Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001445

Physical Location & Seq

Genomic Coordinates Forward (+)

58905160 .. 58910088

Gene Structure 4929 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG403000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGGATGTTATCTGCCAAGCTAAATCGGGGATGGGGAAAACGGCTGTATTTGTCCTATCTACTTTGCAGCAGATTGACCCTGTCGCAGGCCAAGTTTCTGCACTTATTCTTTGCCATACTCGAGAATTAGCTTACCAGATTTGCCATGAGTTTGAGAGATTCAGTACCTACTTGCCAGATCTTAAGGTTGCTGTCTTTTATGGTGGTGTCACTATCAAAAATCACAAAGATTTACTTAAAAATGAATGCCCCCACATTGTTGTTGGAACTCCCGGAAGAATACTAGCACTTGCAAGAGATAAAGACCTCTCTTTGAAGAATGTGAGGCATTTTATCCTCGATGAATGTGACAAGATGCTTGAGTCACTTGACATGAGGAGAGATGTGCAAGAGATTTTCAAGATGACACCCCATGATAAGCAAGTAATGATGTTCTCTGCAACACTCAGCAAAGATATCCGACCGGTTTGCAAGAAATTTATGCAAGATCCTATGGAAATATATGTTGATGACGAAGCCAAGTTGACTCTTCATGGTCTAGTACAGCACTACATCAAGCTAACCGAGGCAGAGAAAAATCGCAAGCTGAATGATCTCCTTGATGCACTGGACTTCAACCAGGTTGTAATCTTCGTCAAAAGTGTGAGCAGAGCTGCAGAGTTGAACAAGTTACTCTCAGAGTGTAATTTTCCCTCTATATGCATCCATTCTGGAATGAACCAAGAAGAAAGGTTGAAGCGCTACAAAGGATTCAAGGAGGGTCAGAACAGGATTCTCGTGGCCACCGATTTGGTTGGTAGAGGAATTGATATTGAACGTGTCAATATTGTTATCAATTATGACATGCCAGACTCTGCGGACACCTACTTGCACAGGGTTGGCAGAGCTGGTAGGTTTGGCACCAAAGGGCTGGCAATTACATTTGTATCATCTGCTTCGGACTCTCAAGTCCTTAATGATGTTCAGGAGAGGTTTGAGGTTGACATAAAGGAGCTTCCTGAACAGATTGATACTGCCACATACATGCCATCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03013 ko03015 ko03040 ko05164 map03013 map03015 map03040 map05164

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

344

Amino Acids

39.03

Weight (kDa)

6.22

Isoelectric Point (pI)

39.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	2 - 153	3.4e-37	DEAD/DEAH box helicase
ResIII	PF04851	5 - 150	1.8e-07	Type III restriction enzyme, res subunit
Helicase_C	PF00271	192 - 300	4.5e-30	Helicase conserved C-terminal domain

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: OG0001445)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G11170 AT5G11170 AT5G11200 AT5G11200 AT5G11200
fragaria_vesca	FvH4_2g29210 FvH4_2g29210 FvH4_2g29210 FvH4_2g29210 FvH4_2g29210 FvH4_6g29970 FvH4_6g29970
malus_domestica	MD00G1022900.v1.1 MD08G1154600.v1.1 MD15G1124400.v1.1
prunus_persica	Prupe.1G479900_v2.0.a1 Prupe.1G479900_v2.0.a1 Prupe.1G479900_v2.0.a1 Prupe.1G479900_v2.0.a1 Prupe.1G479900_v2.0.a1 Prupe.1G479900_v2.0.a1 Prupe.1G479900_v2.0.a1 Prupe.3G084000_v2.0.a1 Prupe.3G084000_v2.0.a1
pyrus_communis	pycom08g12530 pycom09g14020 pycom15g11200 pycom17g21440
rosa_chinensis	RchiOBHm_Chr2g0135971 RchiOBHm_Chr6g0298081
rosa_laevigata	RLG00000011538 RLG00000019493
rosa_multiflora	Rmu_ssc0000265.1_g000001 Rmu_ssc0000343.1_g000026
rosa_roxburghii	Rroxscaffold_2G00108730 Rroxscaffold_7G00169960 Rroxscaffold_7G00211110
rosa_rugosa	Rorug02G0327200 Rorug06G0278300 Rorug06G0278400 Rorug06G0278500 Rorug06G0278600
rosa_samantha	Rh2AG379000 Rh2BG385500 Rh2CG364600 Rh2DG401800 Rh6AG388800 Rh6BG397000 Rh6CG403000 Rh6DG389500
rosa_wichuraiana	Rw2G030880 Rw6G033950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	947
AccB1I	GGYRCC	1 cut(s)	899
AciI	CCGC	1 cut(s)	857
AclWI	GGATC	1 cut(s)	482
AcoI	YGGCCR	1 cut(s)	780
AcsI	RAATTY	1 cut(s)	476
AfaI	GTAC	2 cut(s)	166, 543
AfeI	AGCGCT	1 cut(s)	740
AfiI	CCNNNNNNNGG	1 cut(s)	86
AflII	CTTAAG	1 cut(s)	182
AflIII	ACRYGT	1 cut(s)	817
AgeI	ACCGGT	1 cut(s)	463
AgsI	TTSAA	7 cut(s)	316, 400, 616, 664, 736, 754, 815
AjnI	CCWGG	1 cut(s)	618
AluBI	AGCT	7 cut(s)	20, 131, 559, 586, 653, 887, 994
AluI	AGCT	7 cut(s)	20, 131, 559, 586, 653, 887, 994
AlwI	GGATC	1 cut(s)	482
AlwNI	CAGNNNCTG	1 cut(s)	854
Ama87I	CYCGRG	1 cut(s)	120
Aor51HI	AGCGCT	1 cut(s)	740
AoxI	GGCC	2 cut(s)	88, 780
ApeKI	GCWGC	2 cut(s)	67, 653
ApoI	RAATTY	1 cut(s)	476
AsiGI	ACCGGT	1 cut(s)	463
AspLEI	GCGC	1 cut(s)	741
AsuC2I	CCSGG	1 cut(s)	273
AvaI	CYCGRG	1 cut(s)	120
BaeI	ACNNNNGTAYC	2 cut(s)	909, 942
BalI	TGGCCA	1 cut(s)	782
BanI	GGYRCC	1 cut(s)	899
BauI	CACGAG	1 cut(s)	776
BbvI	GCAGC	2 cut(s)	79, 640
BccI	CCATC	1 cut(s)	25
BceAI	ACGGC	1 cut(s)	57
BcgI	CGANNNNNNTGC	2 cut(s)	450, 484
BciT130I	CCWGG	1 cut(s)	620
BcnI	CCSGG	1 cut(s)	273
BfaI	CTAG	2 cut(s)	284, 539
BfmI	CTRYAG	1 cut(s)	654
BfoI	RGCGCY	1 cut(s)	742
BfrI	CTTAAG	1 cut(s)	182
BglII	AGATCT	1 cut(s)	178
BisI	GCNGC	2 cut(s)	68, 654
BlsI	GCNGC	2 cut(s)	69, 655
Bme1390I	CCNGG	2 cut(s)	273, 620
BmeT110I	CYCGRG	1 cut(s)	120
BmiI	GGNNCC	1 cut(s)	901
BmrFI	CCNGG	2 cut(s)	273, 620
BmsI	GCATC	3 cut(s)	345, 592, 711
BpuEI	CTTGAG	2 cut(s)	380, 930
BpuMI	CCSGG	1 cut(s)	273
BsaJI	CCNNGG	1 cut(s)	564
BsaWI	WCCGGW	1 cut(s)	463
Bsc4I	CCNNNNNNNGG	1 cut(s)	86
Bse118I	RCCGGY	1 cut(s)	463
Bse1I	ACTGG	1 cut(s)	612
BseBI	CCWGG	1 cut(s)	620
BseDI	CCNNGG	1 cut(s)	564
BseGI	GGATG	3 cut(s)	10, 36, 702
BseLI	CCNNNNNNNGG	1 cut(s)	86
BseMII	CTCAG	2 cut(s)	460, 690
BseNI	ACTGG	1 cut(s)	612
BseRI	GAGGAG	1 cut(s)	391
BseXI	GCAGC	2 cut(s)	79, 640
BsgI	GTGCAG	1 cut(s)	84
Bsh1285I	CGRYCG	1 cut(s)	464
BshFI	GGCC	2 cut(s)	90, 782
BshNI	GGYRCC	1 cut(s)	899
BshTI	ACCGGT	1 cut(s)	463
BsiEI	CGRYCG	1 cut(s)	464
BsiHKCI	CYCGRG	1 cut(s)	120
BsiSI	CCGG	2 cut(s)	273, 464
BslI	CCNNNNNNNGG	1 cut(s)	86
BsmI	GAATGC	1 cut(s)	251
BsnI	GGCC	2 cut(s)	90, 782
BsoBI	CYCGRG	1 cut(s)	120
Bsp143I	GATC	3 cut(s)	178, 487, 592
BspACI	CCGC	1 cut(s)	857
BspANI	GGCC	2 cut(s)	90, 782
BspCNI	CTCAG	2 cut(s)	459, 689
BspLI	GGNNCC	1 cut(s)	901
BspMAI	CTGCAG	1 cut(s)	658
BspPI	GGATC	1 cut(s)	482
BspT107I	GGYRCC	1 cut(s)	899
BspTI	CTTAAG	1 cut(s)	182
BsrFI	RCCGGY	1 cut(s)	463
BsrI	ACTGG	1 cut(s)	612
BssAI	RCCGGY	1 cut(s)	463
BssECI	CCNNGG	1 cut(s)	564
BssMI	GATC	3 cut(s)	178, 487, 592
BssSI	CACGAG	1 cut(s)	776
Bst2BI	CACGAG	1 cut(s)	776
Bst2UI	CCWGG	1 cut(s)	620
Bst6I	CTCTTC	1 cut(s)	534
BstAFI	CTTAAG	1 cut(s)	182
BstC8I	GCNNGC	3 cut(s)	88, 584, 912
BstDEI	CTNAG	2 cut(s)	446, 676
BstENI	CCTNNNNNAGG	1 cut(s)	84
BstF5I	GGATG	3 cut(s)	10, 36, 702
BstH2I	RGCGCY	1 cut(s)	742
BstHHI	GCGC	1 cut(s)	741
BstKTI	GATC	3 cut(s)	181, 490, 595
BstMBI	GATC	3 cut(s)	178, 487, 592
BstMCI	CGRYCG	1 cut(s)	464
BstNI	CCWGG	1 cut(s)	620
BstNSI	RCATGY	2 cut(s)	847, 1027
BstSCI	CCNGG	2 cut(s)	271, 618
BstSFI	CTRYAG	1 cut(s)	654
BstV1I	GCAGC	2 cut(s)	79, 640
BstX2I	RGATCY	2 cut(s)	178, 487
BstXI	CCANNNNNNTGG	2 cut(s)	790, 910
BstYI	RGATCY	2 cut(s)	178, 487
BsuRI	GGCC	2 cut(s)	90, 782
BtsCI	GGATG	3 cut(s)	10, 36, 702
BtsIMutI	CAGTG	1 cut(s)	605
Cac8I	GCNNGC	3 cut(s)	88, 584, 912
CaiI	CAGNNNCTG	1 cut(s)	854
CfoI	GCGC	1 cut(s)	741
Cfr10I	RCCGGY	1 cut(s)	463
CsiI	ACCWGGT	1 cut(s)	618
Csp6I	GTAC	2 cut(s)	165, 542
CspAI	ACCGGT	1 cut(s)	463
CviAII	CATG	6 cut(s)	146, 373, 413, 533, 844, 1024
CviQI	GTAC	2 cut(s)	165, 542
DdeI	CTNAG	2 cut(s)	446, 676
DpnI	GATC	3 cut(s)	180, 489, 594
DpnII	GATC	3 cut(s)	178, 487, 592
DrdI	GACNNNNNNGTC	1 cut(s)	947
DseDI	GACNNNNNNGTC	1 cut(s)	947
EaeI	YGGCCR	1 cut(s)	780
Eam1104I	CTCTTC	1 cut(s)	534
EarI	CTCTTC	1 cut(s)	534
Eco32I	GATATC	1 cut(s)	457
Eco47III	AGCGCT	1 cut(s)	740
Eco88I	CYCGRG	1 cut(s)	120
EcoNI	CCTNNNNNAGG	1 cut(s)	84
EcoRII	CCWGG	1 cut(s)	618
EcoRV	GATATC	1 cut(s)	457
EcoT22I	ATGCAT	1 cut(s)	704
FaeI	CATG	6 cut(s)	149, 376, 416, 536, 847, 1027
FalI	AAGNNNNNCTT	2 cut(s)	219, 251
FatI	CATG	6 cut(s)	145, 372, 412, 532, 843, 1023
Fnu4HI	GCNGC	2 cut(s)	68, 654
FokI	GGATG	3 cut(s)	17, 43, 689
Fsp4HI	GCNGC	2 cut(s)	68, 654
FspBI	CTAG	2 cut(s)	284, 539
GlaI	GCGC	1 cut(s)	740
GluI	GCNGC	2 cut(s)	68, 654
HaeII	RGCGCY	1 cut(s)	742
HaeIII	GGCC	2 cut(s)	90, 782
HapII	CCGG	2 cut(s)	273, 464
HhaI	GCGC	1 cut(s)	741
Hin1II	CATG	6 cut(s)	149, 376, 416, 536, 847, 1027
Hin6I	GCGC	1 cut(s)	739
HinP1I	GCGC	1 cut(s)	739
HincII	GTYRAC	2 cut(s)	525, 982
HindII	GTYRAC	2 cut(s)	525, 982
HinfI	GANTC	7 cut(s)	159, 362, 526, 750, 772, 851, 941
HpaII	CCGG	2 cut(s)	273, 464
Hpy166II	GTNNAC	2 cut(s)	525, 982
Hpy188I	TCNGA	4 cut(s)	461, 679, 765, 940
Hpy188III	TCNNGA	6 cut(s)	122, 400, 711, 965, 998, 1032
Hpy8I	GTNNAC	2 cut(s)	525, 982
HpyCH4IV	ACGT	1 cut(s)	817
HpyF3I	CTNAG	2 cut(s)	446, 676
HpySE526I	ACGT	1 cut(s)	817
Hsp92II	CATG	6 cut(s)	149, 376, 416, 536, 847, 1027
HspAI	GCGC	1 cut(s)	739
Kzo9I	GATC	3 cut(s)	178, 487, 592
LmnI	GCTCC	1 cut(s)	991
Lsp1109I	GCAGC	2 cut(s)	79, 640
LweI	GCATC	3 cut(s)	345, 592, 711
MabI	ACCWGGT	1 cut(s)	618
MaeI	CTAG	2 cut(s)	284, 539
MaeII	ACGT	1 cut(s)	817
MaeIII	GTNAC	4 cut(s)	208, 347, 363, 669
MalI	GATC	3 cut(s)	180, 489, 594
MboI	GATC	3 cut(s)	178, 487, 592
MboII	GAAGA	5 cut(s)	288, 328, 521, 622, 737
MflI	RGATCY	2 cut(s)	178, 487
MlsI	TGGCCA	1 cut(s)	782
MluCI	AATT	6 cut(s)	125, 476, 685, 804, 835, 915
MluNI	TGGCCA	1 cut(s)	782
MlyI	GAGTC	4 cut(s)	371, 520, 845, 935
MmeI	TCCRAC	2 cut(s)	244, 484
Mox20I	TGGCCA	1 cut(s)	782
Mph1103I	ATGCAT	1 cut(s)	704
MscI	TGGCCA	1 cut(s)	782
MseI	TTAA	3 cut(s)	183, 237, 954
MslI	CAYNNNNRTG	1 cut(s)	1022
Msp20I	TGGCCA	1 cut(s)	782
MspCI	CTTAAG	1 cut(s)	182
MspI	CCGG	2 cut(s)	273, 464
MspR9I	CCNGG	2 cut(s)	273, 620
Mva1269I	GAATGC	1 cut(s)	251
MvaI	CCWGG	1 cut(s)	620
NciI	CCSGG	1 cut(s)	273
NdeII	GATC	3 cut(s)	178, 487, 592
NlaIII	CATG	6 cut(s)	149, 376, 416, 536, 847, 1027
NlaIV	GGNNCC	1 cut(s)	901
NmuCI	GTSAC	3 cut(s)	208, 347, 363
NsiI	ATGCAT	1 cut(s)	704
NspI	RCATGY	2 cut(s)	847, 1027
PaeR7I	CTCGAG	1 cut(s)	120
PcsI	WCGNNNNNNNCGW	1 cut(s)	783
PctI	GAATGC	1 cut(s)	251
PfeI	GAWTC	3 cut(s)	159, 750, 772
PflFI	GACNNNGTC	1 cut(s)	80
PfoI	TCCNGGA	1 cut(s)	271
PinAI	ACCGGT	1 cut(s)	463
PkrI	GCNGC	2 cut(s)	69, 655
PleI	GAGTC	4 cut(s)	370, 520, 845, 935
PpsI	GAGTC	4 cut(s)	370, 520, 845, 935
Psp6I	CCWGG	1 cut(s)	618
PspGI	CCWGG	1 cut(s)	618
PspN4I	GGNNCC	1 cut(s)	901
PstI	CTGCAG	1 cut(s)	658
PstNI	CAGNNNCTG	1 cut(s)	854
PsuI	RGATCY	2 cut(s)	178, 487
PsyI	GACNNNGTC	1 cut(s)	80
RsaI	GTAC	2 cut(s)	166, 543
RsaNI	GTAC	2 cut(s)	165, 542
RseI	CAYNNNNRTG	1 cut(s)	1022
SaqAI	TTAA	3 cut(s)	183, 237, 954
SatI	GCNGC	2 cut(s)	68, 654
Sau3AI	GATC	3 cut(s)	178, 487, 592
SchI	GAGTC	4 cut(s)	371, 520, 845, 935
ScrFI	CCNGG	2 cut(s)	273, 620
SexAI	ACCWGGT	1 cut(s)	618
SfaNI	GCATC	3 cut(s)	345, 592, 711
SfcI	CTRYAG	1 cut(s)	654
Sfr274I	CTCGAG	1 cut(s)	120
SlaI	CTCGAG	1 cut(s)	120
SmiMI	CAYNNNNRTG	1 cut(s)	1022
SmlI	CTYRAG	4 cut(s)	120, 182, 359, 945
SmoI	CTYRAG	4 cut(s)	120, 182, 359, 945
Sse9I	AATT	6 cut(s)	125, 476, 685, 804, 835, 915
SsiI	CCGC	1 cut(s)	857
SspI	AATATT	1 cut(s)	826
SspMI	CTAG	2 cut(s)	284, 539
StyD4I	CCNGG	2 cut(s)	271, 618
TaiI	ACGT	1 cut(s)	820
TaqI	TCGA	2 cut(s)	121, 339
TasI	AATT	6 cut(s)	125, 476, 685, 804, 835, 915
TatI	WGTACW	1 cut(s)	541
TfiI	GAWTC	3 cut(s)	159, 750, 772
Tru1I	TTAA	3 cut(s)	183, 237, 954
Tru9I	TTAA	3 cut(s)	183, 237, 954
TscAI	CASTG	1 cut(s)	612
TseFI	GTSAC	3 cut(s)	208, 347, 363
TseI	GCWGC	2 cut(s)	67, 653
Tsp45I	GTSAC	3 cut(s)	208, 347, 363
TspDTI	ATGAA	4 cut(s)	258, 357, 521, 731
TspRI	CASTG	1 cut(s)	612
Tth111I	GACNNNGTC	1 cut(s)	80
Vha464I	CTTAAG	1 cut(s)	182
XagI	CCTNNNNNAGG	1 cut(s)	84
XapI	RAATTY	1 cut(s)	476
XceI	RCATGY	2 cut(s)	847, 1027
XcmI	CCANNNNNNNNNTGG	1 cut(s)	260
XhoI	CTCGAG	1 cut(s)	120
XspI	CTAG	2 cut(s)	284, 539
Zsp2I	ATGCAT	1 cut(s)	704

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