Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0004068

Physical Location & Seq

Genomic Coordinates Reverse (-)

45556562 .. 45559376

Gene Structure 2815 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG221500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1203 bp

ATGGCTACACTATCACCTACCCAGCTTCTCCCTCTTTCACCCCCAATTCATACTTCAAATTCCCGCCATGCCCATTTGAGCTTCCAATCCCTAAACCCTAACCCTAGAATCTTCTCATTCAATTCCTTTGTATCAAATTTTAGTCCTTTACCGGCGGTTCTGAGCTCTTCTCCGACCTCCACTGAATCCGACTCCGATAACGATGACGTCACTCTCCGGCGAATTTGCGAGCCCCATGTTCCGGACCACATACTCTGCAGAATGGAGGAATTGGGATACGTGGCGCCGACGCCGGTGCAGCGGCAGGCTCTGCCGACTCTGTTTTCCGGACGGGACTGCATACTTCACGCCCAGACAGGTTCTGGGAAGACGCTGACGTATCTGCTTTTGATATTTGCTGTGGTGAAGACTCAGAGATCGGCTGTGCAAGCCCTCATTGTAGTGCCCACTAGGGAACTTGGCATGCAAGTTACAAGGGTTGCTAGAATGTTGGCGGCGAAGCCGAATGAGGGTGAATTGGAGCAGAAAGCATGTACTGTTATGGCTCTTTTGGATGGAGGAATGTTGACAAGGCACAAGAGTTGGTTGAAGGCAGAGCCCCCTACAGTAGTGGTGGCGACGATAGGGAGTTTATGCCAAATGCTAGAGAAGCATATCATTAAGCTTGAATCTATGCGAGTGCTGGTGATCGATGAGGTTGATTTTATGTTTGGTTCAAAACAAGTCGGTTCTCTTCGGAAGCTTTTGACATCATATTCGTCAATCAATAGCCGTCAGACTGTTTTTGCCAGTGCTTCCATTCCACAGCATAGGCGATTTTTACATGATTGTATACAACAGAAATGGACCAAGAATGATGCAATTCATATCCATGTCAATCCGGTTCAGCCCATGCCATCATGTTTACACCATAGATTTGTGATAAGTGGTAAAAACAGAAGGCATGAAACCTTGTTGTCCTTATTGCAGTCCGATGCACTGCAGTCTGGCATTATTTTTGTCGGTGAGCAGTCCGAGAAGTCAAAGAAGGCTGGAAATGCTCCACCAACAACTCTATTAGTTGATTTCTTGAAGGCTTCATATCAGGGATGTTCAGACATCCTCCTTTTGGAAGAAGACATGAATTTCAACTCACGTGCAGCTTCTCTATCAGTAAGTAATGCTGGAGTCTTCAAAACTAAACACATTATATTTGACATATGA

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 Helicase_C

Protein Analysis

400

Amino Acids

44.25

Weight (kDa)

8.99

Isoelectric Point (pI)

51.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	97 - 269	1.2e-31	DEAD/DEAH box helicase
ResIII	PF04851	98 - 233	1.2e-08	Type III restriction enzyme, res subunit

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: OG0004068)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G19210 AT5G19210 AT5G19210
fragaria_vesca	FvH4_4g14870 FvH4_4g14870 FvH4_4g14870 FvH4_4g14870 FvH4_4g14870 FvH4_4g14870 FvH4_4g14870 FvH4_4g14870 FvH4_4g14870
malus_domestica	MD16G1186800.v1.1
prunus_persica	Prupe.1G153600_v2.0.a1 Prupe.1G153600_v2.0.a1 Prupe.1G153600_v2.0.a1 Prupe.1G153600_v2.0.a1 Prupe.1G153600_v2.0.a1 Prupe.1G153600_v2.0.a1
pyrus_communis	pycom13g16050 pycom16g15660 pycom16g15670
rosa_chinensis	RchiOBHm_Chr4g0417341
rosa_laevigata	RLG00000007916
rosa_multiflora	Rmu_ssc0000216.1_g000002
rosa_roxburghii	Rroxscaffold_5G00361100
rosa_rugosa	Rorug04G0147000 Rorug04G0147100
rosa_samantha	Rh4AG210600 Rh4BG211100 Rh4CG221500 Rh4DG208500
rosa_wichuraiana	Rw4G017790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	210
AccB1I	GGYRCC	1 cut(s)	283
AccI	GTMKAC	1 cut(s)	832
AccIII	TCCGGA	2 cut(s)	241, 326
AciI	CCGC	4 cut(s)	64, 155, 301, 494
AcsI	RAATTY	4 cut(s)	58, 136, 222, 1123
AcvI	CACGTG	1 cut(s)	1136
AcyI	GRCGYC	3 cut(s)	207, 284, 290
AfaI	GTAC	1 cut(s)	535
AfiI	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
AgsI	TTSAA	8 cut(s)	57, 121, 589, 668, 717, 1072, 1129, 1174
AjuI	GAANNNNNNNTTGG	2 cut(s)	37, 69
AluBI	AGCT	6 cut(s)	25, 81, 165, 664, 742, 1142
AluI	AGCT	6 cut(s)	25, 81, 165, 664, 742, 1142
Alw21I	GWGCWC	1 cut(s)	167
AlwNI	CAGNNNCTG	2 cut(s)	310, 362
Aor13HI	TCCGGA	2 cut(s)	241, 326
ApeKI	GCWGC	2 cut(s)	298, 1139
ApoI	RAATTY	4 cut(s)	58, 136, 222, 1123
ArsI	GACNNNNNNTTYG	2 cut(s)	739, 771
AspLEI	GCGC	1 cut(s)	286
AspS9I	GGNCC	2 cut(s)	244, 846
AsuHPI	GGTGA	6 cut(s)	6, 30, 415, 524, 697, 1016
AvaII	GGWCC	2 cut(s)	244, 846
BaeGI	GKGCMC	1 cut(s)	447
BanI	GGYRCC	1 cut(s)	283
BanII	GRGCYC	3 cut(s)	167, 234, 600
BbrPI	CACGTG	1 cut(s)	1136
BbsI	GAAGAC	4 cut(s)	374, 413, 1122, 1162
Bbv12I	GWGCWC	1 cut(s)	167
BbvI	GCAGC	2 cut(s)	310, 1151
BccI	CCATC	2 cut(s)	548, 904
BceAI	ACGGC	1 cut(s)	756
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BciVI	GTATCC	1 cut(s)	269
BfaI	CTAG	4 cut(s)	105, 450, 483, 644
BfmI	CTRYAG	3 cut(s)	256, 603, 980
BfoI	RGCGCY	1 cut(s)	287
BfuI	GTATCC	1 cut(s)	269
BisI	GCNGC	4 cut(s)	299, 302, 495, 1140
BlsI	GCNGC	4 cut(s)	300, 303, 496, 1141
Bme18I	GGWCC	2 cut(s)	244, 846
BmgT120I	GGNCC	2 cut(s)	244, 846
BmiI	GGNNCC	1 cut(s)	285
BmsI	GCATC	2 cut(s)	847, 964
BpiI	GAAGAC	4 cut(s)	374, 413, 1122, 1162
BplI	GAGNNNNNCTC	2 cut(s)	154, 186
BpmI	CTGGAG	1 cut(s)	1185
Bsa29I	ATCGAT	1 cut(s)	690
BsaAI	YACGTR	2 cut(s)	280, 1136
BsaHI	GRCGYC	3 cut(s)	207, 284, 290
BsaWI	WCCGGW	3 cut(s)	241, 326, 880
Bsc4I	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
Bse118I	RCCGGY	2 cut(s)	151, 292
Bse1I	ACTGG	1 cut(s)	789
BseAI	TCCGGA	2 cut(s)	241, 326
BseCI	ATCGAT	1 cut(s)	690
BseGI	GGATG	3 cut(s)	559, 1094, 1098
BseLI	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
BseMII	CTCAG	2 cut(s)	152, 425
BseNI	ACTGG	1 cut(s)	789
BseSI	GKGCMC	1 cut(s)	447
BseXI	GCAGC	2 cut(s)	310, 1151
BseYI	CCCAGC	1 cut(s)	21
BsgI	GTGCAG	2 cut(s)	317, 1158
BshNI	GGYRCC	1 cut(s)	283
BshVI	ATCGAT	1 cut(s)	690
BsiHKAI	GWGCWC	1 cut(s)	167
BsiSI	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
BslFI	GGGAC	1 cut(s)	347
BslI	CCNNNNNNNGG	3 cut(s)	241, 509, 1108
BsmFI	GGGAC	1 cut(s)	347
Bsp1286I	GDGCHC	4 cut(s)	167, 234, 447, 600
Bsp13I	TCCGGA	2 cut(s)	241, 326
Bsp143I	GATC	2 cut(s)	416, 687
BspACI	CCGC	4 cut(s)	64, 155, 301, 494
BspCNI	CTCAG	2 cut(s)	153, 424
BspDI	ATCGAT	1 cut(s)	690
BspEI	TCCGGA	2 cut(s)	241, 326
BspLI	GGNNCC	1 cut(s)	285
BspMAI	CTGCAG	2 cut(s)	260, 984
BspQI	GCTCTTC	1 cut(s)	172
BspT107I	GGYRCC	1 cut(s)	283
BsrFI	RCCGGY	2 cut(s)	151, 292
BsrI	ACTGG	1 cut(s)	789
BssAI	RCCGGY	2 cut(s)	151, 292
BssMI	GATC	2 cut(s)	416, 687
BssNAI	GTATAC	1 cut(s)	833
BssNI	GRCGYC	3 cut(s)	207, 284, 290
Bst1107I	GTATAC	1 cut(s)	833
Bst4CI	ACNGT	3 cut(s)	538, 607, 781
Bst6I	CTCTTC	2 cut(s)	172, 738
BstACI	GRCGYC	3 cut(s)	207, 284, 290
BstAPI	GCANNNNNTGC	1 cut(s)	310
BstBAI	YACGTR	2 cut(s)	280, 1136
BstC8I	GCNNGC	4 cut(s)	230, 306, 429, 464
BstDEI	CTNAG	2 cut(s)	161, 411
BstF5I	GGATG	3 cut(s)	559, 1094, 1098
BstH2I	RGCGCY	1 cut(s)	287
BstHHI	GCGC	1 cut(s)	286
BstKTI	GATC	2 cut(s)	419, 690
BstMBI	GATC	2 cut(s)	416, 687
BstMWI	GCNNNNNNNGC	5 cut(s)	298, 310, 428, 649, 1037
BstNSI	RCATGY	2 cut(s)	466, 534
BstSFI	CTRYAG	3 cut(s)	256, 603, 980
BstSLI	GKGCMC	1 cut(s)	447
BstV1I	GCAGC	2 cut(s)	310, 1151
BstV2I	GAAGAC	4 cut(s)	374, 413, 1122, 1162
BstZ17I	GTATAC	1 cut(s)	833
Bsu15I	ATCGAT	1 cut(s)	690
BsuI	GTATCC	1 cut(s)	269
BsuTUI	ATCGAT	1 cut(s)	690
BtsCI	GGATG	3 cut(s)	559, 1094, 1098
BtsI	GCAGTG	1 cut(s)	977
BtsIMutI	CAGTG	3 cut(s)	180, 796, 977
Cac8I	GCNNGC	4 cut(s)	230, 306, 429, 464
CaiI	CAGNNNCTG	2 cut(s)	310, 362
CfoI	GCGC	1 cut(s)	286
Cfr10I	RCCGGY	2 cut(s)	151, 292
Cfr13I	GGNCC	2 cut(s)	244, 846
ClaI	ATCGAT	1 cut(s)	690
CseI	GACGC	2 cut(s)	298, 379
Csp6I	GTAC	1 cut(s)	534
CviQI	GTAC	1 cut(s)	534
DdeI	CTNAG	2 cut(s)	161, 411
DinI	GGCGCC	1 cut(s)	285
DpnI	GATC	2 cut(s)	418, 689
DpnII	GATC	2 cut(s)	416, 687
Eam1104I	CTCTTC	2 cut(s)	172, 738
EarI	CTCTTC	2 cut(s)	172, 738
Ecl136II	GAGCTC	1 cut(s)	165
Eco24I	GRGCYC	3 cut(s)	167, 234, 600
Eco47I	GGWCC	2 cut(s)	244, 846
Eco53kI	GAGCTC	1 cut(s)	165
Eco72I	CACGTG	1 cut(s)	1136
EcoICRI	GAGCTC	1 cut(s)	165
EcoT38I	GRGCYC	3 cut(s)	167, 234, 600
EgeI	GGCGCC	1 cut(s)	285
EheI	GGCGCC	1 cut(s)	285
FaqI	GGGAC	1 cut(s)	347
FauI	CCCGC	1 cut(s)	71
FauNDI	CATATG	1 cut(s)	1199
FblI	GTMKAC	1 cut(s)	832
Fnu4HI	GCNGC	4 cut(s)	299, 302, 495, 1140
FokI	GGATG	3 cut(s)	566, 1085, 1101
FriOI	GRGCYC	3 cut(s)	167, 234, 600
Fsp4HI	GCNGC	4 cut(s)	299, 302, 495, 1140
FspBI	CTAG	4 cut(s)	105, 450, 483, 644
GlaI	GCGC	1 cut(s)	285
GluI	GCNGC	4 cut(s)	299, 302, 495, 1140
GsaI	CCCAGC	1 cut(s)	25
GsuI	CTGGAG	1 cut(s)	1185
HaeII	RGCGCY	1 cut(s)	287
HapII	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
HgaI	GACGC	2 cut(s)	298, 379
HhaI	GCGC	1 cut(s)	286
Hin1I	GRCGYC	3 cut(s)	207, 284, 290
Hin6I	GCGC	1 cut(s)	284
HinP1I	GCGC	1 cut(s)	284
HincII	GTYRAC	1 cut(s)	567
HindII	GTYRAC	1 cut(s)	567
HindIII	AAGCTT	2 cut(s)	662, 740
HinfI	GANTC	7 cut(s)	108, 185, 191, 316, 409, 668, 1167
HpaII	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
HphI	GGTGA	6 cut(s)	6, 30, 415, 524, 697, 1016
Hpy166II	GTNNAC	3 cut(s)	567, 833, 905
Hpy188III	TCNNGA	3 cut(s)	242, 327, 1069
Hpy8I	GTNNAC	3 cut(s)	567, 833, 905
Hpy99I	CGWCG	2 cut(s)	292, 622
HpyAV	CCTTC	4 cut(s)	583, 933, 1021, 1066
HpyCH4III	ACNGT	3 cut(s)	538, 607, 781
HpyCH4IV	ACGT	4 cut(s)	207, 279, 377, 1135
HpyF10VI	GCNNNNNNNGC	5 cut(s)	298, 310, 428, 649, 1037
HpyF3I	CTNAG	2 cut(s)	161, 411
HpySE526I	ACGT	4 cut(s)	207, 279, 377, 1135
Hsp92I	GRCGYC	3 cut(s)	207, 284, 290
HspAI	GCGC	1 cut(s)	284
KasI	GGCGCC	1 cut(s)	283
Kpn2I	TCCGGA	2 cut(s)	241, 326
Kzo9I	GATC	2 cut(s)	416, 687
LguI	GCTCTTC	1 cut(s)	172
LmnI	GCTCC	2 cut(s)	520, 1045
Lsp1109I	GCAGC	2 cut(s)	310, 1151
LweI	GCATC	2 cut(s)	847, 964
MaeI	CTAG	4 cut(s)	105, 450, 483, 644
MaeII	ACGT	4 cut(s)	207, 279, 377, 1135
MaeIII	GTNAC	2 cut(s)	208, 469
MalI	GATC	2 cut(s)	418, 689
MboI	GATC	2 cut(s)	416, 687
MboII	GAAGA	8 cut(s)	103, 159, 379, 418, 725, 1124, 1127, 1162
MhlI	GDGCHC	4 cut(s)	167, 234, 447, 600
MluCI	AATT	9 cut(s)	45, 58, 121, 136, 222, 269, 515, 861, 1123
Mly113I	GGCGCC	1 cut(s)	284
MlyI	GAGTC	4 cut(s)	185, 310, 403, 1176
MmeI	TCCRAC	2 cut(s)	197, 213
MnlI	CCTC	8 cut(s)	42, 187, 259, 443, 502, 551, 688, 1112
MroI	TCCGGA	2 cut(s)	241, 326
MseI	TTAA	1 cut(s)	660
MslI	CAYNNNNRTG	2 cut(s)	440, 870
MspA1I	CMGCKG	1 cut(s)	301
MspI	CCGG	6 cut(s)	152, 217, 242, 293, 327, 881
MwoI	GCNNNNNNNGC	5 cut(s)	298, 310, 428, 649, 1037
NarI	GGCGCC	1 cut(s)	284
NdeI	CATATG	1 cut(s)	1199
NdeII	GATC	2 cut(s)	416, 687
NlaIV	GGNNCC	1 cut(s)	285
NmuCI	GTSAC	1 cut(s)	208
NspI	RCATGY	2 cut(s)	466, 534
PaeI	GCATGC	1 cut(s)	466
PciSI	GCTCTTC	1 cut(s)	172
PfeI	GAWTC	3 cut(s)	108, 185, 668
PkrI	GCNGC	4 cut(s)	300, 303, 496, 1141
PleI	GAGTC	4 cut(s)	185, 310, 403, 1175
PluTI	GGCGCC	1 cut(s)	287
PmaCI	CACGTG	1 cut(s)	1136
PmlI	CACGTG	1 cut(s)	1136
PpsI	GAGTC	4 cut(s)	185, 310, 403, 1175
Ppu21I	YACGTR	2 cut(s)	280, 1136
Psp124BI	GAGCTC	1 cut(s)	167
PspCI	CACGTG	1 cut(s)	1136
PspFI	CCCAGC	1 cut(s)	21
PspN4I	GGNNCC	1 cut(s)	285
PspPI	GGNCC	2 cut(s)	244, 846
PstI	CTGCAG	2 cut(s)	260, 984
PstNI	CAGNNNCTG	2 cut(s)	310, 362
RsaI	GTAC	1 cut(s)	535
RsaNI	GTAC	1 cut(s)	534
RseI	CAYNNNNRTG	2 cut(s)	440, 870
SacI	GAGCTC	1 cut(s)	167
SapI	GCTCTTC	1 cut(s)	172
SaqAI	TTAA	1 cut(s)	660
SatI	GCNGC	4 cut(s)	299, 302, 495, 1140
Sau3AI	GATC	2 cut(s)	416, 687
Sau96I	GGNCC	2 cut(s)	244, 846
SchI	GAGTC	4 cut(s)	185, 310, 403, 1176
SduI	GDGCHC	4 cut(s)	167, 234, 447, 600
SfaNI	GCATC	2 cut(s)	847, 964
SfcI	CTRYAG	3 cut(s)	256, 603, 980
SfoI	GGCGCC	1 cut(s)	285
SgrAI	CRCCGGYG	1 cut(s)	292
SinI	GGWCC	2 cut(s)	244, 846
SmiMI	CAYNNNNRTG	2 cut(s)	440, 870
SphI	GCATGC	1 cut(s)	466
Sse9I	AATT	9 cut(s)	45, 58, 121, 136, 222, 269, 515, 861, 1123
SsiI	CCGC	4 cut(s)	64, 155, 301, 494
SspDI	GGCGCC	1 cut(s)	283
SspMI	CTAG	4 cut(s)	105, 450, 483, 644
SstI	GAGCTC	1 cut(s)	167
TaaI	ACNGT	3 cut(s)	538, 607, 781
TaiI	ACGT	4 cut(s)	210, 282, 380, 1138
TaqI	TCGA	1 cut(s)	690
TasI	AATT	9 cut(s)	45, 58, 121, 136, 222, 269, 515, 861, 1123
TatI	WGTACW	1 cut(s)	533
TauI	GCSGC	2 cut(s)	304, 497
TfiI	GAWTC	3 cut(s)	108, 185, 668
Tru1I	TTAA	1 cut(s)	660
Tru9I	TTAA	1 cut(s)	660
TscAI	CASTG	3 cut(s)	187, 796, 984
TseFI	GTSAC	1 cut(s)	208
TseI	GCWGC	2 cut(s)	298, 1139
Tsp45I	GTSAC	1 cut(s)	208
TspDTI	ATGAA	5 cut(s)	38, 854, 960, 1068, 1136
TspRI	CASTG	3 cut(s)	187, 796, 984
VpaK11BI	GGWCC	2 cut(s)	244, 846
XapI	RAATTY	4 cut(s)	58, 136, 222, 1123
XceI	RCATGY	2 cut(s)	466, 534
XcmI	CCANNNNNNNNNTGG	1 cut(s)	359
XmiI	GTMKAC	1 cut(s)	832
XspI	CTAG	4 cut(s)	105, 450, 483, 644
ZraI	GACGTC	1 cut(s)	208

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