Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0005990

Physical Location & Seq

Genomic Coordinates Reverse (-)

1088231 .. 1093165

Gene Structure 4935 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG009300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1329 bp

ATGACAGACCCTAAAAATTACAACTCCAGCGGCCTCAATAGATGGATCAACTTCATGCCTCCCCATCCACAATACTACTGCTCTGAATCCACTTCTTCTTTCAATTCCAATCCTTATCCACATCATCAGTTCTCTCATAACTTGATGTATAACAACTCCTCCTGTGTTGTTCAGAACCAACCCTCATCATCTCATGATTCTCATCTGAAAGAAACTCTGCCTTTAATAAACAAACTAAACCCTAGAGGAGCACAATTAGAGGAAGAGGGCACAAGTCACAACCCCAAGAACAAAGTTGATGTCGATGATGATGTAGCCCTACGTATAGGCCTCCCAAGTAGTAATTATAGTATTGATCCAGGTAGTGGTGGTATGGAAGTAGATCAATCTAATGATGAATTAGGAGCAGCTGCGAGTGTGGACAGATTAAACAAGGGTCATTACTGGATTCCCACCCCTTCTCAGATTCTAAATGGCCCAACTCAATTCTCATGTCCTCTGTGCTCCAACACCTTTAACAGACACAATAACTTGCAGAACCAACCCTCATCATCTCATGATTCTCATCTGAAAGAAGCTCTGCCTTTAATAAACAAACTAAACCCTAGAGGAGCACAATTAGAGGAAGAGGAAGAGGGCACAAGCCACAACCCCAAGAACAAAGCTGATGTCGATGATGGTGTAGCCCTACGTATAGGCCTCCCAAGTAGTAATTATAGTATTGATCCAGGTAGTGGTGGTATGGAAGTAGATCAATCTAATGATAAATTAGGAGCAGCTGCGAGTGTGGACAGATTAAACAAGGGTCATTACAGGATTCCCACCCCTTCTCAGATTCTAAATAGCCCAACTCAATTCTCATGTCCTCTGTGCTCCAAATCCTTTAACAGATACAATAACTTGCAGATGCATATGTGGGGACATGGATCTCAATACAGGAAAGGACCGGACTCTCTAAAAGGAAATCAGTCCACAGCAATGCTGAGACTCCCTTGCTACTGCTGCGCACAAGGTTGCAAGCACAACATTGACCACCCAAGAGCCAGACAACTCAAGGACTTCAGAACTCTCCAAGCACATTACAAGAGAAAGCATGGGATAAGGTCCTTCATCTGCAAAAGATGTGGCAAGTCACTTGCTCTGAAAGGTGATTGGAGAACTCATGAAAAAAACTGTGGCAAGATTTGGCATTGCATTTGCGGCTCTGTATTTAAGCACAAGAGATCTCTCAAAGACCACGTTAAGTCCTTCGGTGAAGGACATGGAGCTTTCGATATCGAGTGTTTTGAAGAGGATGATGAACCAGCATCTGAAATAGAACACATGTGA

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

442

Amino Acids

49.42

Weight (kDa)

7.33

Isoelectric Point (pI)

51.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C2H2_STOP2_3rd	PF23115	332 - 366	5e-16	STOP2-like, C2H2-type zinc finger
C2CH-3rd_BIRD-IDD	PF22995	370 - 393	1.3e-09	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)	1006
AccB7I	CCANNNNNTGG	2 cut(s)	365, 734
AciI	CCGC	2 cut(s)	30, 1200
AclWI	GGATC	4 cut(s)	53, 350, 719, 934
AcuI	CTGAAG	1 cut(s)	1045
AfiI	CCNNNNNNNGG	2 cut(s)	365, 734
AflIII	ACRYGT	1 cut(s)	1323
AgsI	TTSAA	2 cut(s)	103, 1289
AjnI	CCWGG	2 cut(s)	358, 727
AluBI	AGCT	5 cut(s)	410, 578, 665, 779, 1268
AluI	AGCT	5 cut(s)	410, 578, 665, 779, 1268
Alw21I	GWGCWC	4 cut(s)	253, 506, 616, 875
Alw26I	GTCTC	1 cut(s)	979
AlwI	GGATC	4 cut(s)	53, 350, 719, 934
AlwNI	CAGNNNCTG	1 cut(s)	1310
AoxI	GGCC	4 cut(s)	31, 328, 475, 697
ApeKI	GCWGC	5 cut(s)	407, 410, 776, 779, 1002
ArsI	GACNNNNNNTTYG	4 cut(s)	285, 317, 654, 686
AspLEI	GCGC	1 cut(s)	1007
AspS9I	GGNCC	3 cut(s)	476, 944, 1104
AsuHPI	GGTGA	2 cut(s)	1160, 1265
AvaII	GGWCC	2 cut(s)	944, 1104
BaeGI	GKGCMC	2 cut(s)	272, 641
Bbv12I	GWGCWC	4 cut(s)	253, 506, 616, 875
BbvI	GCAGC	5 cut(s)	397, 419, 766, 788, 989
BccI	CCATC	3 cut(s)	36, 72, 671
BciT130I	CCWGG	2 cut(s)	360, 729
BcoDI	GTCTC	1 cut(s)	979
BfaI	CTAG	2 cut(s)	243, 606
BglII	AGATCT	1 cut(s)	1223
BisI	GCNGC	7 cut(s)	31, 408, 411, 777, 780, 1003, 1201
BlsI	GCNGC	7 cut(s)	32, 409, 412, 778, 781, 1004, 1202
Bme1390I	CCNGG	2 cut(s)	360, 729
Bme18I	GGWCC	2 cut(s)	944, 1104
BmgT120I	GGNCC	3 cut(s)	476, 944, 1104
BmrFI	CCNGG	2 cut(s)	360, 729
BmsI	GCATC	2 cut(s)	897, 1316
BpmI	CTGGAG	1 cut(s)	10
BpuEI	CTTGAG	1 cut(s)	1037
BsaAI	YACGTR	2 cut(s)	323, 692
BsaBI	GATNNNNATC	2 cut(s)	201, 564
BsaWI	WCCGGW	1 cut(s)	946
BsaXI	ACNNNNNCTCC	2 cut(s)	143, 173
Bsc4I	CCNNNNNNNGG	2 cut(s)	365, 734
Bse1I	ACTGG	1 cut(s)	449
Bse3DI	GCAATG	2 cut(s)	984, 1189
Bse8I	GATNNNNATC	2 cut(s)	201, 564
BseBI	CCWGG	2 cut(s)	360, 729
BseGI	GGATG	2 cut(s)	64, 1300
BseJI	GATNNNNATC	2 cut(s)	201, 564
BseLI	CCNNNNNNNGG	2 cut(s)	365, 734
BseMI	GCAATG	2 cut(s)	984, 1189
BseMII	CTCAG	3 cut(s)	476, 845, 974
BseNI	ACTGG	1 cut(s)	449
BseRI	GAGGAG	3 cut(s)	148, 261, 624
BseSI	GKGCMC	2 cut(s)	272, 641
BseXI	GCAGC	5 cut(s)	397, 419, 766, 788, 989
BshFI	GGCC	4 cut(s)	33, 330, 477, 699
BsiHKAI	GWGCWC	4 cut(s)	253, 506, 616, 875
BsiSI	CCGG	1 cut(s)	947
BslFI	GGGAC	1 cut(s)	933
BslI	CCNNNNNNNGG	2 cut(s)	365, 734
BsmAI	GTCTC	1 cut(s)	979
BsmFI	GGGAC	1 cut(s)	933
BsnI	GGCC	4 cut(s)	33, 330, 477, 699
Bsp1286I	GDGCHC	6 cut(s)	253, 272, 506, 616, 641, 875
Bsp143I	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
BspACI	CCGC	2 cut(s)	30, 1200
BspANI	GGCC	4 cut(s)	33, 330, 477, 699
BspCNI	CTCAG	3 cut(s)	475, 844, 975
BspHI	TCATGA	3 cut(s)	193, 556, 1162
BspPI	GGATC	4 cut(s)	53, 350, 719, 934
BsrDI	GCAATG	2 cut(s)	984, 1189
BsrI	ACTGG	1 cut(s)	449
BssMI	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
Bst2UI	CCWGG	2 cut(s)	360, 729
Bst4CI	ACNGT	1 cut(s)	1175
Bst6I	CTCTTC	4 cut(s)	258, 621, 627, 1284
BstBAI	YACGTR	2 cut(s)	323, 692
BstC8I	GCNNGC	1 cut(s)	1019
BstDEI	CTNAG	3 cut(s)	462, 831, 983
BstF5I	GGATG	2 cut(s)	64, 1300
BstHHI	GCGC	1 cut(s)	1007
BstKTI	GATC	7 cut(s)	48, 358, 385, 727, 754, 929, 1226
BstMAI	GTCTC	1 cut(s)	979
BstMBI	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
BstMWI	GCNNNNNNNGC	2 cut(s)	1002, 1200
BstNI	CCWGG	2 cut(s)	360, 729
BstNSI	RCATGY	1 cut(s)	1327
BstSCI	CCNGG	2 cut(s)	358, 727
BstSLI	GKGCMC	2 cut(s)	272, 641
BstSNI	TACGTA	2 cut(s)	323, 692
BstV1I	GCAGC	5 cut(s)	397, 419, 766, 788, 989
BstX2I	RGATCY	2 cut(s)	926, 1223
BstYI	RGATCY	2 cut(s)	926, 1223
BsuRI	GGCC	4 cut(s)	33, 330, 477, 699
BtsCI	GGATG	2 cut(s)	64, 1300
Cac8I	GCNNGC	1 cut(s)	1019
CaiI	CAGNNNCTG	1 cut(s)	1310
CciI	TCATGA	3 cut(s)	193, 556, 1162
CfoI	GCGC	1 cut(s)	1007
Cfr13I	GGNCC	3 cut(s)	476, 944, 1104
CspCI	CAANNNNNGTGG	2 cut(s)	1105, 1140
DdeI	CTNAG	3 cut(s)	462, 831, 983
DpnI	GATC	7 cut(s)	47, 357, 384, 726, 753, 928, 1225
DpnII	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
Eam1104I	CTCTTC	4 cut(s)	258, 621, 627, 1284
EarI	CTCTTC	4 cut(s)	258, 621, 627, 1284
Eco105I	TACGTA	2 cut(s)	323, 692
Eco147I	AGGCCT	2 cut(s)	330, 699
Eco32I	GATATC	1 cut(s)	1276
Eco47I	GGWCC	2 cut(s)	944, 1104
Eco57I	CTGAAG	1 cut(s)	1045
EcoO109I	RGGNCCY	1 cut(s)	1104
EcoRII	CCWGG	2 cut(s)	358, 727
EcoRV	GATATC	1 cut(s)	1276
EcoT22I	ATGCAT	1 cut(s)	912
FaqI	GGGAC	1 cut(s)	933
FauNDI	CATATG	1 cut(s)	912
Fnu4HI	GCNGC	7 cut(s)	31, 408, 411, 777, 780, 1003, 1201
FokI	GGATG	2 cut(s)	51, 1307
Fsp4HI	GCNGC	7 cut(s)	31, 408, 411, 777, 780, 1003, 1201
FspBI	CTAG	2 cut(s)	243, 606
FspI	TGCGCA	1 cut(s)	1006
GlaI	GCGC	1 cut(s)	1006
GluI	GCNGC	7 cut(s)	31, 408, 411, 777, 780, 1003, 1201
GsuI	CTGGAG	1 cut(s)	10
HaeIII	GGCC	4 cut(s)	33, 330, 477, 699
HapII	CCGG	1 cut(s)	947
HhaI	GCGC	1 cut(s)	1007
Hin6I	GCGC	1 cut(s)	1005
HinP1I	GCGC	1 cut(s)	1005
HinfI	GANTC	9 cut(s)	86, 197, 448, 466, 560, 817, 835, 950, 987
HpaII	CCGG	1 cut(s)	947
HphI	GGTGA	2 cut(s)	1160, 1265
Hpy166II	GTNNAC	3 cut(s)	421, 790, 972
Hpy188I	TCNGA	9 cut(s)	85, 174, 207, 465, 570, 834, 1064, 1143, 1312
Hpy188III	TCNNGA	3 cut(s)	194, 557, 1163
Hpy8I	GTNNAC	3 cut(s)	421, 790, 972
HpyAV	CCTTC	5 cut(s)	468, 837, 1117, 1250, 1258
HpyCH4III	ACNGT	1 cut(s)	1175
HpyCH4IV	ACGT	3 cut(s)	322, 691, 1239
HpyCH4V	TGCA	6 cut(s)	535, 904, 910, 1017, 1116, 1194
HpyF10VI	GCNNNNNNNGC	2 cut(s)	1002, 1200
HpyF3I	CTNAG	3 cut(s)	462, 831, 983
HpySE526I	ACGT	3 cut(s)	322, 691, 1239
HspAI	GCGC	1 cut(s)	1005
Kzo9I	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
LmnI	GCTCC	7 cut(s)	248, 404, 509, 611, 773, 878, 1265
Lsp1109I	GCAGC	5 cut(s)	397, 419, 766, 788, 989
LweI	GCATC	2 cut(s)	897, 1316
MaeI	CTAG	2 cut(s)	243, 606
MaeII	ACGT	3 cut(s)	322, 691, 1239
MaeIII	GTNAC	2 cut(s)	275, 1131
MalI	GATC	7 cut(s)	47, 357, 384, 726, 753, 928, 1225
MboI	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
MboII	GAAGA	5 cut(s)	87, 275, 638, 644, 1301
MflI	RGATCY	2 cut(s)	926, 1223
MhlI	GDGCHC	6 cut(s)	253, 272, 506, 616, 641, 875
MlyI	GAGTC	2 cut(s)	944, 981
MmeI	TCCRAC	1 cut(s)	531
Mph1103I	ATGCAT	1 cut(s)	912
MseI	TTAA	8 cut(s)	224, 428, 516, 587, 797, 885, 1212, 1242
MslI	CAYNNNNRTG	1 cut(s)	977
MspA1I	CMGCKG	3 cut(s)	30, 410, 779
MspI	CCGG	1 cut(s)	947
MspR9I	CCNGG	2 cut(s)	360, 729
MvaI	CCWGG	2 cut(s)	360, 729
MwoI	GCNNNNNNNGC	2 cut(s)	1002, 1200
NdeI	CATATG	1 cut(s)	912
NdeII	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
NmuCI	GTSAC	2 cut(s)	275, 1131
NsbI	TGCGCA	1 cut(s)	1006
NsiI	ATGCAT	1 cut(s)	912
NspI	RCATGY	1 cut(s)	1327
PagI	TCATGA	3 cut(s)	193, 556, 1162
PceI	AGGCCT	2 cut(s)	330, 699
PciI	ACATGT	1 cut(s)	1323
PfeI	GAWTC	7 cut(s)	86, 197, 448, 466, 560, 817, 835
PflMI	CCANNNNNTGG	2 cut(s)	365, 734
PkrI	GCNGC	7 cut(s)	32, 409, 412, 778, 781, 1004, 1202
PleI	GAGTC	2 cut(s)	944, 981
PpsI	GAGTC	2 cut(s)	944, 981
Ppu21I	YACGTR	2 cut(s)	323, 692
PpuMI	RGGWCCY	1 cut(s)	1104
PscI	ACATGT	1 cut(s)	1323
Psp5II	RGGWCCY	1 cut(s)	1104
Psp6I	CCWGG	2 cut(s)	358, 727
PspGI	CCWGG	2 cut(s)	358, 727
PspPI	GGNCC	3 cut(s)	476, 944, 1104
PspPPI	RGGWCCY	1 cut(s)	1104
PstNI	CAGNNNCTG	1 cut(s)	1310
PsuI	RGATCY	2 cut(s)	926, 1223
PvuII	CAGCTG	2 cut(s)	410, 779
RseI	CAYNNNNRTG	1 cut(s)	977
SaqAI	TTAA	8 cut(s)	224, 428, 516, 587, 797, 885, 1212, 1242
SatI	GCNGC	7 cut(s)	31, 408, 411, 777, 780, 1003, 1201
Sau3AI	GATC	7 cut(s)	45, 355, 382, 724, 751, 926, 1223
Sau96I	GGNCC	3 cut(s)	476, 944, 1104
SchI	GAGTC	2 cut(s)	944, 981
ScrFI	CCNGG	2 cut(s)	360, 729
SduI	GDGCHC	6 cut(s)	253, 272, 506, 616, 641, 875
SfaNI	GCATC	2 cut(s)	897, 1316
SinI	GGWCC	2 cut(s)	944, 1104
SmiMI	CAYNNNNRTG	1 cut(s)	977
SmlI	CTYRAG	1 cut(s)	1052
SmoI	CTYRAG	1 cut(s)	1052
SnaBI	TACGTA	2 cut(s)	323, 692
SseBI	AGGCCT	2 cut(s)	330, 699
SsiI	CCGC	2 cut(s)	30, 1200
SspMI	CTAG	2 cut(s)	243, 606
StuI	AGGCCT	2 cut(s)	330, 699
StyD4I	CCNGG	2 cut(s)	358, 727
TaaI	ACNGT	1 cut(s)	1175
TaiI	ACGT	3 cut(s)	325, 694, 1242
TaqI	TCGA	4 cut(s)	303, 672, 1272, 1278
TauI	GCSGC	2 cut(s)	33, 1203
TfiI	GAWTC	7 cut(s)	86, 197, 448, 466, 560, 817, 835
Tru1I	TTAA	8 cut(s)	224, 428, 516, 587, 797, 885, 1212, 1242
Tru9I	TTAA	8 cut(s)	224, 428, 516, 587, 797, 885, 1212, 1242
TseFI	GTSAC	2 cut(s)	275, 1131
TseI	GCWGC	5 cut(s)	407, 410, 776, 779, 1002
Tsp45I	GTSAC	2 cut(s)	275, 1131
TspDTI	ATGAA	5 cut(s)	43, 411, 1099, 1179, 1314
Van91I	CCANNNNNTGG	2 cut(s)	365, 734
VpaK11BI	GGWCC	2 cut(s)	944, 1104
XceI	RCATGY	1 cut(s)	1327
XspI	CTAG	2 cut(s)	243, 606
Zsp2I	ATGCAT	1 cut(s)	912

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