Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0000684

Physical Location & Seq

Genomic Coordinates Reverse (-)

3273007 .. 3274034

Gene Structure 1028 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG041800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGGCTTTCATGCTTCGTGATCTGGAGAGAGGTGTTGACATCCTAGTCGCCACTCCAGGGCGCTTAGTGGACATGATTGAAAGGTCACGAGTTTCACTCAAGATGATCAAATACTTGGCACTAGATGAGGCTGATAGGATGTTGGACATGGGTTTTGAACCTCAAATAAGGAAGATTGTTCAAAGAATGGACATGCCTCCCCCAGGTGCAAGACAAACACTGCTTTTCAGTGCAACATTCCCGCATGAAATACAGAGGCTTGCTGCAGATTTCCTCAAGAACTACATTTTTCTGACTGTTGGGAGAGTTGGGTCAAGCACTGATCTTATAGCACAAAAGGTTGAGTTTGTCAGGGATATGGACAAAATACAGCATTTATGTGGTCTTCTTAAGAACCAGAGGGACAATGAAACTCATGGAAAGGTATGA

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

ko04622 ko05161 ko05203 map04622 map05161 map05203

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

142

Amino Acids

16.3

Weight (kDa)

8.82

Isoelectric Point (pI)

23.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	6 - 86	1.3e-21	DEAD/DEAH box helicase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0000684)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42520 AT2G42520 AT2G42520 AT3G58510 AT3G58510 AT3G58510 AT3G58570
fragaria_vesca	FvH4_1g03520 FvH4_1g03520 FvH4_1g03520 FvH4_3g45200 FvH4_3g45200 FvH4_3g45200 FvH4_6g21570
malus_domestica	MD02G1034300.v1.1 MD03G1007400.v1.1 MD11G1010700.v1.1 MD12G1053000.v1.1 MD14G1051400.v1.1 MD15G1175000.v1.1
prunus_persica	Prupe.6G007000_v2.0.a1 Prupe.6G007000_v2.0.a1 Prupe.6G007000_v2.0.a1 Prupe.6G007000_v2.0.a1 Prupe.7G084600_v2.0.a1 Prupe.7G240900_v2.0.a1
pyrus_communis	pycom02g02800 pycom03g00760 pycom11g00670 pycom12g04630 pycom14g04260 pycom15g15650
rosa_chinensis	RchiOBHm_Chr2g0088731 RchiOBHm_Chr2g0088781 RchiOBHm_Chr2g0088941 RchiOBHm_Chr3g0478811 RchiOBHm_Chr5g0082811
rosa_laevigata	RLG00000015980 RLG00000016349 RLG00000023623 RLG00000036991
rosa_multiflora	Rmu_co8138978.1_g000001 Rmu_co8475903.1_g000001 Rmu_sc0000965.1_g000010 Rmu_sc0001381.1_g000020 Rmu_sc0001519.1_g000001 Rmu_sc0005751.1_g000004 Rmu_sc0011683.1_g000004
rosa_roxburghii	Rroxscaffold_1G00001630 Rroxscaffold_2G00148710 Rroxscaffold_6G00403050
rosa_rugosa	Rorug01G0486600 Rorug03G0168400 Rorug05G0479900 Rorug05G0479900 Rorug05G0479900 Rorug05G0480000
rosa_samantha	Rh2AG041800 Rh2AG076200 Rh2BG040500 Rh2BG077600 Rh2CG041300 Rh2CG041900 Rh2CG079800 Rh2DG040900 Rh2DG074900 Rh3AG220200 Rh3BG252000 Rh3DG245100 Rh5AG530300 Rh5DG565600
rosa_wichuraiana	Rw2G003260 Rw2G006990 Rw3G019790 Rw5G049570

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	44
AciI	CCGC	1 cut(s)	242
AfiI	CCNNNNNNNGG	2 cut(s)	57, 203
AflII	CTTAAG	1 cut(s)	389
AgsI	TTSAA	3 cut(s)	80, 158, 182
AjnI	CCWGG	2 cut(s)	55, 202
ApeKI	GCWGC	1 cut(s)	263
ArsI	GACNNNNNNTTYG	2 cut(s)	137, 169
AspLEI	GCGC	1 cut(s)	63
BauI	CACGAG	1 cut(s)	87
BbsI	GAAGAC	1 cut(s)	377
BbvI	GCAGC	1 cut(s)	250
BciT130I	CCWGG	2 cut(s)	57, 204
BclI	TGATCA	1 cut(s)	105
BfaI	CTAG	2 cut(s)	44, 122
BfmI	CTRYAG	1 cut(s)	264
BfoI	RGCGCY	1 cut(s)	64
BfrI	CTTAAG	1 cut(s)	389
BisI	GCNGC	1 cut(s)	264
BlsI	GCNGC	1 cut(s)	265
Bme1390I	CCNGG	2 cut(s)	57, 204
BmrFI	CCNGG	2 cut(s)	57, 204
BpiI	GAAGAC	1 cut(s)	377
BplI	GAGNNNNNCTC	2 cut(s)	81, 113
BpmI	CTGGAG	2 cut(s)	39, 44
BpuEI	CTTGAG	2 cut(s)	83, 260
BsaJI	CCNNGG	2 cut(s)	56, 202
Bsc4I	CCNNNNNNNGG	2 cut(s)	57, 203
BseBI	CCWGG	2 cut(s)	57, 204
BseDI	CCNNGG	2 cut(s)	56, 202
BseGI	GGATG	2 cut(s)	39, 144
BseLI	CCNNNNNNNGG	2 cut(s)	57, 203
BseXI	GCAGC	1 cut(s)	250
BslFI	GGGAC	1 cut(s)	416
BslI	CCNNNNNNNGG	2 cut(s)	57, 203
BsmFI	GGGAC	1 cut(s)	416
Bsp143I	GATC	3 cut(s)	19, 105, 322
BspACI	CCGC	1 cut(s)	242
BspMAI	CTGCAG	1 cut(s)	268
BspTI	CTTAAG	1 cut(s)	389
BssECI	CCNNGG	2 cut(s)	56, 202
BssMI	GATC	3 cut(s)	19, 105, 322
BssSI	CACGAG	1 cut(s)	87
Bst2BI	CACGAG	1 cut(s)	87
Bst2UI	CCWGG	2 cut(s)	57, 204
Bst4CI	ACNGT	1 cut(s)	298
BstAFI	CTTAAG	1 cut(s)	389
BstC8I	GCNNGC	1 cut(s)	261
BstDEI	CTNAG	1 cut(s)	64
BstENI	CCTNNNNNAGG	1 cut(s)	201
BstF5I	GGATG	2 cut(s)	39, 144
BstH2I	RGCGCY	1 cut(s)	64
BstHHI	GCGC	1 cut(s)	63
BstKTI	GATC	3 cut(s)	22, 108, 325
BstMBI	GATC	3 cut(s)	19, 105, 322
BstNI	CCWGG	2 cut(s)	57, 204
BstNSI	RCATGY	1 cut(s)	196
BstSCI	CCNGG	2 cut(s)	55, 202
BstSFI	CTRYAG	1 cut(s)	264
BstV1I	GCAGC	1 cut(s)	250
BstV2I	GAAGAC	1 cut(s)	377
BtsCI	GGATG	2 cut(s)	39, 144
BtsI	GCAGTG	1 cut(s)	218
BtsIMutI	CAGTG	3 cut(s)	218, 235, 318
Cac8I	GCNNGC	1 cut(s)	261
CfoI	GCGC	1 cut(s)	63
CviAII	CATG	6 cut(s)	10, 73, 148, 193, 245, 416
CviJI	RGCY	3 cut(s)	5, 131, 259
CviKI_1	RGCY	3 cut(s)	5, 131, 259
DdeI	CTNAG	1 cut(s)	64
DpnI	GATC	3 cut(s)	21, 107, 324
DpnII	GATC	3 cut(s)	19, 105, 322
DrdI	GACNNNNNNGTC	1 cut(s)	44
DseDI	GACNNNNNNGTC	1 cut(s)	44
EcoNI	CCTNNNNNAGG	1 cut(s)	201
EcoRII	CCWGG	2 cut(s)	55, 202
FaeI	CATG	6 cut(s)	13, 76, 151, 196, 248, 419
FaqI	GGGAC	1 cut(s)	416
FatI	CATG	6 cut(s)	9, 72, 147, 192, 244, 415
FauI	CCCGC	1 cut(s)	249
FbaI	TGATCA	1 cut(s)	105
Fnu4HI	GCNGC	1 cut(s)	264
FokI	GGATG	2 cut(s)	26, 151
Fsp4HI	GCNGC	1 cut(s)	264
FspBI	CTAG	2 cut(s)	44, 122
GlaI	GCGC	1 cut(s)	62
GluI	GCNGC	1 cut(s)	264
GsuI	CTGGAG	2 cut(s)	39, 44
HaeII	RGCGCY	1 cut(s)	64
HhaI	GCGC	1 cut(s)	63
Hin1II	CATG	6 cut(s)	13, 76, 151, 196, 248, 419
Hin6I	GCGC	1 cut(s)	61
HinP1I	GCGC	1 cut(s)	61
HincII	GTYRAC	1 cut(s)	37
HindII	GTYRAC	1 cut(s)	37
Hpy166II	GTNNAC	2 cut(s)	37, 70
Hpy188I	TCNGA	1 cut(s)	294
Hpy188III	TCNNGA	5 cut(s)	17, 23, 87, 100, 277
Hpy8I	GTNNAC	2 cut(s)	37, 70
HpyCH4III	ACNGT	1 cut(s)	298
HpyCH4V	TGCA	3 cut(s)	209, 233, 266
HpyF3I	CTNAG	1 cut(s)	64
Hsp92II	CATG	6 cut(s)	13, 76, 151, 196, 248, 419
HspAI	GCGC	1 cut(s)	61
Ksp22I	TGATCA	1 cut(s)	105
Kzo9I	GATC	3 cut(s)	19, 105, 322
LpnPI	CCDG	7 cut(s)	8, 42, 69, 189, 216, 337, 410
Lsp1109I	GCAGC	1 cut(s)	250
MaeI	CTAG	2 cut(s)	44, 122
MaeIII	GTNAC	1 cut(s)	84
MalI	GATC	3 cut(s)	21, 107, 324
MboI	GATC	3 cut(s)	19, 105, 322
MboII	GAAGA	2 cut(s)	184, 377
MmeI	TCCRAC	1 cut(s)	123
MnlI	CCTC	7 cut(s)	23, 121, 171, 207, 249, 284, 393
MseI	TTAA	1 cut(s)	390
MslI	CAYNNNNRTG	1 cut(s)	378
MspCI	CTTAAG	1 cut(s)	389
MspR9I	CCNGG	2 cut(s)	57, 204
MvaI	CCWGG	2 cut(s)	57, 204
NdeII	GATC	3 cut(s)	19, 105, 322
NlaIII	CATG	6 cut(s)	13, 76, 151, 196, 248, 419
NmuCI	GTSAC	1 cut(s)	84
NspI	RCATGY	1 cut(s)	196
PkrI	GCNGC	1 cut(s)	265
Psp6I	CCWGG	2 cut(s)	55, 202
PspGI	CCWGG	2 cut(s)	55, 202
PstI	CTGCAG	1 cut(s)	268
RseI	CAYNNNNRTG	1 cut(s)	378
SaqAI	TTAA	1 cut(s)	390
SatI	GCNGC	1 cut(s)	264
Sau3AI	GATC	3 cut(s)	19, 105, 322
ScrFI	CCNGG	2 cut(s)	57, 204
SetI	ASST	6 cut(s)	34, 86, 163, 208, 342, 426
SfcI	CTRYAG	1 cut(s)	264
SmiMI	CAYNNNNRTG	1 cut(s)	378
SmlI	CTYRAG	3 cut(s)	98, 275, 389
SmoI	CTYRAG	3 cut(s)	98, 275, 389
SsiI	CCGC	1 cut(s)	242
SspMI	CTAG	2 cut(s)	44, 122
StyD4I	CCNGG	2 cut(s)	55, 202
TaaI	ACNGT	1 cut(s)	298
Tru1I	TTAA	1 cut(s)	390
Tru9I	TTAA	1 cut(s)	390
TscAI	CASTG	3 cut(s)	225, 235, 325
TseFI	GTSAC	1 cut(s)	84
TseI	GCWGC	1 cut(s)	263
Tsp45I	GTSAC	1 cut(s)	84
TspDTI	ATGAA	2 cut(s)	261, 423
TspRI	CASTG	3 cut(s)	225, 235, 325
Vha464I	CTTAAG	1 cut(s)	389
XagI	CCTNNNNNAGG	1 cut(s)	201
XceI	RCATGY	1 cut(s)	196
XspI	CTAG	2 cut(s)	44, 122

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