Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0012094

Physical Location & Seq

Genomic Coordinates Reverse (-)

12997066 .. 13005236

Gene Structure 8171 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG147400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1281 bp

ATGGCGGAAGGCGCTTCATTTTTGTTCGGCGGCATTCACTTCAACCGGAGAAAGTTCGCCACTGACTTTTCCCGATTCGAGGCCAAAAAGAAAGAGATAAACGCTTCGAGCCTTGCACAACCTGAACCAGAAGAAGAGGAGGAGGAGGAGGAAGAGCCAGTAGTTGCAGTTTCTGTGAAGAAGAGGAAGAGGAAGACGGAGGGTTCAGAGTCTGGGGATGGAATCAGTCTTTATAAGACGTCAAAATCAGCAAAGGCAGCTAAGAAAGATAAAGAGAAGCCTGTGAATGAACGCGCCAAGCAGAAGAAGAAATTAAATAGACAACTTGAGCGGGATTCGATAATTCGAAAGAAGTATAATGTGCATGTGTCGGGGAATAATATCCCATCCCCTCTTGAGAATTTTTCGGAGTTAAGCTCAAGATTTGGATGTGAAGAGTATTTACTTCGTAATTTGGCCGAGCTTGGATTTGAAGAGCCAACACCAATCCAAAGGCAGGCTATTCCAGTCCTCTTATCTGGCCGGGAATGCTTTGCTTGTGCTCCAACTGGGTCTGGAAAAACCCTTGCTTTTGTGGTTCCCATGCTTATGAAACTTAAGCAAGCGTCTAAGGGTGGCATTCGAGCTGTGATTCTTTGTCCTACACGTGAATTAGCTGCTCAGACAACCAGAGAGTGCAAAAAGTTGGCAAAAGGAAATAAATTTTACATTAAGTTGATGACTAAAGAGCTTGTTAGAAGTGCTGATTTTTCAAAAGACCCTTGTGATGTACTCATATCTACTCCACAACGGCTACGGATGGCTATTCGAAAAAAGAAGCTTAATTTAAGCAGGGTGGAATATCTTGTCTTGGATGAGTCTGATAAGCTCTTTGAGCTTGGCCTGTTAAAGCAGATTGATTCTGTGGTGAAAGCATGCTCAAACCCTTCAATAGTTCGCTCTTTGTTTAGTGCTACTTTACCTGATTTTGTTGAGGAGCTTGCACGTACTATAATGCATGATGCTGTTCGAGTTATCATTGGCAGGAAAAATACTGCTTCTGAGACTATTAAGCAAAAATTGGTATATGCTGGAAGTGAACAAGGGAAATTTCTAGCACTTCGACAGAGCTTTACAGAGAGTCTAAATCCACCAGTGTTGATCTTTGTACAAAGCAAAGAGCGAGCGAAGGAACTCTATGGAGAGCTGTTATGTGAGAACATAAGAGTTGGTGCGATCCATTCTGATATGTCGCAAGCAGAGGTAATTATATTTCCATTGTTTTCAGCCAACTTGTCTTGA

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:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010467 GO:0010501 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022613 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

426

Amino Acids

47.75

Weight (kDa)

9.4

Isoelectric Point (pI)

53.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	161 - 326	3.2e-39	DEAD/DEAH box helicase
ResIII	PF04851	164 - 311	3.5e-10	Type III restriction enzyme, res subunit

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: OG0012094)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G09720 AT3G09720
fragaria_vesca	FvH4_6g15470
malus_domestica	MD04G1103000.v1.1 MD12G1123200.v1.1
prunus_persica	Prupe.6G240000_v2.0.a1 Prupe.6G240000_v2.0.a1
pyrus_communis	pycom04g09810 pycom12g12190
rosa_chinensis	RchiOBHm_Chr3g0468951
rosa_laevigata	RLG00000024397
rosa_multiflora	Rmu_co8069278.1_g000001 Rmu_co8291353.1_g000001
rosa_roxburghii	Rroxscaffold_6G00412430
rosa_rugosa	Rorug03G0097800
rosa_samantha	Rh3AG147400 Rh3BG170000 Rh3DG205000
rosa_wichuraiana	Rw3G013880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	234
AatII	GACGTC	1 cut(s)	242
AccBSI	CCGCTC	1 cut(s)	331
AccII	CGCG	1 cut(s)	294
AciI	CCGC	3 cut(s)	5, 30, 331
AclWI	GGATC	1 cut(s)	1210
AcoI	YGGCCR	2 cut(s)	456, 520
AcsI	RAATTY	3 cut(s)	400, 701, 1088
AcvI	CACGTG	1 cut(s)	647
AcyI	GRCGYC	1 cut(s)	239
AfaI	GTAC	3 cut(s)	771, 988, 1149
AfiI	CCNNNNNNNGG	2 cut(s)	79, 496
AflII	CTTAAG	1 cut(s)	596
AflIII	ACRYGT	1 cut(s)	644
AgsI	TTSAA	4 cut(s)	43, 473, 753, 930
Alw21I	GWGCWC	1 cut(s)	544
Alw26I	GTCTC	1 cut(s)	1037
AlwI	GGATC	1 cut(s)	1210
AlwNI	CAGNNNCTG	2 cut(s)	173, 212
AoxI	GGCC	4 cut(s)	81, 456, 520, 880
ApeKI	GCWGC	2 cut(s)	257, 656
ApoI	RAATTY	3 cut(s)	400, 701, 1088
AspLEI	GCGC	2 cut(s)	14, 296
AsuC2I	CCSGG	1 cut(s)	524
AsuHPI	GGTGA	1 cut(s)	919
AsuII	TTCGAA	2 cut(s)	346, 808
BarI	GAAGNNNNNNTAC	2 cut(s)	426, 458
BbrPI	CACGTG	1 cut(s)	647
BbsI	GAAGAC	1 cut(s)	200
Bbv12I	GWGCWC	1 cut(s)	544
BbvI	GCAGC	2 cut(s)	269, 643
BccI	CCATC	3 cut(s)	212, 394, 793
BceAI	ACGGC	1 cut(s)	806
BcnI	CCSGG	1 cut(s)	524
BcoDI	GTCTC	1 cut(s)	1037
BfaI	CTAG	1 cut(s)	1094
BfoI	RGCGCY	1 cut(s)	15
BfrI	CTTAAG	1 cut(s)	596
BisI	GCNGC	3 cut(s)	31, 258, 657
BlsI	GCNGC	3 cut(s)	32, 259, 658
Bme1390I	CCNGG	1 cut(s)	524
BmiI	GGNNCC	1 cut(s)	579
BmrFI	CCNGG	1 cut(s)	524
BmrI	ACTGGG	1 cut(s)	558
BmsI	GCATC	1 cut(s)	991
BmuI	ACTGGG	1 cut(s)	558
BpiI	GAAGAC	1 cut(s)	200
BplI	GAGNNNNNCTC	2 cut(s)	401, 433
Bpu14I	TTCGAA	2 cut(s)	346, 808
BpuEI	CTTGAG	3 cut(s)	347, 403, 416
BpuMI	CCSGG	1 cut(s)	524
BsaAI	YACGTR	2 cut(s)	647, 986
BsaHI	GRCGYC	1 cut(s)	239
BsaWI	WCCGGW	1 cut(s)	45
Bsc4I	CCNNNNNNNGG	2 cut(s)	79, 496
Bse1I	ACTGG	4 cut(s)	158, 506, 553, 1133
BseGI	GGATG	5 cut(s)	223, 386, 434, 804, 859
BseLI	CCNNNNNNNGG	2 cut(s)	79, 496
BseMII	CTCAG	2 cut(s)	674, 1032
BseNI	ACTGG	4 cut(s)	158, 506, 553, 1133
BseRI	GAGGAG	5 cut(s)	152, 155, 158, 161, 989
BseXI	GCAGC	2 cut(s)	269, 643
Bsh1236I	CGCG	1 cut(s)	294
BshFI	GGCC	4 cut(s)	83, 458, 522, 882
BsiHKAI	GWGCWC	1 cut(s)	544
BsiSI	CCGG	2 cut(s)	46, 523
BslI	CCNNNNNNNGG	2 cut(s)	79, 496
BsmAI	GTCTC	1 cut(s)	1037
BsmI	GAATGC	3 cut(s)	33, 533, 618
BsnI	GGCC	4 cut(s)	83, 458, 522, 882
Bsp119I	TTCGAA	2 cut(s)	346, 808
Bsp1286I	GDGCHC	1 cut(s)	544
Bsp1407I	TGTACA	1 cut(s)	1147
Bsp143I	GATC	2 cut(s)	1140, 1215
BspACI	CCGC	3 cut(s)	5, 30, 331
BspANI	GGCC	4 cut(s)	83, 458, 522, 882
BspCNI	CTCAG	2 cut(s)	673, 1033
BspFNI	CGCG	1 cut(s)	294
BspLI	GGNNCC	1 cut(s)	579
BspPI	GGATC	1 cut(s)	1210
BspQI	GCTCTTC	2 cut(s)	147, 468
BspT104I	TTCGAA	2 cut(s)	346, 808
BspTI	CTTAAG	1 cut(s)	596
BsrBI	CCGCTC	1 cut(s)	331
BsrGI	TGTACA	1 cut(s)	1147
BsrI	ACTGG	4 cut(s)	158, 506, 553, 1133
BssMI	GATC	2 cut(s)	1140, 1215
BssNI	GRCGYC	1 cut(s)	239
Bst6I	CTCTTC	6 cut(s)	129, 147, 176, 182, 429, 468
BstACI	GRCGYC	1 cut(s)	239
BstAFI	CTTAAG	1 cut(s)	596
BstAUI	TGTACA	1 cut(s)	1147
BstBAI	YACGTR	2 cut(s)	647, 986
BstBI	TTCGAA	2 cut(s)	346, 808
BstC8I	GCNNGC	6 cut(s)	498, 603, 916, 981, 1164, 1236
BstDEI	CTNAG	4 cut(s)	261, 609, 660, 1041
BstF5I	GGATG	5 cut(s)	223, 386, 434, 804, 859
BstFNI	CGCG	1 cut(s)	294
BstH2I	RGCGCY	1 cut(s)	15
BstHHI	GCGC	2 cut(s)	14, 296
BstKTI	GATC	2 cut(s)	1143, 1218
BstMAI	GTCTC	1 cut(s)	1037
BstMBI	GATC	2 cut(s)	1140, 1215
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 257, 528, 874
BstNSI	RCATGY	2 cut(s)	368, 918
BstSCI	CCNGG	1 cut(s)	522
BstUI	CGCG	1 cut(s)	294
BstV1I	GCAGC	2 cut(s)	269, 643
BstV2I	GAAGAC	1 cut(s)	200
BsuRI	GGCC	4 cut(s)	83, 458, 522, 882
BtsCI	GGATG	5 cut(s)	223, 386, 434, 804, 859
BtsIMutI	CAGTG	2 cut(s)	60, 1140
Cac8I	GCNNGC	6 cut(s)	498, 603, 916, 981, 1164, 1236
CaiI	CAGNNNCTG	2 cut(s)	173, 212
CfoI	GCGC	2 cut(s)	14, 296
CseI	GACGC	1 cut(s)	594
Csp6I	GTAC	3 cut(s)	770, 987, 1148
CspCI	CAANNNNNGTGG	2 cut(s)	1119, 1154
CviAII	CATG	4 cut(s)	365, 583, 915, 998
CviQI	GTAC	3 cut(s)	770, 987, 1148
DdeI	CTNAG	4 cut(s)	261, 609, 660, 1041
DpnI	GATC	2 cut(s)	1142, 1217
DpnII	GATC	2 cut(s)	1140, 1215
EaeI	YGGCCR	2 cut(s)	456, 520
Eam1104I	CTCTTC	6 cut(s)	129, 147, 176, 182, 429, 468
EarI	CTCTTC	6 cut(s)	129, 147, 176, 182, 429, 468
EciI	GGCGGA	1 cut(s)	20
Eco72I	CACGTG	1 cut(s)	647
EcoT22I	ATGCAT	1 cut(s)	999
FaeI	CATG	4 cut(s)	368, 586, 918, 1001
FatI	CATG	4 cut(s)	364, 582, 914, 997
FauI	CCCGC	1 cut(s)	324
Fnu4HI	GCNGC	3 cut(s)	31, 258, 657
FokI	GGATG	5 cut(s)	230, 373, 441, 811, 866
Fsp4HI	GCNGC	3 cut(s)	31, 258, 657
FspBI	CTAG	1 cut(s)	1094
GlaI	GCGC	2 cut(s)	13, 295
GluI	GCNGC	3 cut(s)	31, 258, 657
HaeII	RGCGCY	1 cut(s)	15
HaeIII	GGCC	4 cut(s)	83, 458, 522, 882
HapII	CCGG	2 cut(s)	46, 523
HgaI	GACGC	1 cut(s)	594
HhaI	GCGC	2 cut(s)	14, 296
Hin1I	GRCGYC	1 cut(s)	239
Hin1II	CATG	4 cut(s)	368, 586, 918, 1001
Hin6I	GCGC	2 cut(s)	12, 294
HinP1I	GCGC	2 cut(s)	12, 294
HindIII	AAGCTT	1 cut(s)	818
HinfI	GANTC	8 cut(s)	75, 209, 222, 335, 631, 857, 899, 1120
HpaII	CCGG	2 cut(s)	46, 523
HphI	GGTGA	1 cut(s)	919
Hpy166II	GTNNAC	1 cut(s)	1079
Hpy188I	TCNGA	6 cut(s)	208, 409, 663, 862, 1042, 1225
Hpy188III	TCNNGA	5 cut(s)	72, 395, 420, 555, 1278
Hpy8I	GTNNAC	1 cut(s)	1079
HpyAV	CCTTC	2 cut(s)	936, 1162
HpyCH4IV	ACGT	3 cut(s)	239, 646, 985
HpyCH4V	TGCA	6 cut(s)	116, 167, 364, 678, 983, 997
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 257, 528, 874
HpyF3I	CTNAG	4 cut(s)	261, 609, 660, 1041
HpySE526I	ACGT	3 cut(s)	239, 646, 985
Hsp92I	GRCGYC	1 cut(s)	239
Hsp92II	CATG	4 cut(s)	368, 586, 918, 1001
HspAI	GCGC	2 cut(s)	12, 294
Kzo9I	GATC	2 cut(s)	1140, 1215
LguI	GCTCTTC	2 cut(s)	147, 468
LmnI	GCTCC	2 cut(s)	547, 976
Lsp1109I	GCAGC	2 cut(s)	269, 643
LweI	GCATC	1 cut(s)	991
MaeI	CTAG	1 cut(s)	1094
MaeII	ACGT	3 cut(s)	239, 646, 985
MalI	GATC	2 cut(s)	1142, 1217
MbiI	CCGCTC	1 cut(s)	331
MboI	GATC	2 cut(s)	1140, 1215
MhlI	GDGCHC	1 cut(s)	544
MlyI	GAGTC	3 cut(s)	218, 866, 1129
MmeI	TCCRAC	1 cut(s)	569
Mph1103I	ATGCAT	1 cut(s)	999
MseI	TTAA	8 cut(s)	314, 413, 597, 711, 822, 827, 887, 1050
MslI	CAYNNNNRTG	1 cut(s)	587
MspCI	CTTAAG	1 cut(s)	596
MspI	CCGG	2 cut(s)	46, 523
MspR9I	CCNGG	1 cut(s)	524
Mva1269I	GAATGC	3 cut(s)	33, 533, 618
MvnI	CGCG	1 cut(s)	294
MwoI	GCNNNNNNNGC	4 cut(s)	11, 257, 528, 874
NciI	CCSGG	1 cut(s)	524
NdeII	GATC	2 cut(s)	1140, 1215
NlaIII	CATG	4 cut(s)	368, 586, 918, 1001
NlaIV	GGNNCC	1 cut(s)	579
NmeAIII	GCCGAG	1 cut(s)	484
NsiI	ATGCAT	1 cut(s)	999
NspI	RCATGY	2 cut(s)	368, 918
NspV	TTCGAA	2 cut(s)	346, 808
PaeI	GCATGC	1 cut(s)	918
PciSI	GCTCTTC	2 cut(s)	147, 468
PctI	GAATGC	3 cut(s)	33, 533, 618
PfeI	GAWTC	5 cut(s)	75, 222, 335, 631, 899
PkrI	GCNGC	3 cut(s)	32, 259, 658
PleI	GAGTC	3 cut(s)	217, 865, 1128
PmaCI	CACGTG	1 cut(s)	647
PmlI	CACGTG	1 cut(s)	647
PpsI	GAGTC	3 cut(s)	217, 865, 1128
Ppu21I	YACGTR	2 cut(s)	647, 986
PsiI	TTATAA	1 cut(s)	234
PspCI	CACGTG	1 cut(s)	647
PspN4I	GGNNCC	1 cut(s)	579
PstNI	CAGNNNCTG	2 cut(s)	173, 212
RsaI	GTAC	3 cut(s)	771, 988, 1149
RsaNI	GTAC	3 cut(s)	770, 987, 1148
RseI	CAYNNNNRTG	1 cut(s)	587
SapI	GCTCTTC	2 cut(s)	147, 468
SaqAI	TTAA	8 cut(s)	314, 413, 597, 711, 822, 827, 887, 1050
SatI	GCNGC	3 cut(s)	31, 258, 657
Sau3AI	GATC	2 cut(s)	1140, 1215
SchI	GAGTC	3 cut(s)	218, 866, 1129
ScrFI	CCNGG	1 cut(s)	524
SduI	GDGCHC	1 cut(s)	544
SfaNI	GCATC	1 cut(s)	991
SfuI	TTCGAA	2 cut(s)	346, 808
SmiMI	CAYNNNNRTG	1 cut(s)	587
SmlI	CTYRAG	4 cut(s)	326, 395, 418, 596
SmoI	CTYRAG	4 cut(s)	326, 395, 418, 596
SphI	GCATGC	1 cut(s)	918
SsiI	CCGC	3 cut(s)	5, 30, 331
SspMI	CTAG	1 cut(s)	1094
StyD4I	CCNGG	1 cut(s)	522
TaiI	ACGT	3 cut(s)	242, 649, 988
TaqI	TCGA	8 cut(s)	78, 107, 338, 346, 622, 808, 1009, 1102
TatI	WGTACW	2 cut(s)	769, 1147
TauI	GCSGC	1 cut(s)	33
TfiI	GAWTC	5 cut(s)	75, 222, 335, 631, 899
Tru1I	TTAA	8 cut(s)	314, 413, 597, 711, 822, 827, 887, 1050
Tru9I	TTAA	8 cut(s)	314, 413, 597, 711, 822, 827, 887, 1050
TscAI	CASTG	2 cut(s)	67, 1140
TseI	GCWGC	2 cut(s)	257, 656
TspDTI	ATGAA	3 cut(s)	6, 303, 605
TspGWI	ACGGA	2 cut(s)	212, 811
TspRI	CASTG	2 cut(s)	67, 1140
Vha464I	CTTAAG	1 cut(s)	596
XapI	RAATTY	3 cut(s)	400, 701, 1088
XceI	RCATGY	2 cut(s)	368, 918
XspI	CTAG	1 cut(s)	1094
ZraI	GACGTC	1 cut(s)	240
Zsp2I	ATGCAT	1 cut(s)	999

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