Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0003791

Physical Location & Seq

Genomic Coordinates Forward (+)

82524975 .. 82526387

Gene Structure 1413 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG594500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1413 bp

ATGTGTTTAATGCCAGCACCTGGGATAGTCCATCCAGAAGTTCATATCAGCAAAGTTGTTGCTCATAATGCAGCTGAAGCTTTTGAGGACCAAAGACTGGTTCAAAAGGTGGAGATTGTTGAGGAGGCTGAGCCTGATTTTTCAGCTGCACATGAAGGGCTATGTTCGTGCTCGGCAAGGCTGCTTTTACCTCTATGGGAACTTCCTTTCGTGGTGGAAGAAGGCGGTTCAGTCATGTGCATACTATCTCTTGAGGCAATGCAGGTGCTACAAAAAAAGATAAGTTCTTTGGAAAATTTTCTGTGGTTGAGGAGGAAGCAAAGGAGGGGTCTTTATGGCCGTGTTACTGGTCTTGGGTACTTGACTGGTTATAGAGACGAATCAAAATATGATGGCAGCTGCTCTAATAACAGGAAGAGATTATTTAGTGATGCAGAGCTTACAGCCATGGAGGTTAGGGCAATGGAATGTATGAGACAGTTGCTAATTAGATTAAGTGAAGCTCAAGTCCTACTCCAACTTCTTTCGCAGCAAGGTCTAATCACTTGCTTGGCTAAGGACTTGGATGCTAATCTGCAGCAGGTATTAGTCCAATTGACTTTTCATCAGTTAGTTTGTTCTGAGGAGGGTAACCACCTTGCTACAAGGCTCATATCTGGTCTGACAAAGTATTATACTGATCAAGGCAAGGGGACAGTACATAAAATTAGTGCAGTACTGCAGGAAGGTTGTCCAAGCTGTTACAAGGAGTCTGAAGGCAAGTATTATCTAGCCATGGATTGTCTTCAGAGAGCTGTTTTAAATAAAGATGTTGAGGAGATGGAGAAACTTGCCAGAGAAGCCTACAGTTGTAAAGTTCCAAAATCTGCTAATTTACGGGTGGTTTGCAAATGGTTTGAGCGTTTGAGGTTTTATGAAGCAGTGGTCCACTTACCTTTACAGAAGGCACAAGCTCTTGACCCCAAAGGTGATGCTGTTAATAACCAAATTGATGCAGCAGTTCGAGAAGATGCAGTTGCTAAACGTGTTCAGTGTTATGAGATTATCATCAGTGCACTGCGTTCTCTAAAAGGTGTACATGTTGGTTCCTCTTCTCGGAACAGACATGTGTGCCAAATTGTTCAGCTTGGCATCCAATTTCCAGACAGGTTATTTCATGAGTACTTGTGCCGTGCTATGATTGATTTCGGCCTTGAAAATGAGCTGTTTGAGTTTGGAGGTCCTAATTTGGTGCCTTTACTACAAAGTGTAGCCGGTGAACCTATACAAGAGGTTCAAGCTGTTTCTCCCATTGGTCATTCGGGAACACTTTTTCCAATTAAAAAAGCCAAATATTGTGAGGTTTTGGCAAGTTACTATGCCTTGAAAGGGCAGCATCGGCTTGCAGCTCATGCATTGCAAAGACTGGCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000972 GO:0003674 GO:0005198 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005643 GO:0005730 GO:0005737 GO:0005886 GO:0005911 GO:0006403 GO:0006405 GO:0006406 GO:0006606 GO:0006611 GO:0006810 GO:0006886 GO:0006913 GO:0006996 GO:0006997 GO:0006998 GO:0008104 GO:0008150 GO:0008152 GO:0009506 GO:0009507 GO:0009536 GO:0009987 GO:0010256 GO:0010467 GO:0012505 GO:0015031 GO:0015833 GO:0015931 GO:0016020 GO:0016032 GO:0016043 GO:0017038 GO:0017056 GO:0030054 GO:0031090 GO:0031503 GO:0031965 GO:0031967 GO:0031974 GO:0031975 GO:0031981 GO:0032991 GO:0033036 GO:0033365 GO:0034504 GO:0034613 GO:0036228 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044403 GO:0044419 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0044611 GO:0045184 GO:0046907 GO:0050657 GO:0050658 GO:0051028 GO:0051168 GO:0051169 GO:0051170 GO:0051179 GO:0051234 GO:0051236 GO:0051276 GO:0051641 GO:0051649 GO:0051704 GO:0055044 GO:0061024 GO:0070013 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0071840 GO:0071944 GO:0072594 GO:0072657 GO:0090435

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

Nucleoporin_C Nucleoporin_N

Protein Analysis

470

Amino Acids

52.68

Weight (kDa)

7.18

Isoelectric Point (pI)

45.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nucleoporin_C	PF03177	48 - 470	7.9e-37	Non-repetitive/WGA-negative nucleoporin C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0003791)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G14850
fragaria_vesca	FvH4_4g33560 FvH4_4g33560 FvH4_4g33560
malus_domestica	MD13G1020400.v1.1 MD16G1018600.v1.1 MD16G1018800.v1.1
prunus_persica	Prupe.1G333300_v2.0.a1
pyrus_communis	pycom13g01720 pycom16g01690
rosa_chinensis	RchiOBHm_Chr2g0167011 RchiOBHm_Chr2g0167021 RchiOBHm_Chr4g0443061
rosa_laevigata	RLG00000005957 RLG00000021689
rosa_multiflora	Rmu_co7980658.1_g000001 Rmu_sc0007968.1_g000017 Rmu_sc0008069.1_g000005 Rmu_sc0010966.1_g000010 Rmu_sc0039405.1_g000001 Rmu_sc0039405.1_g000002
rosa_roxburghii	Rroxscaffold_2G00083800 Rroxscaffold_5G00383690
rosa_rugosa	Rorug04G0344100
rosa_samantha	Rh2AG594500 Rh2AG594600 Rh2BG605800 Rh2BG605900 Rh2CG576700 Rh2DG617400 Rh4BG409900 Rh4DG404800
rosa_wichuraiana	Rw2G049490 Rw4G034330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	253
Acc36I	ACCTGC	2 cut(s)	253, 571
AccB1I	GGYRCC	1 cut(s)	1231
AccB7I	CCANNNNNTGG	2 cut(s)	20, 97
AciI	CCGC	1 cut(s)	225
AcoI	YGGCCR	1 cut(s)	337
AcsI	RAATTY	1 cut(s)	295
AcuI	CTGAAG	3 cut(s)	96, 770, 774
AfaI	GTAC	5 cut(s)	359, 699, 717, 1077, 1163
AfiI	CCNNNNNNNGG	4 cut(s)	20, 97, 1095, 1368
AflIII	ACRYGT	3 cut(s)	1024, 1078, 1105
AgsI	TTSAA	4 cut(s)	104, 1196, 1277, 1366
AjnI	CCWGG	1 cut(s)	19
AjuI	GAANNNNNNNTTGG	4 cut(s)	84, 116, 585, 617
AloI	GAACNNNNNNTCC	2 cut(s)	1297, 1329
Alw21I	GWGCWC	2 cut(s)	173, 1057
Alw26I	GTCTC	2 cut(s)	369, 469
Alw44I	GTGCAC	1 cut(s)	1053
AlwNI	CAGNNNCTG	1 cut(s)	20
AoxI	GGCC	2 cut(s)	337, 1189
ApaLI	GTGCAC	1 cut(s)	1053
ApoI	RAATTY	1 cut(s)	295
ArsI	GACNNNNNNTTYG	2 cut(s)	313, 345
Asp700I	GAANNNNTTC	1 cut(s)	297
AspS9I	GGNCC	3 cut(s)	88, 925, 1220
AsuHPI	GGTGA	2 cut(s)	980, 1268
AvaII	GGWCC	3 cut(s)	88, 925, 1220
BaeGI	GKGCMC	1 cut(s)	1057
BanI	GGYRCC	1 cut(s)	1231
BbsI	GAAGAC	1 cut(s)	776
Bbv12I	GWGCWC	2 cut(s)	173, 1057
BccI	CCATC	3 cut(s)	39, 386, 814
BceAI	ACGGC	2 cut(s)	324, 1155
BciT130I	CCWGG	1 cut(s)	21
BclI	TGATCA	1 cut(s)	679
BcoDI	GTCTC	2 cut(s)	369, 469
BfaI	CTAG	1 cut(s)	770
BfmI	CTRYAG	3 cut(s)	575, 719, 844
BfuAI	ACCTGC	2 cut(s)	253, 571
BlpI	GCTNAGC	1 cut(s)	129
BmcAI	AGTACT	2 cut(s)	717, 1163
Bme1390I	CCNGG	1 cut(s)	21
Bme18I	GGWCC	3 cut(s)	88, 925, 1220
BmgT120I	GGNCC	3 cut(s)	88, 925, 1220
BmiI	GGNNCC	2 cut(s)	1087, 1233
BmrFI	CCNGG	1 cut(s)	21
BmsI	GCATC	7 cut(s)	421, 556, 961, 982, 1000, 1140, 1384
BpiI	GAAGAC	1 cut(s)	776
Bpu10I	CCTNAGC	1 cut(s)	555
Bpu1102I	GCTNAGC	1 cut(s)	129
BpuEI	CTTGAG	2 cut(s)	272, 489
BsaBI	GATNNNNATC	2 cut(s)	570, 1046
BsaJI	CCNNGG	3 cut(s)	20, 447, 774
Bsc4I	CCNNNNNNNGG	4 cut(s)	20, 97, 1095, 1368
Bse118I	RCCGGY	1 cut(s)	1253
Bse1I	ACTGG	4 cut(s)	102, 352, 370, 1410
Bse3DI	GCAATG	3 cut(s)	264, 468, 1394
Bse8I	GATNNNNATC	2 cut(s)	570, 1046
BseBI	CCWGG	1 cut(s)	21
BseDI	CCNNGG	3 cut(s)	20, 447, 774
BseGI	GGATG	3 cut(s)	31, 571, 1131
BseJI	GATNNNNATC	2 cut(s)	570, 1046
BseLI	CCNNNNNNNGG	4 cut(s)	20, 97, 1095, 1368
BseMI	GCAATG	3 cut(s)	264, 468, 1394
BseMII	CTCAG	2 cut(s)	120, 612
BseNI	ACTGG	4 cut(s)	102, 352, 370, 1410
BseRI	GAGGAG	4 cut(s)	137, 325, 638, 830
BseSI	GKGCMC	1 cut(s)	1057
BsgI	GTGCAG	2 cut(s)	132, 732
BshFI	GGCC	2 cut(s)	339, 1191
BshNI	GGYRCC	1 cut(s)	1231
BsiHKAI	GWGCWC	2 cut(s)	173, 1057
BsiSI	CCGG	1 cut(s)	1254
BslFI	GGGAC	1 cut(s)	706
BslI	CCNNNNNNNGG	4 cut(s)	20, 97, 1095, 1368
BsmAI	GTCTC	2 cut(s)	369, 469
BsmBI	CGTCTC	1 cut(s)	369
BsmFI	GGGAC	1 cut(s)	706
BsnI	GGCC	2 cut(s)	339, 1191
Bsp1286I	GDGCHC	2 cut(s)	173, 1057
Bsp1407I	TGTACA	1 cut(s)	1075
Bsp143I	GATC	1 cut(s)	679
Bsp1720I	GCTNAGC	1 cut(s)	129
Bsp19I	CCATGG	2 cut(s)	447, 774
BspACI	CCGC	1 cut(s)	225
BspANI	GGCC	2 cut(s)	339, 1191
BspCNI	CTCAG	2 cut(s)	121, 613
BspHI	TCATGA	1 cut(s)	1156
BspLI	GGNNCC	2 cut(s)	1087, 1233
BspMAI	CTGCAG	2 cut(s)	579, 723
BspMI	ACCTGC	2 cut(s)	253, 571
BspT107I	GGYRCC	1 cut(s)	1231
BsrDI	GCAATG	3 cut(s)	264, 468, 1394
BsrFI	RCCGGY	1 cut(s)	1253
BsrGI	TGTACA	1 cut(s)	1075
BsrI	ACTGG	4 cut(s)	102, 352, 370, 1410
BssAI	RCCGGY	1 cut(s)	1253
BssECI	CCNNGG	3 cut(s)	20, 447, 774
BssMI	GATC	1 cut(s)	679
BssT1I	CCWWGG	2 cut(s)	447, 774
Bst2UI	CCWGG	1 cut(s)	21
Bst4CI	ACNGT	3 cut(s)	480, 697, 848
Bst6I	CTCTTC	2 cut(s)	410, 1096
BstAPI	GCANNNNNTGC	1 cut(s)	1391
BstAUI	TGTACA	1 cut(s)	1075
BstC8I	GCNNGC	2 cut(s)	15, 1383
BstDEI	CTNAG	3 cut(s)	129, 555, 621
BstDSI	CCRYGG	2 cut(s)	447, 774
BstEII	GGTNACC	1 cut(s)	629
BstF5I	GGATG	3 cut(s)	31, 571, 1131
BstKTI	GATC	1 cut(s)	682
BstMAI	GTCTC	2 cut(s)	369, 469
BstMBI	GATC	1 cut(s)	679
BstMWI	GCNNNNNNNGC	5 cut(s)	68, 77, 839, 1378, 1391
BstNI	CCWGG	1 cut(s)	21
BstNSI	RCATGY	2 cut(s)	1082, 1109
BstPI	GGTNACC	1 cut(s)	629
BstSCI	CCNGG	1 cut(s)	19
BstSFI	CTRYAG	3 cut(s)	575, 719, 844
BstSLI	GKGCMC	1 cut(s)	1057
BstV2I	GAAGAC	1 cut(s)	776
BsuRI	GGCC	2 cut(s)	339, 1191
BtgI	CCRYGG	2 cut(s)	447, 774
BtsCI	GGATG	3 cut(s)	31, 571, 1131
BtsI	GCAGTG	2 cut(s)	927, 1055
BtsIMutI	CAGTG	4 cut(s)	927, 1037, 1055, 1057
BveI	ACCTGC	2 cut(s)	253, 571
Cac8I	GCNNGC	2 cut(s)	15, 1383
CaiI	CAGNNNCTG	1 cut(s)	20
CciI	TCATGA	1 cut(s)	1156
Cfr10I	RCCGGY	1 cut(s)	1253
Cfr13I	GGNCC	3 cut(s)	88, 925, 1220
Csp6I	GTAC	5 cut(s)	358, 698, 716, 1076, 1162
CviAII	CATG	8 cut(s)	152, 235, 448, 775, 1079, 1106, 1157, 1391
CviQI	GTAC	5 cut(s)	358, 698, 716, 1076, 1162
DdeI	CTNAG	3 cut(s)	129, 555, 621
DpnI	GATC	1 cut(s)	681
DpnII	GATC	1 cut(s)	679
DraI	TTTAAA	1 cut(s)	801
EaeI	YGGCCR	1 cut(s)	337
Eam1104I	CTCTTC	2 cut(s)	410, 1096
EarI	CTCTTC	2 cut(s)	410, 1096
Eco130I	CCWWGG	2 cut(s)	447, 774
Eco47I	GGWCC	3 cut(s)	88, 925, 1220
Eco57I	CTGAAG	3 cut(s)	96, 770, 774
Eco91I	GGTNACC	1 cut(s)	629
EcoO109I	RGGNCCY	1 cut(s)	1220
EcoO65I	GGTNACC	1 cut(s)	629
EcoRII	CCWGG	1 cut(s)	19
EcoT14I	CCWWGG	2 cut(s)	447, 774
EcoT22I	ATGCAT	1 cut(s)	1396
ErhI	CCWWGG	2 cut(s)	447, 774
Esp3I	CGTCTC	1 cut(s)	369
FaeI	CATG	8 cut(s)	155, 238, 451, 778, 1082, 1109, 1160, 1394
FaqI	GGGAC	1 cut(s)	706
FatI	CATG	8 cut(s)	151, 234, 447, 774, 1078, 1105, 1156, 1390
FbaI	TGATCA	1 cut(s)	679
FokI	GGATG	3 cut(s)	18, 578, 1118
FspBI	CTAG	1 cut(s)	770
HaeIII	GGCC	2 cut(s)	339, 1191
HapII	CCGG	1 cut(s)	1254
Hin1II	CATG	8 cut(s)	155, 238, 451, 778, 1082, 1109, 1160, 1394
HindIII	AAGCTT	1 cut(s)	78
HinfI	GANTC	2 cut(s)	380, 749
HpaII	CCGG	1 cut(s)	1254
HphI	GGTGA	2 cut(s)	980, 1268
Hpy166II	GTNNAC	4 cut(s)	928, 1055, 1076, 1259
Hpy188I	TCNGA	5 cut(s)	622, 663, 754, 789, 1098
Hpy188III	TCNNGA	7 cut(s)	35, 251, 956, 1004, 1142, 1157, 1302
Hpy8I	GTNNAC	4 cut(s)	928, 1055, 1076, 1259
HpyAV	CCTTC	5 cut(s)	149, 215, 719, 749, 937
HpyCH4III	ACNGT	3 cut(s)	480, 697, 848
HpyCH4IV	ACGT	1 cut(s)	1024
HpyF10VI	GCNNNNNNNGC	5 cut(s)	68, 77, 839, 1378, 1391
HpyF3I	CTNAG	3 cut(s)	129, 555, 621
HpySE526I	ACGT	1 cut(s)	1024
Hsp92II	CATG	8 cut(s)	155, 238, 451, 778, 1082, 1109, 1160, 1394
Ksp22I	TGATCA	1 cut(s)	679
Kzo9I	GATC	1 cut(s)	679
LweI	GCATC	7 cut(s)	421, 556, 961, 982, 1000, 1140, 1384
MaeI	CTAG	1 cut(s)	770
MaeII	ACGT	1 cut(s)	1024
MaeIII	GTNAC	4 cut(s)	343, 629, 740, 1352
MalI	GATC	1 cut(s)	681
MboI	GATC	1 cut(s)	679
MboII	GAAGA	5 cut(s)	230, 427, 776, 1019, 1083
MfeI	CAATTG	1 cut(s)	593
MhlI	GDGCHC	2 cut(s)	173, 1057
MlyI	GAGTC	1 cut(s)	758
MmeI	TCCRAC	1 cut(s)	541
Mph1103I	ATGCAT	1 cut(s)	1396
MroXI	GAANNNNTTC	1 cut(s)	297
MseI	TTAA	5 cut(s)	8, 494, 800, 978, 1320
MspA1I	CMGCKG	3 cut(s)	74, 146, 399
MspI	CCGG	1 cut(s)	1254
MspR9I	CCNGG	1 cut(s)	21
MunI	CAATTG	1 cut(s)	593
MvaI	CCWGG	1 cut(s)	21
MwoI	GCNNNNNNNGC	5 cut(s)	68, 77, 839, 1378, 1391
NcoI	CCATGG	2 cut(s)	447, 774
NdeII	GATC	1 cut(s)	679
NlaIII	CATG	8 cut(s)	155, 238, 451, 778, 1082, 1109, 1160, 1394
NlaIV	GGNNCC	2 cut(s)	1087, 1233
NmeAIII	GCCGAG	1 cut(s)	152
NsiI	ATGCAT	1 cut(s)	1396
NspI	RCATGY	2 cut(s)	1082, 1109
PagI	TCATGA	1 cut(s)	1156
PaqCI	CACCTGC	1 cut(s)	253
PciI	ACATGT	2 cut(s)	1078, 1105
PdmI	GAANNNNTTC	1 cut(s)	297
PfeI	GAWTC	1 cut(s)	380
PflMI	CCANNNNNTGG	2 cut(s)	20, 97
PleI	GAGTC	1 cut(s)	757
PpsI	GAGTC	1 cut(s)	757
PpuMI	RGGWCCY	1 cut(s)	1220
PscI	ACATGT	2 cut(s)	1078, 1105
Psp5II	RGGWCCY	1 cut(s)	1220
Psp6I	CCWGG	1 cut(s)	19
PspEI	GGTNACC	1 cut(s)	629
PspGI	CCWGG	1 cut(s)	19
PspN4I	GGNNCC	2 cut(s)	1087, 1233
PspPI	GGNCC	3 cut(s)	88, 925, 1220
PspPPI	RGGWCCY	1 cut(s)	1220
PstI	CTGCAG	2 cut(s)	579, 723
PstNI	CAGNNNCTG	1 cut(s)	20
PvuII	CAGCTG	3 cut(s)	74, 146, 399
RsaI	GTAC	5 cut(s)	359, 699, 717, 1077, 1163
RsaNI	GTAC	5 cut(s)	358, 698, 716, 1076, 1162
SaqAI	TTAA	5 cut(s)	8, 494, 800, 978, 1320
Sau3AI	GATC	1 cut(s)	679
Sau96I	GGNCC	3 cut(s)	88, 925, 1220
ScaI	AGTACT	2 cut(s)	717, 1163
SchI	GAGTC	1 cut(s)	758
ScrFI	CCNGG	1 cut(s)	21
SduI	GDGCHC	2 cut(s)	173, 1057
SfaNI	GCATC	7 cut(s)	421, 556, 961, 982, 1000, 1140, 1384
SfcI	CTRYAG	3 cut(s)	575, 719, 844
SinI	GGWCC	3 cut(s)	88, 925, 1220
SmlI	CTYRAG	2 cut(s)	251, 504
SmoI	CTYRAG	2 cut(s)	251, 504
SsiI	CCGC	1 cut(s)	225
SspI	AATATT	1 cut(s)	1334
SspMI	CTAG	1 cut(s)	770
StyD4I	CCNGG	1 cut(s)	19
StyI	CCWWGG	2 cut(s)	447, 774
TaaI	ACNGT	3 cut(s)	480, 697, 848
TaiI	ACGT	1 cut(s)	1027
TaqI	TCGA	1 cut(s)	1003
TatI	WGTACW	4 cut(s)	697, 715, 1075, 1161
TfiI	GAWTC	1 cut(s)	380
Tru1I	TTAA	5 cut(s)	8, 494, 800, 978, 1320
Tru9I	TTAA	5 cut(s)	8, 494, 800, 978, 1320
TscAI	CASTG	4 cut(s)	927, 1037, 1057, 1062
TspDTI	ATGAA	5 cut(s)	32, 168, 593, 930, 1145
TspRI	CASTG	4 cut(s)	927, 1037, 1057, 1062
Van91I	CCANNNNNTGG	2 cut(s)	20, 97
VneI	GTGCAC	1 cut(s)	1053
VpaK11BI	GGWCC	3 cut(s)	88, 925, 1220
XapI	RAATTY	1 cut(s)	295
XceI	RCATGY	2 cut(s)	1082, 1109
XmnI	GAANNNNTTC	1 cut(s)	297
XspI	CTAG	1 cut(s)	770
ZrmI	AGTACT	2 cut(s)	717, 1163
Zsp2I	ATGCAT	1 cut(s)	1396

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