Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001559

Physical Location & Seq

Genomic Coordinates Forward (+)

19415009 .. 19418975

Gene Structure 3967 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG206600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1203 bp

ATGGCAACTCTAGCTGATTCATTTCTTGCTGATCTTGATGAGCTATCTGACAATGAAGCCGATGTTCCTGTTGAAGATGATGCTGATATTGCAAACATGGAGGAAGATGTCGATGGGGACTTGGCAGACTTAGAGACACTTAACTATGATGATCTGGATAGTGTTTCAAAATTGCAGAAATCACAAAGATTTGCTGATATAATGCAGAAAGTGGAAGGTGCACTTGAGAAGGGTTCCGATATGTCAAACCATGCACTAGTTTTGGAAGATGATCCAGAATATCAGCTGATTGTGGACTGTAATGCTTTGTCAGTTGACATTGAGAATGAACTTGTAATCATCCACAATTTTATTCGTGACAAATACCGGCCAAAATTTCCAGAGCTCGAGTCACTTGTTCATCATCCAATTGATTATGCTCGAGTTGTTCAGAAAATTGGGAATGAAATGGATGTAACCCTTGTTGATCTGGAGGGGCTTTTACCTTCAGCAACTATTATGGTTGTGTCAGTTACAGCTTCAACTACAAGTGGAAAGCCACTTCCGGAGGACGTCCTGGAGAAAATAGTTGATGCATGTGATCGAGCCCTTTCTCTCGATTCAGCAAAGAAAAAGGTTCTTGATTTTGTAGAAAGTAGAATGGGTTTTATTGCACCAAATCTTTCTGCTATTGTTGGGAGTGCTGTTGCGGCGAAACTTATGGGGATGGCTGGTGGTCTTGCTGCCTTAGCTAAAATGCCTGCTTGTAATGTTCAGCTTCTTGGTGCTAAGAAAAAAAATCTTGCTGGGTTTTCCACTGCAACGTCACAATATCGTATTGGTTATGTTGAGGAGACAGAGATATTTCAAACTACACCCCCTGCTCTTAGGATGCGTGCTGGTCGGCTCTTGGCTGCAAAATCAACCCTTGCAGCACGGGTGGATTCTACGAGAGGAGATCCATCTGGGAACACCGGAAAGGCATTCCGAGAGGAGATCCGTAAGAAAATTGAAAAATGGCAGGAGCCTCCCCCTGCAAAGCAACCTAAACCACTTCCGGTTCCTGATTCTGAACCTAAAAAGAAGAGAGGTGGACGTCGACTCAGGAAGATGAAAGAAAGATATGCGATAACAGACATGAGGAAGCTCGCAAACAGGATGCAGTTTGGCATACCTGAAGAGAGTTCTTTAGGTAATTTTCTGTCTTCGGTCTTCTTTAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

Nop Prp31_C

Protein Analysis

400

Amino Acids

44.0

Weight (kDa)

5.09

Isoelectric Point (pI)

39.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nop	PF01798	104 - 332	2.7e-73	snoRNA binding domain, fibrillarin
Prp31_C	PF09785	339 - 388	3.8e-22	Prp31 C terminal 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: OG0001559)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G60170 AT1G70400 AT1G70400 AT1G70400
fragaria_vesca	FvH4_1g17710 FvH4_1g17710 FvH4_1g17710 FvH4_1g17710 FvH4_1g17710
malus_domestica	MD02G1186000.v1.1 MD15G1297200.v1.1 MD15G1297400.v1.1
prunus_persica	Prupe.5G061600_v2.0.a1 Prupe.5G061600_v2.0.a1 Prupe.5G061600_v2.0.a1 Prupe.5G061600_v2.0.a1 Prupe.5G061600_v2.0.a1 Prupe.5G061600_v2.0.a1 Prupe.5G061600_v2.0.a1 Prupe.6G220500_v2.0.a1 Prupe.6G220500_v2.0.a1
pyrus_communis	pycom02g15100
rosa_chinensis	RchiOBHm_Chr1g0315331 RchiOBHm_Chr2g0108041 RchiOBHm_Chr2g0132891 RchiOBHm_Chr2g0140521 RchiOBHm_Chr2g0166471 RchiOBHm_Chr7g0232501
rosa_laevigata	RLG00000017635 RLG00000027115
rosa_multiflora	Rmu_sc0001484.1_g000012
rosa_roxburghii	Rroxscaffold_1G00053870 Rroxscaffold_1G00053900 Rroxscaffold_2G00135680 Rroxscaffold_2G00144490
rosa_rugosa	Rorug02G0149800 Rorug02G0633300 Rorug03G0334600 Rorug05G0127600
rosa_samantha	Rh1AG025700 Rh1BG171200 Rh2AG199000 Rh2BG211800 Rh2CG203600 Rh2CG295600 Rh2CG572100 Rh2DG206600 Rh2DG576900 Rh4DG178400
rosa_wichuraiana	Rw2G015790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	2 cut(s)	555, 1078
AccI	GTMKAC	1 cut(s)	1078
AccIII	TCCGGA	1 cut(s)	544
AciI	CCGC	1 cut(s)	689
AclWI	GGATC	3 cut(s)	266, 932, 970
AcoI	YGGCCR	1 cut(s)	368
AcsI	RAATTY	1 cut(s)	374
AcuI	CTGAAG	2 cut(s)	471, 1176
AcyI	GRCGYC	2 cut(s)	552, 1075
AgsI	TTSAA	5 cut(s)	74, 168, 522, 848, 992
AhlI	ACTAGT	1 cut(s)	256
AjnI	CCWGG	1 cut(s)	555
AluBI	AGCT	8 cut(s)	14, 43, 286, 385, 518, 731, 757, 1126
AluI	AGCT	8 cut(s)	14, 43, 286, 385, 518, 731, 757, 1126
Alw21I	GWGCWC	2 cut(s)	223, 387
Alw26I	GTCTC	2 cut(s)	128, 827
Alw44I	GTGCAC	1 cut(s)	219
AlwI	GGATC	3 cut(s)	266, 932, 970
Ama87I	CYCGRG	2 cut(s)	386, 420
Aor13HI	TCCGGA	1 cut(s)	544
AoxI	GGCC	1 cut(s)	368
ApaLI	GTGCAC	1 cut(s)	219
ApeKI	GCWGC	3 cut(s)	722, 893, 911
ApoI	RAATTY	1 cut(s)	374
AvaI	CYCGRG	2 cut(s)	386, 420
BaeGI	GKGCMC	1 cut(s)	223
BanII	GRGCYC	2 cut(s)	387, 589
BbsI	GAAGAC	2 cut(s)	1176, 1183
Bbv12I	GWGCWC	2 cut(s)	223, 387
BbvI	GCAGC	3 cut(s)	709, 880, 923
BccI	CCATC	3 cut(s)	107, 700, 949
BciT130I	CCWGG	1 cut(s)	557
BcoDI	GTCTC	2 cut(s)	128, 827
BcuI	ACTAGT	1 cut(s)	256
BfaI	CTAG	2 cut(s)	11, 257
BisI	GCNGC	4 cut(s)	690, 723, 894, 912
BlsI	GCNGC	4 cut(s)	691, 724, 895, 913
Bme1390I	CCNGG	1 cut(s)	557
BmeT110I	CYCGRG	2 cut(s)	386, 420
BmiI	GGNNCC	3 cut(s)	235, 1005, 1041
BmrFI	CCNGG	1 cut(s)	557
BmsI	GCATC	4 cut(s)	70, 562, 861, 1128
BpiI	GAAGAC	2 cut(s)	1176, 1183
BpmI	CTGGAG	2 cut(s)	491, 578
Bpu10I	CCTNAGC	1 cut(s)	727
BpuEI	CTTGAG	1 cut(s)	245
BsaHI	GRCGYC	2 cut(s)	552, 1075
BsaWI	WCCGGW	3 cut(s)	544, 953, 1036
Bse118I	RCCGGY	1 cut(s)	366
BseAI	TCCGGA	1 cut(s)	544
BseBI	CCWGG	1 cut(s)	557
BseGI	GGATG	6 cut(s)	339, 403, 457, 711, 876, 1143
BseMII	CTCAG	1 cut(s)	1096
BseRI	GAGGAG	3 cut(s)	845, 948, 986
BseSI	GKGCMC	1 cut(s)	223
BseXI	GCAGC	3 cut(s)	709, 880, 923
BseYI	CCCAGC	1 cut(s)	785
BshFI	GGCC	1 cut(s)	370
BsiHKAI	GWGCWC	2 cut(s)	223, 387
BsiHKCI	CYCGRG	2 cut(s)	386, 420
BsiSI	CCGG	4 cut(s)	367, 545, 954, 1037
BslFI	GGGAC	1 cut(s)	131
BsmAI	GTCTC	2 cut(s)	128, 827
BsmFI	GGGAC	1 cut(s)	131
BsmI	GAATGC	1 cut(s)	962
BsnI	GGCC	1 cut(s)	370
BsoBI	CYCGRG	2 cut(s)	386, 420
Bsp1286I	GDGCHC	3 cut(s)	223, 387, 589
Bsp13I	TCCGGA	1 cut(s)	544
Bsp143I	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
BspACI	CCGC	1 cut(s)	689
BspANI	GGCC	1 cut(s)	370
BspCNI	CTCAG	1 cut(s)	1095
BspEI	TCCGGA	1 cut(s)	544
BspLI	GGNNCC	3 cut(s)	235, 1005, 1041
BspPI	GGATC	3 cut(s)	266, 932, 970
BsrFI	RCCGGY	1 cut(s)	366
BssAI	RCCGGY	1 cut(s)	366
BssMI	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
BssNI	GRCGYC	2 cut(s)	552, 1075
Bst2UI	CCWGG	1 cut(s)	557
Bst4CI	ACNGT	1 cut(s)	299
Bst6I	CTCTTC	2 cut(s)	1058, 1152
BstACI	GRCGYC	2 cut(s)	552, 1075
BstC8I	GCNNGC	3 cut(s)	741, 876, 1128
BstDEI	CTNAG	5 cut(s)	130, 727, 768, 866, 1082
BstF5I	GGATG	6 cut(s)	339, 403, 457, 711, 876, 1143
BstKTI	GATC	7 cut(s)	34, 154, 274, 469, 583, 940, 978
BstMAI	GTCTC	2 cut(s)	128, 827
BstMBI	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 89, 689, 728
BstNI	CCWGG	1 cut(s)	557
BstNSI	RCATGY	1 cut(s)	579
BstSCI	CCNGG	1 cut(s)	555
BstSLI	GKGCMC	1 cut(s)	223
BstV1I	GCAGC	3 cut(s)	709, 880, 923
BstV2I	GAAGAC	2 cut(s)	1176, 1183
BstX2I	RGATCY	2 cut(s)	937, 975
BstYI	RGATCY	2 cut(s)	937, 975
BsuRI	GGCC	1 cut(s)	370
BtsCI	GGATG	6 cut(s)	339, 403, 457, 711, 876, 1143
BtsI	GCAGTG	1 cut(s)	795
BtsIMutI	CAGTG	1 cut(s)	795
Cac8I	GCNNGC	3 cut(s)	741, 876, 1128
Cfr10I	RCCGGY	1 cut(s)	366
CviAII	CATG	4 cut(s)	97, 251, 576, 1117
DdeI	CTNAG	5 cut(s)	130, 727, 768, 866, 1082
DpnI	GATC	7 cut(s)	33, 153, 273, 468, 582, 939, 977
DpnII	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
EaeI	YGGCCR	1 cut(s)	368
Eam1104I	CTCTTC	2 cut(s)	1058, 1152
EarI	CTCTTC	2 cut(s)	1058, 1152
Ecl136II	GAGCTC	1 cut(s)	385
Eco24I	GRGCYC	2 cut(s)	387, 589
Eco53kI	GAGCTC	1 cut(s)	385
Eco57I	CTGAAG	2 cut(s)	471, 1176
Eco88I	CYCGRG	2 cut(s)	386, 420
EcoICRI	GAGCTC	1 cut(s)	385
EcoRII	CCWGG	1 cut(s)	555
EcoT22I	ATGCAT	1 cut(s)	577
EcoT38I	GRGCYC	2 cut(s)	387, 589
FaeI	CATG	4 cut(s)	100, 254, 579, 1120
FalI	AAGNNNNNCTT	2 cut(s)	207, 239
FaqI	GGGAC	1 cut(s)	131
FatI	CATG	4 cut(s)	96, 250, 575, 1116
FblI	GTMKAC	1 cut(s)	1078
Fnu4HI	GCNGC	4 cut(s)	690, 723, 894, 912
FokI	GGATG	6 cut(s)	326, 390, 464, 718, 883, 1150
FriOI	GRGCYC	2 cut(s)	387, 589
Fsp4HI	GCNGC	4 cut(s)	690, 723, 894, 912
FspBI	CTAG	2 cut(s)	11, 257
GluI	GCNGC	4 cut(s)	690, 723, 894, 912
GsaI	CCCAGC	1 cut(s)	789
GsuI	CTGGAG	2 cut(s)	491, 578
HaeIII	GGCC	1 cut(s)	370
HapII	CCGG	4 cut(s)	367, 545, 954, 1037
Hin1I	GRCGYC	2 cut(s)	552, 1075
Hin1II	CATG	4 cut(s)	100, 254, 579, 1120
HincII	GTYRAC	2 cut(s)	316, 1079
HindII	GTYRAC	2 cut(s)	316, 1079
HinfI	GANTC	6 cut(s)	17, 389, 599, 923, 1046, 1080
HpaII	CCGG	4 cut(s)	367, 545, 954, 1037
Hpy166II	GTNNAC	5 cut(s)	221, 295, 316, 1073, 1079
Hpy188I	TCNGA	5 cut(s)	49, 238, 432, 968, 1051
Hpy8I	GTNNAC	5 cut(s)	221, 295, 316, 1073, 1079
Hpy99I	CGWCG	1 cut(s)	1080
HpyAV	CCTTC	3 cut(s)	209, 223, 495
HpyCH4III	ACNGT	1 cut(s)	299
HpyCH4IV	ACGT	3 cut(s)	552, 803, 1075
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 89, 689, 728
HpyF3I	CTNAG	5 cut(s)	130, 727, 768, 866, 1082
HpySE526I	ACGT	3 cut(s)	552, 803, 1075
Hsp92I	GRCGYC	2 cut(s)	552, 1075
Hsp92II	CATG	4 cut(s)	100, 254, 579, 1120
Kpn2I	TCCGGA	1 cut(s)	544
Kzo9I	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
LmnI	GCTCC	1 cut(s)	1003
Lsp1109I	GCAGC	3 cut(s)	709, 880, 923
LweI	GCATC	4 cut(s)	70, 562, 861, 1128
MaeI	CTAG	2 cut(s)	11, 257
MaeII	ACGT	3 cut(s)	552, 803, 1075
MaeIII	GTNAC	5 cut(s)	356, 390, 454, 511, 804
MalI	GATC	7 cut(s)	33, 153, 273, 468, 582, 939, 977
MboI	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
MboII	GAAGA	8 cut(s)	86, 116, 278, 1075, 1099, 1169, 1176, 1183
MfeI	CAATTG	1 cut(s)	408
MflI	RGATCY	2 cut(s)	937, 975
MhlI	GDGCHC	3 cut(s)	223, 387, 589
MluCI	AATT	7 cut(s)	170, 346, 374, 408, 435, 987, 1174
MlyI	GAGTC	2 cut(s)	398, 1074
MnlI	CCTC	9 cut(s)	94, 466, 541, 823, 926, 964, 1017, 1061, 1113
Mph1103I	ATGCAT	1 cut(s)	577
MroI	TCCGGA	1 cut(s)	544
MseI	TTAA	1 cut(s)	141
MspA1I	CMGCKG	1 cut(s)	286
MspI	CCGG	4 cut(s)	367, 545, 954, 1037
MspR9I	CCNGG	1 cut(s)	557
MunI	CAATTG	1 cut(s)	408
Mva1269I	GAATGC	1 cut(s)	962
MvaI	CCWGG	1 cut(s)	557
MwoI	GCNNNNNNNGC	4 cut(s)	11, 89, 689, 728
NdeII	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
NlaIII	CATG	4 cut(s)	100, 254, 579, 1120
NlaIV	GGNNCC	3 cut(s)	235, 1005, 1041
NmuCI	GTSAC	3 cut(s)	356, 390, 804
NsiI	ATGCAT	1 cut(s)	577
NspI	RCATGY	1 cut(s)	579
PaeR7I	CTCGAG	2 cut(s)	386, 420
PctI	GAATGC	1 cut(s)	962
PfeI	GAWTC	4 cut(s)	17, 599, 923, 1046
PfoI	TCCNGGA	1 cut(s)	555
PkrI	GCNGC	4 cut(s)	691, 724, 895, 913
PleI	GAGTC	2 cut(s)	397, 1074
PpsI	GAGTC	2 cut(s)	397, 1074
Psp124BI	GAGCTC	1 cut(s)	387
Psp6I	CCWGG	1 cut(s)	555
PspFI	CCCAGC	1 cut(s)	785
PspGI	CCWGG	1 cut(s)	555
PspN4I	GGNNCC	3 cut(s)	235, 1005, 1041
PspXI	VCTCGAGB	2 cut(s)	386, 420
PsuI	RGATCY	2 cut(s)	937, 975
PvuII	CAGCTG	1 cut(s)	286
SacI	GAGCTC	1 cut(s)	387
SalI	GTCGAC	1 cut(s)	1077
SaqAI	TTAA	1 cut(s)	141
SatI	GCNGC	4 cut(s)	690, 723, 894, 912
Sau3AI	GATC	7 cut(s)	31, 151, 271, 466, 580, 937, 975
SchI	GAGTC	2 cut(s)	398, 1074
ScrFI	CCNGG	1 cut(s)	557
SduI	GDGCHC	3 cut(s)	223, 387, 589
SfaNI	GCATC	4 cut(s)	70, 562, 861, 1128
Sfr274I	CTCGAG	2 cut(s)	386, 420
SlaI	CTCGAG	2 cut(s)	386, 420
SmlI	CTYRAG	3 cut(s)	224, 386, 420
SmoI	CTYRAG	3 cut(s)	224, 386, 420
SpeI	ACTAGT	1 cut(s)	256
Sse9I	AATT	7 cut(s)	170, 346, 374, 408, 435, 987, 1174
SsiI	CCGC	1 cut(s)	689
SspMI	CTAG	2 cut(s)	11, 257
SstI	GAGCTC	1 cut(s)	387
StyD4I	CCNGG	1 cut(s)	555
TaaI	ACNGT	1 cut(s)	299
TaiI	ACGT	3 cut(s)	555, 806, 1078
TaqI	TCGA	6 cut(s)	111, 387, 421, 583, 597, 1078
TaqII	GACCGA	1 cut(s)	1177
TasI	AATT	7 cut(s)	170, 346, 374, 408, 435, 987, 1174
TauI	GCSGC	1 cut(s)	692
TfiI	GAWTC	4 cut(s)	17, 599, 923, 1046
Tru1I	TTAA	1 cut(s)	141
Tru9I	TTAA	1 cut(s)	141
TscAI	CASTG	1 cut(s)	802
TseFI	GTSAC	3 cut(s)	356, 390, 804
TseI	GCWGC	3 cut(s)	722, 893, 911
Tsp45I	GTSAC	3 cut(s)	356, 390, 804
TspDTI	ATGAA	6 cut(s)	9, 69, 342, 389, 459, 1106
TspGWI	ACGGA	1 cut(s)	968
TspRI	CASTG	1 cut(s)	802
VneI	GTGCAC	1 cut(s)	219
XapI	RAATTY	1 cut(s)	374
XceI	RCATGY	1 cut(s)	579
XhoI	CTCGAG	2 cut(s)	386, 420
XmiI	GTMKAC	1 cut(s)	1078
XspI	CTAG	2 cut(s)	11, 257
ZraI	GACGTC	2 cut(s)	553, 1076
Zsp2I	ATGCAT	1 cut(s)	577

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