Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0010460

Physical Location & Seq

Genomic Coordinates Forward (+)

19825721 .. 19834753

Gene Structure 9033 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG179100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1890 bp

ATGTTACAAATCTGTAAAGATAGGGATCATGCAATCATCAAACTTGGACTCCTATCTTTGTTGGCTGTCTTTAAAGACCTTATTCCTGGATACCGCATTAGGCTTCCCACAGAGAAGGAGCTGGAGATGAAGGTTTCAAAGGATGTTAAGAAAATGCGGCTTTATGAATCAACACTTCTGAACACATACAAGGCATACTTGCAGAGGTTGGCAGCCTTAGAAAAACAGCCCTCATTTCAGCATGTGGCATTTCGCTGTATCTGTACTTTACTCGATGCAGTACCCTATTTCAACTTCCGGGAGAGCTTGTTAGAGATTGTTATAAAAAACATAAGCTCCTCAGATGATGTTGTAAGGAAACTATGTTGTTCTACTGTAAAGTCACTTTTCACGAATGAGGGAAAACACGGTGGTGAAGCTACTGTGGAGGCTGTTCGATCAATCGCAAATTATGTGAAAGCTCGTAATTGTCAACTGCACCCTGATTCCATTGAGGTTTTCTTGTCTCTGTCATTCTATGAGGATCTTGGGAGGGCTGCAAAAGAAGATGATAAAAATAAAGCCAAAAACAAAAGAGGTAAAAAAAGAAAGGATCATGAGGATCCACGCCAAATGAAAGAAAATGACAAAAAAAGGAGTAGGCAAGAACAACTGATCAAGACAAGGGAGGAGGTTGCTGCTGATTACAAGGCGGTTGCTTATACCCCAGATGTTCTGGAGCGGAGAAGAATGCAGACAGAGACACTTTCAGCTGTATTTGAAACATATTTTCGCATATTGAAGCATACAATGCAGTCATCAGCTGCCAGATCTGAAGCAAATATTAGTTTATTGACTGGGGCATCTGAGCCCTACCCTTTACTTGCTCCCTGTCTGCAAGGATTAGGAAAGTTCTCACACCTAATTGACCTAGATTTCATGAGTGATCTGATAAACTCTCTGGGAAAGCTTGCTTCTGGTGGTGGTGATACTGATAAGACTTCTGAGAGATGTTCAAAATGTTTGACTGTATCTGAGCGTCTCCGATGCTGCATTGTCGCATTTAAAGTGATGAAGAGCAATCTTGATGCCTTGAATGTTGATCTACAGGACTTCTTCGTCCAGCTTTACAATATTATACTTGAATATAGGCCTGGAAGAGATCAGGGTGAAGTATTAGCTGAAGCTCTCAAAATAATGCTGTGTGAAGATAGACAACATGACATGCAGAAGGCTGCTGCATTTGTAAAGCGTCTAGCCACATTCTCATTATGTTTTGGGTCTGCAGAGTCCATGGCTGCCTTGGTTACCTTAAAGCATCTTCTTCTGAAGAATGTTAAGTGCCGAAACCTGTTAGAAAATGATGCTGGAGGTGGCTCAGTGTCTGGTTTAATTGCGAAATATCATCCTGAAGCTTCAGACCCGAATTTAAGTGGTGCTCTTGCTTCAGTACTTTGGGAGCTTAATCTTCTCTCCAAGCATTATCATCCAGGTGTTTCAAGTATGGTTTCAAGTATATCTAGTATGAACACTGCTCATCAAAACCAAGTTTATCTCTCTACCATCACTCCTCAGCAAGCCTTCATGGACTTCTCCTTGGAGAAACCAGAGTCATTCAAGTTCCAGGGTGACATTAGAAAGTCAAATAACAAGAGGAAAAGAGGAACAGGCTCTTCTGTATCCACTGGTATGGAGCCATCCGAAGATACAACTTCAATCGATGAAGATGAAGTGAAAAAGAAACTTTCTGCTCATTTCATGGTTCTTCGTGACATCAAGGAGAACCAAAGATTGAGGGTTGAGCTGCAAAGTACTACGTCATCCATTCAGCTATATAAAGAGTATAAGAAGCAGAAGAAAAAGGCTAAAAAGCCCCAAACCAAGAAAAGTAAAATTTTGATTGTCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CBF NOC3p

Protein Analysis

629

Amino Acids

71.03

Weight (kDa)

9.27

Isoelectric Point (pI)

36.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NOC3p	PF07540	2 - 66	1.5e-20	Nucleolar complex-associated protein
CBF	PF03914	341 - 495	3.6e-27	CBF/Mak21 family

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: OG0010460)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79150
fragaria_vesca	FvH4_3g15370 FvH4_3g15370
malus_domestica	MD05G1223600.v1.1 MD10G1205100.v1.1
prunus_persica	Prupe.4G136600_v2.0.a1 Prupe.4G136600_v2.0.a1 Prupe.4G136600_v2.0.a1
pyrus_communis	pycom05g20650 pycom10g17550
rosa_chinensis	RchiOBHm_Chr5g0025821
rosa_laevigata	RLG00000032879
rosa_multiflora	Rmu_sc0000968.1_g000010
rosa_roxburghii	Rroxscaffold_1G00053380 Rroxscaffold_1G00054360
rosa_rugosa	Rorug05G0088700
rosa_samantha	Rh5AG180800 Rh5BG179400 Rh5CG197200 Rh5DG179100
rosa_wichuraiana	Rw5G016400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	323
AasI	GACNNNNNNGTC	1 cut(s)	1097
AccBSI	CCGCTC	1 cut(s)	721
AciI	CCGC	4 cut(s)	94, 157, 692, 721
AclWI	GGATC	5 cut(s)	33, 531, 596, 600, 609
AcsI	RAATTY	2 cut(s)	1405, 1872
AcuI	CTGAAG	6 cut(s)	834, 1182, 1328, 1380, 1410, 1410
AfaI	GTAC	4 cut(s)	265, 282, 1431, 1792
AjnI	CCWGG	4 cut(s)	85, 1132, 1468, 1602
AleI	CACNNNNGTG	1 cut(s)	411
Alw21I	GWGCWC	1 cut(s)	1420
Alw26I	GTCTC	3 cut(s)	510, 734, 1025
AlwI	GGATC	5 cut(s)	33, 531, 596, 600, 609
AlwNI	CAGNNNCTG	1 cut(s)	1364
AoxI	GGCC	1 cut(s)	1130
ApeKI	GCWGC	9 cut(s)	212, 536, 677, 803, 1029, 1214, 1217, 1277, 1783
ApoI	RAATTY	2 cut(s)	1405, 1872
AsuC2I	CCSGG	1 cut(s)	299
AsuHPI	GGTGA	4 cut(s)	425, 977, 1160, 1619
BamHI	GGATCC	1 cut(s)	601
BanII	GRGCYC	1 cut(s)	852
Bbv12I	GWGCWC	1 cut(s)	1420
BbvCI	CCTCAGC	1 cut(s)	1551
BbvI	GCAGC	9 cut(s)	224, 523, 664, 790, 1016, 1201, 1204, 1264, 1770
BccI	CCATC	2 cut(s)	1550, 1684
BciT130I	CCWGG	4 cut(s)	87, 1134, 1470, 1604
BciVI	GTATCC	2 cut(s)	83, 1669
BclI	TGATCA	1 cut(s)	654
BcnI	CCSGG	1 cut(s)	299
BcoDI	GTCTC	3 cut(s)	510, 734, 1025
BfaI	CTAG	3 cut(s)	911, 1235, 1500
BfmI	CTRYAG	2 cut(s)	1085, 1263
BfuI	GTATCC	2 cut(s)	83, 1669
BglII	AGATCT	1 cut(s)	809
BmcAI	AGTACT	2 cut(s)	1431, 1792
Bme1390I	CCNGG	5 cut(s)	87, 299, 1134, 1470, 1604
BmiI	GGNNCC	2 cut(s)	603, 1674
BmrFI	CCNGG	5 cut(s)	87, 299, 1134, 1470, 1604
BmrI	ACTGGG	1 cut(s)	846
BmsI	GCATC	6 cut(s)	265, 851, 1016, 1057, 1306, 1333
BmuI	ACTGGG	1 cut(s)	846
BpmI	CTGGAG	3 cut(s)	143, 737, 1368
Bpu10I	CCTNAGC	1 cut(s)	1551
BpuMI	CCSGG	1 cut(s)	299
Bsa29I	ATCGAT	1 cut(s)	1698
BsaBI	GATNNNNATC	1 cut(s)	24
BsaJI	CCNNGG	4 cut(s)	1272, 1281, 1575, 1603
BsaXI	ACNNNNNCTCC	8 cut(s)	33, 63, 293, 320, 323, 350, 1531, 1561
Bse1I	ACTGG	2 cut(s)	841, 1669
Bse8I	GATNNNNATC	1 cut(s)	24
BseBI	CCWGG	4 cut(s)	87, 1134, 1470, 1604
BseCI	ATCGAT	1 cut(s)	1698
BseDI	CCNNGG	4 cut(s)	1272, 1281, 1575, 1603
BseGI	GGATG	5 cut(s)	148, 1384, 1465, 1676, 1799
BseJI	GATNNNNATC	1 cut(s)	24
BseMII	CTCAG	6 cut(s)	354, 837, 975, 1005, 1371, 1565
BseNI	ACTGG	2 cut(s)	841, 1669
BseRI	GAGGAG	3 cut(s)	328, 683, 1539
BseXI	GCAGC	9 cut(s)	224, 523, 664, 790, 1016, 1201, 1204, 1264, 1770
BsgI	GTGCAG	1 cut(s)	461
BshFI	GGCC	1 cut(s)	1132
BshVI	ATCGAT	1 cut(s)	1698
BsiHKAI	GWGCWC	1 cut(s)	1420
BsiSI	CCGG	1 cut(s)	298
BsmAI	GTCTC	3 cut(s)	510, 734, 1025
BsmBI	CGTCTC	1 cut(s)	1025
BsmI	GAATGC	1 cut(s)	735
BsnI	GGCC	1 cut(s)	1132
Bsp1286I	GDGCHC	2 cut(s)	852, 1420
Bsp19I	CCATGG	1 cut(s)	1272
BspACI	CCGC	4 cut(s)	94, 157, 692, 721
BspANI	GGCC	1 cut(s)	1132
BspCNI	CTCAG	6 cut(s)	353, 838, 976, 1006, 1370, 1564
BspDI	ATCGAT	1 cut(s)	1698
BspHI	TCATGA	2 cut(s)	595, 918
BspLI	GGNNCC	2 cut(s)	603, 1674
BspMAI	CTGCAG	1 cut(s)	1267
BspPI	GGATC	5 cut(s)	33, 531, 596, 600, 609
BspQI	GCTCTTC	2 cut(s)	1049, 1657
BsrBI	CCGCTC	1 cut(s)	721
BsrI	ACTGG	2 cut(s)	841, 1669
BssECI	CCNNGG	4 cut(s)	1272, 1281, 1575, 1603
BssT1I	CCWWGG	3 cut(s)	1272, 1281, 1575
Bst2UI	CCWGG	4 cut(s)	87, 1134, 1470, 1604
Bst4CI	ACNGT	4 cut(s)	376, 410, 424, 1009
Bst6I	CTCTTC	3 cut(s)	1049, 1132, 1657
BstAPI	GCANNNNNTGC	1 cut(s)	790
BstC8I	GCNNGC	2 cut(s)	951, 1557
BstDEI	CTNAG	7 cut(s)	217, 340, 846, 984, 1014, 1357, 1551
BstDSI	CCRYGG	1 cut(s)	1272
BstEII	GGTNACC	1 cut(s)	1285
BstF5I	GGATG	5 cut(s)	148, 1384, 1465, 1676, 1799
BstMAI	GTCTC	3 cut(s)	510, 734, 1025
BstMWI	GCNNNNNNNGC	1 cut(s)	790
BstNI	CCWGG	4 cut(s)	87, 1134, 1470, 1604
BstNSI	RCATGY	2 cut(s)	245, 1207
BstPI	GGTNACC	1 cut(s)	1285
BstSCI	CCNGG	5 cut(s)	85, 297, 1132, 1468, 1602
BstSFI	CTRYAG	2 cut(s)	1085, 1263
BstV1I	GCAGC	9 cut(s)	224, 523, 664, 790, 1016, 1201, 1204, 1264, 1770
BstX2I	RGATCY	3 cut(s)	523, 601, 809
BstXI	CCANNNNNNTGG	1 cut(s)	1669
BstYI	RGATCY	3 cut(s)	523, 601, 809
Bsu15I	ATCGAT	1 cut(s)	1698
BsuI	GTATCC	2 cut(s)	83, 1669
BsuRI	GGCC	1 cut(s)	1132
BsuTUI	ATCGAT	1 cut(s)	1698
BtgI	CCRYGG	1 cut(s)	1272
BtsCI	GGATG	5 cut(s)	148, 1384, 1465, 1676, 1799
BtsI	GCAGTG	1 cut(s)	1509
BtsIMutI	CAGTG	3 cut(s)	1365, 1509, 1662
Cac8I	GCNNGC	2 cut(s)	951, 1557
CaiI	CAGNNNCTG	1 cut(s)	1364
CciI	TCATGA	2 cut(s)	595, 918
ClaI	ATCGAT	1 cut(s)	1698
CseI	GACGC	2 cut(s)	1007, 1220
Csp6I	GTAC	4 cut(s)	264, 281, 1430, 1791
CviAII	CATG	9 cut(s)	29, 242, 596, 919, 1199, 1204, 1273, 1564, 1738
CviQI	GTAC	4 cut(s)	264, 281, 1430, 1791
DdeI	CTNAG	7 cut(s)	217, 340, 846, 984, 1014, 1357, 1551
DraI	TTTAAA	2 cut(s)	73, 1045
DrdI	GACNNNNNNGTC	1 cut(s)	1097
DseDI	GACNNNNNNGTC	1 cut(s)	1097
Eam1104I	CTCTTC	3 cut(s)	1049, 1132, 1657
EarI	CTCTTC	3 cut(s)	1049, 1132, 1657
Eco130I	CCWWGG	3 cut(s)	1272, 1281, 1575
Eco147I	AGGCCT	1 cut(s)	1132
Eco24I	GRGCYC	1 cut(s)	852
Eco57I	CTGAAG	6 cut(s)	834, 1182, 1328, 1380, 1410, 1410
Eco91I	GGTNACC	1 cut(s)	1285
EcoO65I	GGTNACC	1 cut(s)	1285
EcoRII	CCWGG	4 cut(s)	85, 1132, 1468, 1602
EcoT14I	CCWWGG	3 cut(s)	1272, 1281, 1575
EcoT38I	GRGCYC	1 cut(s)	852
ErhI	CCWWGG	3 cut(s)	1272, 1281, 1575
Esp3I	CGTCTC	1 cut(s)	1025
FaeI	CATG	9 cut(s)	32, 245, 599, 922, 1202, 1207, 1276, 1567, 1741
FalI	AAGNNNNNCTT	2 cut(s)	182, 214
FatI	CATG	9 cut(s)	28, 241, 595, 918, 1198, 1203, 1272, 1563, 1737
FbaI	TGATCA	1 cut(s)	654
FokI	GGATG	5 cut(s)	155, 1371, 1452, 1663, 1786
FriOI	GRGCYC	1 cut(s)	852
FspBI	CTAG	3 cut(s)	911, 1235, 1500
GsuI	CTGGAG	3 cut(s)	143, 737, 1368
HaeIII	GGCC	1 cut(s)	1132
HapII	CCGG	1 cut(s)	298
HgaI	GACGC	2 cut(s)	1007, 1220
Hin1II	CATG	9 cut(s)	32, 245, 599, 922, 1202, 1207, 1276, 1567, 1741
HincII	GTYRAC	1 cut(s)	473
HindII	GTYRAC	1 cut(s)	473
HindIII	AAGCTT	2 cut(s)	947, 1392
HinfI	GANTC	5 cut(s)	48, 167, 485, 1268, 1589
HpaII	CCGG	1 cut(s)	298
HphI	GGTGA	4 cut(s)	425, 977, 1160, 1619
Hpy166II	GTNNAC	1 cut(s)	473
Hpy188III	TCNNGA	8 cut(s)	391, 596, 658, 716, 919, 1064, 1388, 1748
Hpy8I	GTNNAC	1 cut(s)	473
HpyAV	CCTTC	4 cut(s)	109, 124, 1204, 1570
HpyCH4III	ACNGT	4 cut(s)	376, 410, 424, 1009
HpyCH4IV	ACGT	1 cut(s)	1796
HpyF10VI	GCNNNNNNNGC	1 cut(s)	790
HpyF3I	CTNAG	7 cut(s)	217, 340, 846, 984, 1014, 1357, 1551
HpySE526I	ACGT	1 cut(s)	1796
Hsp92II	CATG	9 cut(s)	32, 245, 599, 922, 1202, 1207, 1276, 1567, 1741
Ksp22I	TGATCA	1 cut(s)	654
LguI	GCTCTTC	2 cut(s)	1049, 1657
LmnI	GCTCC	6 cut(s)	118, 341, 718, 871, 1438, 1672
Lsp1109I	GCAGC	9 cut(s)	224, 523, 664, 790, 1016, 1201, 1204, 1264, 1770
LweI	GCATC	6 cut(s)	265, 851, 1016, 1057, 1306, 1333
MaeI	CTAG	3 cut(s)	911, 1235, 1500
MaeII	ACGT	1 cut(s)	1796
MaeIII	GTNAC	5 cut(s)	3, 381, 1285, 1607, 1748
MbiI	CCGCTC	1 cut(s)	721
MflI	RGATCY	3 cut(s)	523, 601, 809
MhlI	GDGCHC	2 cut(s)	852, 1420
MluCI	AATT	6 cut(s)	448, 466, 903, 1371, 1405, 1872
MlyI	GAGTC	3 cut(s)	42, 1277, 1598
MseI	TTAA	8 cut(s)	72, 147, 1044, 1292, 1317, 1370, 1409, 1443
MslI	CAYNNNNRTG	3 cut(s)	411, 1470, 1667
MspA1I	CMGCKG	2 cut(s)	752, 803
MspI	CCGG	1 cut(s)	298
MspR9I	CCNGG	5 cut(s)	87, 299, 1134, 1470, 1604
Mva1269I	GAATGC	1 cut(s)	735
MvaI	CCWGG	4 cut(s)	87, 1134, 1470, 1604
MwoI	GCNNNNNNNGC	1 cut(s)	790
NciI	CCSGG	1 cut(s)	299
NcoI	CCATGG	1 cut(s)	1272
NlaIII	CATG	9 cut(s)	32, 245, 599, 922, 1202, 1207, 1276, 1567, 1741
NlaIV	GGNNCC	2 cut(s)	603, 1674
NmuCI	GTSAC	3 cut(s)	381, 1607, 1748
NspI	RCATGY	2 cut(s)	245, 1207
OliI	CACNNNNGTG	1 cut(s)	411
PagI	TCATGA	2 cut(s)	595, 918
PceI	AGGCCT	1 cut(s)	1132
PciSI	GCTCTTC	2 cut(s)	1049, 1657
PctI	GAATGC	1 cut(s)	735
PfeI	GAWTC	2 cut(s)	167, 485
PfoI	TCCNGGA	2 cut(s)	85, 297
PleI	GAGTC	3 cut(s)	42, 1276, 1597
PpsI	GAGTC	3 cut(s)	42, 1276, 1597
PsiI	TTATAA	1 cut(s)	323
Psp6I	CCWGG	4 cut(s)	85, 1132, 1468, 1602
PspEI	GGTNACC	1 cut(s)	1285
PspGI	CCWGG	4 cut(s)	85, 1132, 1468, 1602
PspN4I	GGNNCC	2 cut(s)	603, 1674
PstI	CTGCAG	1 cut(s)	1267
PstNI	CAGNNNCTG	1 cut(s)	1364
PsuI	RGATCY	3 cut(s)	523, 601, 809
PvuII	CAGCTG	2 cut(s)	752, 803
RsaI	GTAC	4 cut(s)	265, 282, 1431, 1792
RsaNI	GTAC	4 cut(s)	264, 281, 1430, 1791
RseI	CAYNNNNRTG	3 cut(s)	411, 1470, 1667
SapI	GCTCTTC	2 cut(s)	1049, 1657
SaqAI	TTAA	8 cut(s)	72, 147, 1044, 1292, 1317, 1370, 1409, 1443
ScaI	AGTACT	2 cut(s)	1431, 1792
SchI	GAGTC	3 cut(s)	42, 1277, 1598
ScrFI	CCNGG	5 cut(s)	87, 299, 1134, 1470, 1604
SduI	GDGCHC	2 cut(s)	852, 1420
SfaNI	GCATC	6 cut(s)	265, 851, 1016, 1057, 1306, 1333
SfcI	CTRYAG	2 cut(s)	1085, 1263
SmiMI	CAYNNNNRTG	3 cut(s)	411, 1470, 1667
Sse9I	AATT	6 cut(s)	448, 466, 903, 1371, 1405, 1872
SseBI	AGGCCT	1 cut(s)	1132
SsiI	CCGC	4 cut(s)	94, 157, 692, 721
SspI	AATATT	2 cut(s)	823, 1114
SspMI	CTAG	3 cut(s)	911, 1235, 1500
StuI	AGGCCT	1 cut(s)	1132
StyD4I	CCNGG	5 cut(s)	85, 297, 1132, 1468, 1602
StyI	CCWWGG	3 cut(s)	1272, 1281, 1575
TaaI	ACNGT	4 cut(s)	376, 410, 424, 1009
TaiI	ACGT	1 cut(s)	1799
TaqI	TCGA	3 cut(s)	273, 436, 1698
TasI	AATT	6 cut(s)	448, 466, 903, 1371, 1405, 1872
TatI	WGTACW	3 cut(s)	263, 1429, 1790
TauI	GCSGC	1 cut(s)	160
TfiI	GAWTC	2 cut(s)	167, 485
Tru1I	TTAA	8 cut(s)	72, 147, 1044, 1292, 1317, 1370, 1409, 1443
Tru9I	TTAA	8 cut(s)	72, 147, 1044, 1292, 1317, 1370, 1409, 1443
TscAI	CASTG	3 cut(s)	1365, 1516, 1669
TseFI	GTSAC	3 cut(s)	381, 1607, 1748
TseI	GCWGC	9 cut(s)	212, 536, 677, 803, 1029, 1214, 1217, 1277, 1783
Tsp45I	GTSAC	3 cut(s)	381, 1607, 1748
TspRI	CASTG	3 cut(s)	1365, 1516, 1669
XapI	RAATTY	2 cut(s)	1405, 1872
XceI	RCATGY	2 cut(s)	245, 1207
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1279
XspI	CTAG	3 cut(s)	911, 1235, 1500
ZrmI	AGTACT	2 cut(s)	1431, 1792

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