Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0005125

Physical Location & Seq

Genomic Coordinates Reverse (-)

31470607 .. 31476450

Gene Structure 5844 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG282100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1227 bp

ATGGGGAATGGCGAATCGACATATGATGATTCTCATGATAATTTATCGATGTATGATGATGATTCTCGTGATAGTTTCCCACCTGAACCACCTTCCTATGCAGGCACTTCGATGGACTCTAGTTCTAAACAAAAGCTACCATCTACACGTATAGGCGACAATTTCAACTCTTTGGATCAGGTTATTGCTTCATTGAGGGAAGCTGGCCTTGAATCATCAAATTTAATACTTGGTATCGACTTCACAAAGAGCAATGAATGGACAGGCAAATATTCATTCAACAGAAAAAGTCTTCATGCTATTGGTAGCACACCTAATCCTTACGAGCAAGCAATCTCTATAATTGGCCGCACTTTGTCTCCTTTCGATGAAGATAATATAATTCCTTGTTTTGGATTTGGCGATGCATCAACACATGATCAAGGTGTGTTCCGCTTTTATCCTGATGATCGATGCTGTGTTGGGTTCGAGGAAGCTCTTGCTCGGTATAGGGAGATTGTTCCATACTTAAGGTTATCAGGTCCAACCTCGTTTTCCCCAATAATTGATGCGGCAATTGACATTGTTGAAAAAAACAATGGACAATACCATGTTCTTGTTATTATAGCAGACGGACAGGTTACCAGAAGCCCTGACACTCCGCCTGGAAGATTCAGTGCCCAAGAACAAGCAACTGTAAATTCCGTAGTTGCTGCTAGCAAATATCCTCTGTCAATTATCTTGGTTGGAGTTGGGGACGGACCGTGGGATGCAATGCAGCAATTTGATGATAACATTCCTCAACGAGCATTTGACAACTTCCAGTTTGTCAACTTCACCAAGATCATGTCAGACAACAGGGATATATCACAGAAGGAAGCAGCATTTGCACTTGCTGCCCTTATGGAAATTCCATATCAGTACAGAGCCACCCAAAGGCTTCAACTTTCCAGTTATGAATCAGAAGGTGGTCCACGTACAAGGCCACTTCCACCTCCACGCGATGTGATCAATCATGATAATGCAGTTAAATCAATCCCACCAATGACAAGCATTCCGAAAGTCGAGGCATCAGCTCCCGTGCTGCCAGAAGCTCCTGTGGAGTCGGTGTGCCCCATTTGCCTGACAAATCCAAAGGACATGGCTTTTGGATGTGGTCATACGACCTGCAAGGACTGTGGAGTCAGTCTTTCATCATGCCCTATCTGTCGAGAACCCATATCAACACGCCTGAGACTCTATACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006464 GO:0006807 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009719 GO:0009725 GO:0009753 GO:0009755 GO:0009867 GO:0009987 GO:0010033 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0023052 GO:0032446 GO:0032870 GO:0036211 GO:0042221 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0065007 GO:0070647 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0071704 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Copine zf-C3HC4_3

Protein Analysis

408

Amino Acids

44.84

Weight (kDa)

4.78

Isoelectric Point (pI)

39.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	97 - 308	1.1e-71	Copine
zf-C3HC4_3	PF13920	362 - 402	2.2e-09	Zinc finger, C3HC4 type (RING finger)

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: OG0005125)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G63970 AT5G63970
fragaria_vesca	FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670
malus_domestica	MD16G1282700.v1.1
prunus_persica	Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0122151
rosa_laevigata	RLG00000018654
rosa_multiflora	Rmu_sc0000805.1_g000043 Rmu_sc0004574.1_g000050
rosa_roxburghii	Rroxscaffold_2G00121990
rosa_rugosa	Rorug02G0236600
rosa_samantha	Rh2AG293400 Rh2BG303800 Rh2CG282100 Rh2DG317300
rosa_wichuraiana	Rw2G023520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1160
Acc36I	ACCTGC	1 cut(s)	1154
AccII	CGCG	1 cut(s)	981
AciI	CCGC	4 cut(s)	349, 433, 551, 641
AclWI	GGATC	1 cut(s)	183
AcoI	YGGCCR	1 cut(s)	346
AcsI	RAATTY	3 cut(s)	220, 679, 888
AfaI	GTAC	2 cut(s)	902, 958
AfiI	CCNNNNNNNGG	2 cut(s)	392, 915
AflII	CTTAAG	1 cut(s)	508
AflIII	ACRYGT	1 cut(s)	146
AgsI	TTSAA	5 cut(s)	166, 212, 280, 569, 923
AjnI	CCWGG	1 cut(s)	643
AjuI	GAANNNNNNNTTGG	2 cut(s)	517, 549
AluBI	AGCT	5 cut(s)	136, 203, 476, 1055, 1073
AluI	AGCT	5 cut(s)	136, 203, 476, 1055, 1073
Alw26I	GTCTC	2 cut(s)	363, 1207
AlwI	GGATC	1 cut(s)	183
AoxI	GGCC	3 cut(s)	205, 346, 962
ApeKI	GCWGC	5 cut(s)	692, 757, 860, 875, 1063
ApoI	RAATTY	3 cut(s)	220, 679, 888
ArsI	GACNNNNNNTTYG	2 cut(s)	1109, 1141
AspS9I	GGNCC	3 cut(s)	521, 740, 950
AsuHPI	GGTGA	1 cut(s)	808
AsuNHI	GCTAGC	1 cut(s)	695
AvaII	GGWCC	3 cut(s)	521, 740, 950
BaeGI	GKGCMC	2 cut(s)	661, 1094
BauI	CACGAG	1 cut(s)	66
BbsI	GAAGAC	1 cut(s)	284
BbvI	GCAGC	5 cut(s)	679, 769, 862, 872, 1050
BccI	CCATC	2 cut(s)	106, 148
BcgI	CGANNNNNNTGC	2 cut(s)	90, 124
BciT130I	CCWGG	1 cut(s)	645
BclI	TGATCA	2 cut(s)	418, 987
BcoDI	GTCTC	2 cut(s)	363, 1207
BfaI	CTAG	2 cut(s)	120, 696
BfrI	CTTAAG	1 cut(s)	508
BfuAI	ACCTGC	1 cut(s)	1154
BisI	GCNGC	7 cut(s)	349, 552, 693, 758, 861, 876, 1064
BlsI	GCNGC	7 cut(s)	350, 553, 694, 759, 862, 877, 1065
Bme1390I	CCNGG	1 cut(s)	645
Bme18I	GGWCC	3 cut(s)	521, 740, 950
BmgT120I	GGNCC	3 cut(s)	521, 740, 950
BmrFI	CCNGG	1 cut(s)	645
BmsI	GCATC	6 cut(s)	394, 416, 443, 538, 739, 1058
BmtI	GCTAGC	1 cut(s)	699
BpiI	GAAGAC	1 cut(s)	284
Bsa29I	ATCGAT	2 cut(s)	47, 451
BsaAI	YACGTR	2 cut(s)	149, 956
BsaJI	CCNNGG	1 cut(s)	743
BsaXI	ACNNNNNCTCC	4 cut(s)	343, 373, 1073, 1103
Bsc4I	CCNNNNNNNGG	2 cut(s)	392, 915
Bse1I	ACTGG	2 cut(s)	802, 930
Bse3DI	GCAATG	2 cut(s)	259, 759
BseBI	CCWGG	1 cut(s)	645
BseCI	ATCGAT	2 cut(s)	47, 451
BseDI	CCNNGG	1 cut(s)	743
BseGI	GGATG	2 cut(s)	754, 1136
BseLI	CCNNNNNNNGG	2 cut(s)	392, 915
BseMI	GCAATG	2 cut(s)	259, 759
BseMII	CTCAG	1 cut(s)	1202
BseNI	ACTGG	2 cut(s)	802, 930
BseSI	GKGCMC	2 cut(s)	661, 1094
BseXI	GCAGC	5 cut(s)	679, 769, 862, 872, 1050
Bsh1236I	CGCG	1 cut(s)	981
BshFI	GGCC	3 cut(s)	207, 348, 964
BshVI	ATCGAT	2 cut(s)	47, 451
BslFI	GGGAC	1 cut(s)	749
BslI	CCNNNNNNNGG	2 cut(s)	392, 915
BsmAI	GTCTC	2 cut(s)	363, 1207
BsmFI	GGGAC	1 cut(s)	749
BsmI	GAATGC	1 cut(s)	1032
BsnI	GGCC	3 cut(s)	207, 348, 964
Bsp1286I	GDGCHC	2 cut(s)	661, 1094
Bsp143I	GATC	5 cut(s)	175, 418, 448, 822, 987
BspACI	CCGC	4 cut(s)	349, 433, 551, 641
BspANI	GGCC	3 cut(s)	207, 348, 964
BspCNI	CTCAG	1 cut(s)	1203
BspDI	ATCGAT	2 cut(s)	47, 451
BspFNI	CGCG	1 cut(s)	981
BspHI	TCATGA	2 cut(s)	34, 994
BspMI	ACCTGC	1 cut(s)	1154
BspOI	GCTAGC	1 cut(s)	699
BspPI	GGATC	1 cut(s)	183
BspTI	CTTAAG	1 cut(s)	508
BsrDI	GCAATG	2 cut(s)	259, 759
BsrI	ACTGG	2 cut(s)	802, 930
BssECI	CCNNGG	1 cut(s)	743
BssMI	GATC	5 cut(s)	175, 418, 448, 822, 987
BssSI	CACGAG	1 cut(s)	66
Bst2BI	CACGAG	1 cut(s)	66
Bst2UI	CCWGG	1 cut(s)	645
Bst4CI	ACNGT	3 cut(s)	676, 744, 1157
BstAFI	CTTAAG	1 cut(s)	508
BstAPI	GCANNNNNTGC	2 cut(s)	866, 875
BstBAI	YACGTR	2 cut(s)	149, 956
BstC8I	GCNNGC	4 cut(s)	103, 205, 330, 697
BstDEI	CTNAG	1 cut(s)	1211
BstDSI	CCRYGG	1 cut(s)	743
BstEII	GGTNACC	1 cut(s)	619
BstF5I	GGATG	2 cut(s)	754, 1136
BstFNI	CGCG	1 cut(s)	981
BstKTI	GATC	5 cut(s)	178, 421, 451, 825, 990
BstMAI	GTCTC	2 cut(s)	363, 1207
BstMBI	GATC	5 cut(s)	175, 418, 448, 822, 987
BstMWI	GCNNNNNNNGC	3 cut(s)	866, 875, 1098
BstNI	CCWGG	1 cut(s)	645
BstPI	GGTNACC	1 cut(s)	619
BstSCI	CCNGG	1 cut(s)	643
BstSLI	GKGCMC	2 cut(s)	661, 1094
BstUI	CGCG	1 cut(s)	981
BstV1I	GCAGC	5 cut(s)	679, 769, 862, 872, 1050
BstV2I	GAAGAC	1 cut(s)	284
Bsu15I	ATCGAT	2 cut(s)	47, 451
BsuRI	GGCC	3 cut(s)	207, 348, 964
BsuTUI	ATCGAT	2 cut(s)	47, 451
BtgI	CCRYGG	1 cut(s)	743
BtgZI	GCGATG	2 cut(s)	417, 996
BtsCI	GGATG	2 cut(s)	754, 1136
BtsIMutI	CAGTG	1 cut(s)	661
BveI	ACCTGC	1 cut(s)	1154
Cac8I	GCNNGC	4 cut(s)	103, 205, 330, 697
CciI	TCATGA	2 cut(s)	34, 994
Cfr13I	GGNCC	3 cut(s)	521, 740, 950
ClaI	ATCGAT	2 cut(s)	47, 451
CpoI	CGGWCCG	1 cut(s)	740
Csp6I	GTAC	2 cut(s)	901, 957
CspCI	CAANNNNNGTGG	2 cut(s)	1138, 1173
CspI	CGGWCCG	1 cut(s)	740
CviAII	CATG	8 cut(s)	35, 296, 416, 590, 826, 995, 1120, 1176
CviQI	GTAC	2 cut(s)	901, 957
DdeI	CTNAG	1 cut(s)	1211
DpnI	GATC	5 cut(s)	177, 420, 450, 824, 989
DpnII	GATC	5 cut(s)	175, 418, 448, 822, 987
DrdI	GACNNNNNNGTC	1 cut(s)	1160
DseDI	GACNNNNNNGTC	1 cut(s)	1160
EaeI	YGGCCR	1 cut(s)	346
EciI	GGCGGA	1 cut(s)	630
Eco47I	GGWCC	3 cut(s)	521, 740, 950
Eco91I	GGTNACC	1 cut(s)	619
EcoO65I	GGTNACC	1 cut(s)	619
EcoRII	CCWGG	1 cut(s)	643
EcoT22I	ATGCAT	1 cut(s)	409
FaeI	CATG	8 cut(s)	38, 299, 419, 593, 829, 998, 1123, 1179
FalI	AAGNNNNNCTT	2 cut(s)	192, 224
FaqI	GGGAC	1 cut(s)	749
FatI	CATG	8 cut(s)	34, 295, 415, 589, 825, 994, 1119, 1175
FauNDI	CATATG	1 cut(s)	22
FbaI	TGATCA	2 cut(s)	418, 987
Fnu4HI	GCNGC	7 cut(s)	349, 552, 693, 758, 861, 876, 1064
FokI	GGATG	2 cut(s)	761, 1143
Fsp4HI	GCNGC	7 cut(s)	349, 552, 693, 758, 861, 876, 1064
FspBI	CTAG	2 cut(s)	120, 696
GluI	GCNGC	7 cut(s)	349, 552, 693, 758, 861, 876, 1064
HaeIII	GGCC	3 cut(s)	207, 348, 964
Hin1II	CATG	8 cut(s)	38, 299, 419, 593, 829, 998, 1123, 1179
HincII	GTYRAC	1 cut(s)	811
HindII	GTYRAC	1 cut(s)	811
HphI	GGTGA	1 cut(s)	808
Hpy166II	GTNNAC	2 cut(s)	811, 953
Hpy188I	TCNGA	3 cut(s)	832, 943, 1038
Hpy188III	TCNNGA	5 cut(s)	35, 68, 443, 995, 1190
Hpy8I	GTNNAC	2 cut(s)	811, 953
HpyAV	CCTTC	3 cut(s)	102, 847, 938
HpyCH4III	ACNGT	3 cut(s)	676, 744, 1157
HpyCH4IV	ACGT	2 cut(s)	148, 955
HpyCH4V	TGCA	7 cut(s)	101, 407, 752, 757, 869, 1004, 1149
HpyF10VI	GCNNNNNNNGC	3 cut(s)	866, 875, 1098
HpyF3I	CTNAG	1 cut(s)	1211
HpySE526I	ACGT	2 cut(s)	148, 955
Hsp92II	CATG	8 cut(s)	38, 299, 419, 593, 829, 998, 1123, 1179
Ksp22I	TGATCA	2 cut(s)	418, 987
Kzo9I	GATC	5 cut(s)	175, 418, 448, 822, 987
LmnI	GCTCC	2 cut(s)	1060, 1078
Lsp1109I	GCAGC	5 cut(s)	679, 769, 862, 872, 1050
LweI	GCATC	6 cut(s)	394, 416, 443, 538, 739, 1058
MaeI	CTAG	2 cut(s)	120, 696
MaeII	ACGT	2 cut(s)	148, 955
MaeIII	GTNAC	1 cut(s)	619
MalI	GATC	5 cut(s)	177, 420, 450, 824, 989
MboI	GATC	5 cut(s)	175, 418, 448, 822, 987
MboII	GAAGA	3 cut(s)	284, 383, 660
MfeI	CAATTG	1 cut(s)	555
MhlI	GDGCHC	2 cut(s)	661, 1094
MlyI	GAGTC	4 cut(s)	110, 1091, 1170, 1209
MmeI	TCCRAC	2 cut(s)	548, 706
MnlI	CCTC	7 cut(s)	189, 463, 538, 717, 789, 984, 1039
Mph1103I	ATGCAT	1 cut(s)	409
MseI	TTAA	3 cut(s)	224, 509, 1008
MslI	CAYNNNNRTG	2 cut(s)	110, 999
MspCI	CTTAAG	1 cut(s)	508
MspR9I	CCNGG	1 cut(s)	645
MunI	CAATTG	1 cut(s)	555
Mva1269I	GAATGC	1 cut(s)	1032
MvaI	CCWGG	1 cut(s)	645
MvnI	CGCG	1 cut(s)	981
MwoI	GCNNNNNNNGC	3 cut(s)	866, 875, 1098
NdeI	CATATG	1 cut(s)	22
NdeII	GATC	5 cut(s)	175, 418, 448, 822, 987
NheI	GCTAGC	1 cut(s)	695
NlaIII	CATG	8 cut(s)	38, 299, 419, 593, 829, 998, 1123, 1179
NsiI	ATGCAT	1 cut(s)	409
PagI	TCATGA	2 cut(s)	34, 994
PctI	GAATGC	1 cut(s)	1032
PfeI	GAWTC	6 cut(s)	14, 29, 62, 212, 651, 938
PkrI	GCNGC	7 cut(s)	350, 553, 694, 759, 862, 877, 1065
PleI	GAGTC	4 cut(s)	110, 1090, 1169, 1209
PpsI	GAGTC	4 cut(s)	110, 1090, 1169, 1209
Ppu21I	YACGTR	2 cut(s)	149, 956
Psp6I	CCWGG	1 cut(s)	643
PspEI	GGTNACC	1 cut(s)	619
PspGI	CCWGG	1 cut(s)	643
PspPI	GGNCC	3 cut(s)	521, 740, 950
RsaI	GTAC	2 cut(s)	902, 958
RsaNI	GTAC	2 cut(s)	901, 957
RseI	CAYNNNNRTG	2 cut(s)	110, 999
Rsr2I	CGGWCCG	1 cut(s)	740
RsrII	CGGWCCG	1 cut(s)	740
SaqAI	TTAA	3 cut(s)	224, 509, 1008
SatI	GCNGC	7 cut(s)	349, 552, 693, 758, 861, 876, 1064
Sau3AI	GATC	5 cut(s)	175, 418, 448, 822, 987
Sau96I	GGNCC	3 cut(s)	521, 740, 950
SchI	GAGTC	4 cut(s)	110, 1091, 1170, 1209
ScrFI	CCNGG	1 cut(s)	645
SduI	GDGCHC	2 cut(s)	661, 1094
SfaNI	GCATC	6 cut(s)	394, 416, 443, 538, 739, 1058
SinI	GGWCC	3 cut(s)	521, 740, 950
SmiMI	CAYNNNNRTG	2 cut(s)	110, 999
SmlI	CTYRAG	1 cut(s)	508
SmoI	CTYRAG	1 cut(s)	508
SsiI	CCGC	4 cut(s)	349, 433, 551, 641
SspI	AATATT	1 cut(s)	272
SspMI	CTAG	2 cut(s)	120, 696
StyD4I	CCNGG	1 cut(s)	643
TaaI	ACNGT	3 cut(s)	676, 744, 1157
TaiI	ACGT	2 cut(s)	151, 958
TaqI	TCGA	9 cut(s)	17, 47, 110, 237, 366, 451, 468, 1044, 1189
TatI	WGTACW	1 cut(s)	900
TauI	GCSGC	2 cut(s)	351, 554
TfiI	GAWTC	6 cut(s)	14, 29, 62, 212, 651, 938
Tru1I	TTAA	3 cut(s)	224, 509, 1008
Tru9I	TTAA	3 cut(s)	224, 509, 1008
TscAI	CASTG	1 cut(s)	661
TseI	GCWGC	5 cut(s)	692, 757, 860, 875, 1063
TspDTI	ATGAA	7 cut(s)	180, 264, 270, 284, 384, 951, 1161
TspGWI	ACGGA	3 cut(s)	627, 673, 753
TspRI	CASTG	1 cut(s)	661
Vha464I	CTTAAG	1 cut(s)	508
VpaK11BI	GGWCC	3 cut(s)	521, 740, 950
XapI	RAATTY	3 cut(s)	220, 679, 888
XspI	CTAG	2 cut(s)	120, 696
Zsp2I	ATGCAT	1 cut(s)	409

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