Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0012171

Physical Location & Seq

Genomic Coordinates Forward (+)

8453210 .. 8459943

Gene Structure 6734 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG100000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1371 bp

ATGGGAGGTGAAAAGAGGGAAAAGGAGAAGGCTAGATTGCGCAAAGGCATATCTATTCTCGTTGCAACTCCTGGAAGGCTGTTGGATCATTTGAAGCATACATCATCATTTTCGCACACCAATTTGCGGTGGATAATTTTCGATGAAGCAGATAGGATTTTGGAACTTGGATTTGGAAAGGAGATAGAGGAAATACTAGATCTTTTGGGTTCGAGGAAACATGCCAAGGATGGTGGTGCGTCAAGTAAATTTGAATTTCAGAGGCAGAATTTGCTGTTGTCTGCGACCTTGAATGAAAAAGTCAATCATCTTGCAAAGATGAGCTTAGACAAACCGGTCTTGATTGGTATGCCTGACAAGAAGATGCCGTCGATTACAAAATTTGAACCTTTAGGGTCTTCCGACTCTGACACAGAGGAACCGCAATATTCTGTGAAGGCAACAGGCTCTACAAATGAAGATTATAAACTTCCAGCCCAATTGACTCAGAGATATGTTAAAGTACCATGTAATGCGCGGCTTGCTGTACTTCTTTCCATTCTAAAGCATCTTTTTGAGCGAGAAACTTCTGAAAAAATTGTGCTATTCTTTTCAACATGTGATGCAGTGGATTTTCACTACTCTTTGTTAAGTGAGTTCCAATTCAAACCTAATTCAGGACCAGGATCAGAACTTAAGCAGAAATTTCTTAGATGCAAGACCTTCAGGTTACATGGCAATATGGAGCAAGTGGATCGAAGAACCACATTCGAGACCTTTAAAACAGAAAAATCAGCTCTTCTTTTGTCCACAGATGTTTCTGCCAGAGGTTTGGATTTCCCCAAAGTTAGATGTATCATACAGTATGATTCTCCAGGCGAGGCTACTGAATATGTGCATAGGGTTGGCAGAACAGCTCGGCTGGGTGAAAGAGGAGATTCAATATTATTTTTACAGCCAATTGAAATCGATTATTTGAAAGAATTGGAGAAGCATGGTGTTTCTCTAGTAGAGTATCCTCTCCTCAAAGTATTAGATAATTTCCCACTATATGGTCAGCAGCATGTCAGGAAGTTTGTTTCCATTGATGCACATCCTTGGGTGCTGGCTTTGCAAAAGGCACTTGAAGCGTTTACAGATAAGCCAAACATAAAGCCTCTGGCAAAGAATGCATTTTGCTCTTGGGTTCGTGCATACACTGCCCACCGTGGTGAGCTGAAGAGAATTTTTGTAGCAAAGAAACTTCACTTGGGACATGTTGCAAAAAGCTTTGCATTAAAAGAACAACCTTCCTTGGTTGGGGGTTCGTTTCACAAGCAAGCACAGAAGAGGAAGAGAGACGAAAGGCAGAAGGGAGGAATGAAAAAGAGGAAGTTTAACAGGAAAACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010501 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0031974 GO:0031981 GO:0034641 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DUF4217 Helicase_C

Protein Analysis

456

Amino Acids

51.99

Weight (kDa)

9.65

Isoelectric Point (pI)

37.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	2 - 102	3.8e-17	DEAD/DEAH box helicase
Helicase_C	PF00271	179 - 302	7.1e-23	Helicase conserved C-terminal domain
CTE_SPB4	PF13959	375 - 424	2.1e-17	ATP-dependent rRNA helicase SPB4-like, C-terminal extension

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: OG0012171)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40700
fragaria_vesca	FvH4_1g09140 FvH4_1g09140 FvH4_1g09140
malus_domestica	MD02G1096800.v1.1
prunus_persica	Prupe.7G194100_v2.0.a1
pyrus_communis	pycom02g07680 pycom15g19610
rosa_chinensis	RchiOBHm_Chr2g0095531
rosa_laevigata	RLG00000016576
rosa_multiflora	Rmu_co8308315.1_g000001 Rmu_co8333539.1_g000001
rosa_roxburghii	Rroxscaffold_2G00146220
rosa_rugosa	Rorug02G0052200
rosa_samantha	Rh2AG100000 Rh2BG101400 Rh2CG103600 Rh2DG100900
rosa_wichuraiana	Rw2G007590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	465
AasI	GACNNNNNNGTC	1 cut(s)	335
Acc16I	TGCGCA	1 cut(s)	41
AccB7I	CCANNNNNTGG	1 cut(s)	1031
AccII	CGCG	1 cut(s)	517
AciI	CCGC	3 cut(s)	127, 422, 517
AclWI	GGATC	3 cut(s)	93, 673, 741
AcsI	RAATTY	6 cut(s)	248, 254, 268, 380, 683, 1203
AcuI	CTGAAG	2 cut(s)	688, 1217
AfaI	GTAC	2 cut(s)	504, 528
AfiI	CCNNNNNNNGG	4 cut(s)	126, 656, 1031, 1278
AflII	CTTAAG	1 cut(s)	674
AflIII	ACRYGT	2 cut(s)	596, 1234
AgeI	ACCGGT	1 cut(s)	334
AjnI	CCWGG	3 cut(s)	70, 661, 853
AjuI	GAANNNNNNNTTGG	4 cut(s)	156, 188, 1211, 1243
AleI	CACNNNNGTG	1 cut(s)	1188
AluBI	AGCT	5 cut(s)	324, 776, 896, 1195, 1248
AluI	AGCT	5 cut(s)	324, 776, 896, 1195, 1248
Alw26I	GTCTC	2 cut(s)	746, 1311
AlwI	GGATC	3 cut(s)	93, 673, 741
ApeKI	GCWGC	1 cut(s)	1039
ApoI	RAATTY	6 cut(s)	248, 254, 268, 380, 683, 1203
AsiGI	ACCGGT	1 cut(s)	334
AspLEI	GCGC	2 cut(s)	42, 517
AspS9I	GGNCC	1 cut(s)	659
AsuHPI	GGTGA	3 cut(s)	20, 917, 1202
AvaII	GGWCC	1 cut(s)	659
BbsI	GAAGAC	1 cut(s)	390
BbvI	GCAGC	1 cut(s)	1051
BccI	CCATC	1 cut(s)	224
BceAI	ACGGC	1 cut(s)	352
BcgI	CGANNNNNNTGC	2 cut(s)	716, 750
BciT130I	CCWGG	3 cut(s)	72, 663, 855
BciVI	GTATCC	1 cut(s)	1005
BcoDI	GTCTC	2 cut(s)	746, 1311
BfaI	CTAG	3 cut(s)	33, 197, 986
BfrI	CTTAAG	1 cut(s)	674
BfuI	GTATCC	1 cut(s)	1005
BglII	AGATCT	1 cut(s)	199
BisI	GCNGC	2 cut(s)	518, 1040
BlsI	GCNGC	2 cut(s)	519, 1041
Bme1390I	CCNGG	3 cut(s)	72, 663, 855
Bme18I	GGWCC	1 cut(s)	659
BmgT120I	GGNCC	1 cut(s)	659
BmiI	GGNNCC	1 cut(s)	420
BmrFI	CCNGG	3 cut(s)	72, 663, 855
BmsI	GCATC	5 cut(s)	354, 556, 592, 683, 1057
BpiI	GAAGAC	1 cut(s)	390
BpmI	CTGGAG	1 cut(s)	837
Bsa29I	ATCGAT	1 cut(s)	948
BsaBI	GATNNNNATC	1 cut(s)	1071
BsaI	GGTCTC	1 cut(s)	746
BsaJI	CCNNGG	4 cut(s)	225, 1076, 1186, 1272
BsaWI	WCCGGW	1 cut(s)	334
Bsc4I	CCNNNNNNNGG	4 cut(s)	126, 656, 1031, 1278
Bse118I	RCCGGY	1 cut(s)	334
Bse8I	GATNNNNATC	1 cut(s)	1071
BseBI	CCWGG	3 cut(s)	72, 663, 855
BseCI	ATCGAT	1 cut(s)	948
BseDI	CCNNGG	4 cut(s)	225, 1076, 1186, 1272
BseGI	GGATG	2 cut(s)	235, 1072
BseJI	GATNNNNATC	1 cut(s)	1071
BseLI	CCNNNNNNNGG	4 cut(s)	126, 656, 1031, 1278
BseMII	CTCAG	1 cut(s)	500
BseRI	GAGGAG	2 cut(s)	927, 992
BseXI	GCAGC	1 cut(s)	1051
BseYI	CCCAGC	1 cut(s)	901
Bsh1236I	CGCG	1 cut(s)	517
BshTI	ACCGGT	1 cut(s)	334
BshVI	ATCGAT	1 cut(s)	948
BsiSI	CCGG	1 cut(s)	335
BslFI	GGGAC	1 cut(s)	1245
BslI	CCNNNNNNNGG	4 cut(s)	126, 656, 1031, 1278
BsmAI	GTCTC	2 cut(s)	746, 1311
BsmBI	CGTCTC	1 cut(s)	1311
BsmFI	GGGAC	1 cut(s)	1245
BsmI	GAATGC	1 cut(s)	1153
Bso31I	GGTCTC	1 cut(s)	746
Bsp143I	GATC	4 cut(s)	85, 199, 665, 733
BspACI	CCGC	3 cut(s)	127, 422, 517
BspCNI	CTCAG	1 cut(s)	499
BspDI	ATCGAT	1 cut(s)	948
BspFNI	CGCG	1 cut(s)	517
BspLI	GGNNCC	1 cut(s)	420
BspPI	GGATC	3 cut(s)	93, 673, 741
BspQI	GCTCTTC	1 cut(s)	783
BspTI	CTTAAG	1 cut(s)	674
BspTNI	GGTCTC	1 cut(s)	746
BsrFI	RCCGGY	1 cut(s)	334
BssAI	RCCGGY	1 cut(s)	334
BssECI	CCNNGG	4 cut(s)	225, 1076, 1186, 1272
BssMI	GATC	4 cut(s)	85, 199, 665, 733
BssT1I	CCWWGG	3 cut(s)	225, 1076, 1272
Bst2UI	CCWGG	3 cut(s)	72, 663, 855
Bst4CI	ACNGT	2 cut(s)	843, 1187
Bst6I	CTCTTC	4 cut(s)	783, 1193, 1301, 1307
BstAFI	CTTAAG	1 cut(s)	674
BstAPI	GCANNNNNTGC	3 cut(s)	271, 1148, 1178
BstC8I	GCNNGC	3 cut(s)	522, 1086, 1299
BstDEI	CTNAG	3 cut(s)	325, 486, 689
BstDSI	CCRYGG	1 cut(s)	1186
BstENI	CCTNNNNNAGG	1 cut(s)	654
BstF5I	GGATG	2 cut(s)	235, 1072
BstFNI	CGCG	1 cut(s)	517
BstHHI	GCGC	2 cut(s)	42, 517
BstKTI	GATC	4 cut(s)	88, 202, 668, 736
BstMAI	GTCTC	2 cut(s)	746, 1311
BstMBI	GATC	4 cut(s)	85, 199, 665, 733
BstMWI	GCNNNNNNNGC	6 cut(s)	271, 521, 1090, 1106, 1148, 1178
BstNI	CCWGG	3 cut(s)	72, 663, 855
BstNSI	RCATGY	4 cut(s)	224, 600, 1046, 1238
BstSCI	CCNGG	3 cut(s)	70, 661, 853
BstUI	CGCG	1 cut(s)	517
BstV1I	GCAGC	1 cut(s)	1051
BstV2I	GAAGAC	1 cut(s)	390
BstX2I	RGATCY	1 cut(s)	199
BstXI	CCANNNNNNTGG	1 cut(s)	811
BstYI	RGATCY	1 cut(s)	199
Bsu15I	ATCGAT	1 cut(s)	948
BsuI	GTATCC	1 cut(s)	1005
BsuTUI	ATCGAT	1 cut(s)	948
BtgI	CCRYGG	1 cut(s)	1186
BtsCI	GGATG	2 cut(s)	235, 1072
BtsI	GCAGTG	2 cut(s)	612, 1176
BtsIMutI	CAGTG	2 cut(s)	612, 1176
Cac8I	GCNNGC	3 cut(s)	522, 1086, 1299
CfoI	GCGC	2 cut(s)	42, 517
Cfr10I	RCCGGY	1 cut(s)	334
Cfr13I	GGNCC	1 cut(s)	659
ClaI	ATCGAT	1 cut(s)	948
CseI	GACGC	1 cut(s)	228
Csp6I	GTAC	2 cut(s)	503, 527
CspAI	ACCGGT	1 cut(s)	334
CspCI	CAANNNNNGTGG	2 cut(s)	214, 249
CviAII	CATG	8 cut(s)	221, 507, 597, 713, 974, 1043, 1235, 1368
CviQI	GTAC	2 cut(s)	503, 527
DdeI	CTNAG	3 cut(s)	325, 486, 689
DpnI	GATC	4 cut(s)	87, 201, 667, 735
DpnII	GATC	4 cut(s)	85, 199, 665, 733
DraI	TTTAAA	1 cut(s)	760
DrdI	GACNNNNNNGTC	1 cut(s)	335
DseDI	GACNNNNNNGTC	1 cut(s)	335
Eam1104I	CTCTTC	4 cut(s)	783, 1193, 1301, 1307
EarI	CTCTTC	4 cut(s)	783, 1193, 1301, 1307
Eco130I	CCWWGG	3 cut(s)	225, 1076, 1272
Eco31I	GGTCTC	1 cut(s)	746
Eco47I	GGWCC	1 cut(s)	659
Eco57I	CTGAAG	2 cut(s)	688, 1217
EcoNI	CCTNNNNNAGG	1 cut(s)	654
EcoRII	CCWGG	3 cut(s)	70, 661, 853
EcoT14I	CCWWGG	3 cut(s)	225, 1076, 1272
EcoT22I	ATGCAT	1 cut(s)	1153
ErhI	CCWWGG	3 cut(s)	225, 1076, 1272
Esp3I	CGTCTC	1 cut(s)	1311
FaeI	CATG	8 cut(s)	224, 510, 600, 716, 977, 1046, 1238, 1371
FalI	AAGNNNNNCTT	2 cut(s)	308, 340
FaqI	GGGAC	1 cut(s)	1245
FatI	CATG	8 cut(s)	220, 506, 596, 712, 973, 1042, 1234, 1367
Fnu4HI	GCNGC	2 cut(s)	518, 1040
FokI	GGATG	2 cut(s)	242, 1059
Fsp4HI	GCNGC	2 cut(s)	518, 1040
FspBI	CTAG	3 cut(s)	33, 197, 986
FspI	TGCGCA	1 cut(s)	41
GlaI	GCGC	2 cut(s)	41, 516
GluI	GCNGC	2 cut(s)	518, 1040
GsaI	CCCAGC	1 cut(s)	905
GsuI	CTGGAG	1 cut(s)	837
HapII	CCGG	1 cut(s)	335
HgaI	GACGC	1 cut(s)	228
HhaI	GCGC	2 cut(s)	42, 517
Hin1II	CATG	8 cut(s)	224, 510, 600, 716, 977, 1046, 1238, 1371
Hin6I	GCGC	2 cut(s)	40, 515
HinP1I	GCGC	2 cut(s)	40, 515
HindIII	AAGCTT	1 cut(s)	1246
HinfI	GANTC	4 cut(s)	404, 484, 848, 917
HpaII	CCGG	1 cut(s)	335
HphI	GGTGA	3 cut(s)	20, 917, 1202
Hpy166II	GTNNAC	2 cut(s)	789, 1113
Hpy188I	TCNGA	6 cut(s)	261, 403, 409, 489, 571, 670
Hpy188III	TCNNGA	4 cut(s)	340, 657, 751, 1048
Hpy8I	GTNNAC	2 cut(s)	789, 1113
Hpy99I	CGWCG	1 cut(s)	373
HpyAV	CCTTC	6 cut(s)	22, 69, 430, 712, 1278, 1324
HpyCH4III	ACNGT	2 cut(s)	843, 1187
HpyF10VI	GCNNNNNNNGC	6 cut(s)	271, 521, 1090, 1106, 1148, 1178
HpyF3I	CTNAG	3 cut(s)	325, 486, 689
Hsp92II	CATG	8 cut(s)	224, 510, 600, 716, 977, 1046, 1238, 1371
HspAI	GCGC	2 cut(s)	40, 515
Kzo9I	GATC	4 cut(s)	85, 199, 665, 733
LguI	GCTCTTC	1 cut(s)	783
LmnI	GCTCC	1 cut(s)	724
Lsp1109I	GCAGC	1 cut(s)	1051
LweI	GCATC	5 cut(s)	354, 556, 592, 683, 1057
MaeI	CTAG	3 cut(s)	33, 197, 986
MaeIII	GTNAC	1 cut(s)	708
MalI	GATC	4 cut(s)	87, 201, 667, 735
MboI	GATC	4 cut(s)	85, 199, 665, 733
MboII	GAAGA	8 cut(s)	373, 390, 470, 750, 770, 1210, 1318, 1324
MfeI	CAATTG	2 cut(s)	479, 939
MflI	RGATCY	1 cut(s)	199
MlyI	GAGTC	2 cut(s)	398, 478
MmeI	TCCRAC	2 cut(s)	63, 426
Mph1103I	ATGCAT	1 cut(s)	1153
MseI	TTAA	6 cut(s)	498, 629, 675, 759, 1256, 1356
MslI	CAYNNNNRTG	1 cut(s)	1188
MspCI	CTTAAG	1 cut(s)	674
MspI	CCGG	1 cut(s)	335
MspR9I	CCNGG	3 cut(s)	72, 663, 855
MunI	CAATTG	2 cut(s)	479, 939
Mva1269I	GAATGC	1 cut(s)	1153
MvaI	CCWGG	3 cut(s)	72, 663, 855
MvnI	CGCG	1 cut(s)	517
MwoI	GCNNNNNNNGC	6 cut(s)	271, 521, 1090, 1106, 1148, 1178
NdeII	GATC	4 cut(s)	85, 199, 665, 733
NlaIII	CATG	8 cut(s)	224, 510, 600, 716, 977, 1046, 1238, 1371
NlaIV	GGNNCC	1 cut(s)	420
NmeAIII	GCCGAG	1 cut(s)	877
NsbI	TGCGCA	1 cut(s)	41
NsiI	ATGCAT	1 cut(s)	1153
NspI	RCATGY	4 cut(s)	224, 600, 1046, 1238
OliI	CACNNNNGTG	1 cut(s)	1188
PciI	ACATGT	2 cut(s)	596, 1234
PciSI	GCTCTTC	1 cut(s)	783
PctI	GAATGC	1 cut(s)	1153
PfeI	GAWTC	2 cut(s)	848, 917
PflMI	CCANNNNNTGG	1 cut(s)	1031
PfoI	TCCNGGA	1 cut(s)	70
PinAI	ACCGGT	1 cut(s)	334
PkrI	GCNGC	2 cut(s)	519, 1041
PleI	GAGTC	2 cut(s)	398, 478
PpsI	GAGTC	2 cut(s)	398, 478
PscI	ACATGT	2 cut(s)	596, 1234
PsiI	TTATAA	1 cut(s)	465
Psp6I	CCWGG	3 cut(s)	70, 661, 853
PspFI	CCCAGC	1 cut(s)	901
PspGI	CCWGG	3 cut(s)	70, 661, 853
PspN4I	GGNNCC	1 cut(s)	420
PspPI	GGNCC	1 cut(s)	659
PsuI	RGATCY	1 cut(s)	199
RsaI	GTAC	2 cut(s)	504, 528
RsaNI	GTAC	2 cut(s)	503, 527
RseI	CAYNNNNRTG	1 cut(s)	1188
SapI	GCTCTTC	1 cut(s)	783
SaqAI	TTAA	6 cut(s)	498, 629, 675, 759, 1256, 1356
SatI	GCNGC	2 cut(s)	518, 1040
Sau3AI	GATC	4 cut(s)	85, 199, 665, 733
Sau96I	GGNCC	1 cut(s)	659
SchI	GAGTC	2 cut(s)	398, 478
ScrFI	CCNGG	3 cut(s)	72, 663, 855
SfaNI	GCATC	5 cut(s)	354, 556, 592, 683, 1057
SinI	GGWCC	1 cut(s)	659
SmiMI	CAYNNNNRTG	1 cut(s)	1188
SmlI	CTYRAG	1 cut(s)	674
SmoI	CTYRAG	1 cut(s)	674
SsiI	CCGC	3 cut(s)	127, 422, 517
SspI	AATATT	2 cut(s)	428, 924
SspMI	CTAG	3 cut(s)	33, 197, 986
StyD4I	CCNGG	3 cut(s)	70, 661, 853
StyI	CCWWGG	3 cut(s)	225, 1076, 1272
TaaI	ACNGT	2 cut(s)	843, 1187
TaqI	TCGA	6 cut(s)	141, 212, 371, 736, 750, 948
TatI	WGTACW	1 cut(s)	526
TauI	GCSGC	1 cut(s)	520
TfiI	GAWTC	2 cut(s)	848, 917
Tru1I	TTAA	6 cut(s)	498, 629, 675, 759, 1256, 1356
Tru9I	TTAA	6 cut(s)	498, 629, 675, 759, 1256, 1356
TscAI	CASTG	2 cut(s)	612, 1183
TseI	GCWGC	1 cut(s)	1039
TspDTI	ATGAA	4 cut(s)	159, 309, 471, 1355
TspRI	CASTG	2 cut(s)	612, 1183
Van91I	CCANNNNNTGG	1 cut(s)	1031
Vha464I	CTTAAG	1 cut(s)	674
VpaK11BI	GGWCC	1 cut(s)	659
XagI	CCTNNNNNAGG	1 cut(s)	654
XapI	RAATTY	6 cut(s)	248, 254, 268, 380, 683, 1203
XceI	RCATGY	4 cut(s)	224, 600, 1046, 1238
XspI	CTAG	3 cut(s)	33, 197, 986
Zsp2I	ATGCAT	1 cut(s)	1153

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