MboI	GATC	5 cut(s)	48, 364, 391, 569, 866
MboII	GAAGA	4 cut(s)	90, 278, 284, 944
MflI	RGATCY	2 cut(s)	569, 866
MhlI	GDGCHC	2 cut(s)	256, 281
MluCI	AATT	8 cut(s)	16, 106, 257, 352, 410, 497, 814, 851
MlyI	GAGTC	3 cut(s)	194, 587, 624
MnlI	CCTC	9 cut(s)	72, 172, 196, 242, 256, 268, 350, 519, 928
Mph1103I	ATGCAT	1 cut(s)	555
MseI	TTAA	5 cut(s)	227, 440, 528, 855, 885
MslI	CAYNNNNRTG	1 cut(s)	620
MspA1I	CMGCKG	2 cut(s)	30, 422
MspI	CCGG	1 cut(s)	590
MspR9I	CCNGG	1 cut(s)	369
MvaI	CCWGG	1 cut(s)	369
MwoI	GCNNNNNNNGC	2 cut(s)	645, 843
NdeI	CATATG	1 cut(s)	555
NdeII	GATC	5 cut(s)	48, 364, 391, 569, 866
NlaIII	CATG	8 cut(s)	61, 200, 507, 569, 740, 809, 908, 970
NmuCI	GTSAC	2 cut(s)	284, 774
NsbI	TGCGCA	1 cut(s)	649
NsiI	ATGCAT	1 cut(s)	555
NspI	RCATGY	1 cut(s)	970
PagI	TCATGA	2 cut(s)	196, 805
PceI	AGGCCT	1 cut(s)	339
PciI	ACATGT	1 cut(s)	966
PfeI	GAWTC	3 cut(s)	89, 460, 478
PflMI	CCANNNNNTGG	1 cut(s)	374
PkrI	GCNGC	5 cut(s)	32, 421, 424, 647, 845
PleI	GAGTC	3 cut(s)	194, 587, 624
PpsI	GAGTC	3 cut(s)	194, 587, 624
Ppu21I	YACGTR	1 cut(s)	332
PpuMI	RGGWCCY	1 cut(s)	747
PscI	ACATGT	1 cut(s)	966
Psp5II	RGGWCCY	1 cut(s)	747
Psp6I	CCWGG	1 cut(s)	367
PspGI	CCWGG	1 cut(s)	367
PspPI	GGNCC	3 cut(s)	488, 587, 747
PspPPI	RGGWCCY	1 cut(s)	747
PstNI	CAGNNNCTG	1 cut(s)	953
PsuI	RGATCY	2 cut(s)	569, 866
PvuII	CAGCTG	1 cut(s)	422
RseI	CAYNNNNRTG	1 cut(s)	620
SaqAI	TTAA	5 cut(s)	227, 440, 528, 855, 885
SatI	GCNGC	5 cut(s)	31, 420, 423, 646, 844
Sau3AI	GATC	5 cut(s)	48, 364, 391, 569, 866
Sau96I	GGNCC	3 cut(s)	488, 587, 747
SchI	GAGTC	3 cut(s)	194, 587, 624
ScrFI	CCNGG	1 cut(s)	369
SduI	GDGCHC	2 cut(s)	256, 281
SfaNI	GCATC	2 cut(s)	540, 959
SinI	GGWCC	2 cut(s)	587, 747
SmiMI	CAYNNNNRTG	1 cut(s)	620
SmlI	CTYRAG	1 cut(s)	695
SmoI	CTYRAG	1 cut(s)	695
SnaBI	TACGTA	1 cut(s)	332
Sse9I	AATT	8 cut(s)	16, 106, 257, 352, 410, 497, 814, 851
SseBI	AGGCCT	1 cut(s)	339
SsiI	CCGC	2 cut(s)	30, 843
SspMI	CTAG	1 cut(s)	246
StuI	AGGCCT	1 cut(s)	339
StyD4I	CCNGG	1 cut(s)	367
TaiI	ACGT	1 cut(s)	334
TaqI	TCGA	3 cut(s)	312, 915, 921
TasI	AATT	8 cut(s)	16, 106, 257, 352, 410, 497, 814, 851
TauI	GCSGC	2 cut(s)	33, 846
TfiI	GAWTC	3 cut(s)	89, 460, 478
Tru1I	TTAA	5 cut(s)	227, 440, 528, 855, 885
Tru9I	TTAA	5 cut(s)	227, 440, 528, 855, 885
TseFI	GTSAC	2 cut(s)	284, 774
TseI	GCWGC	3 cut(s)	419, 422, 645
Tsp45I	GTSAC	2 cut(s)	284, 774
TspDTI	ATGAA	6 cut(s)	46, 285, 423, 742, 822, 957
Van91I	CCANNNNNTGG	1 cut(s)	374
VpaK11BI	GGWCC	2 cut(s)	587, 747
XapI	RAATTY	1 cut(s)	851
XceI	RCATGY	1 cut(s)	970
XspI	CTAG	1 cut(s)	246
Zsp2I	ATGCAT	1 cut(s)	555

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