Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003435

Physical Location & Seq

Genomic Coordinates Forward (+)

10237715 .. 10238503

Gene Structure 789 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG112600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGTCGAGGCCAAATGTTTCTCGTCTAGGTAAGAGAGGCTCTGGCGATGTTGATGACTCCCTCCGTGACTCTAAAAGGCCTCATCCAGACCTCCCTGAGAAACTTGTACGAGTAGCTGACATGCCCAGGTGGAGTCGAAAAGCCTTTGACGGAATCCATGAGCTGAACAGGGTGGATAGTCTTGTTTATGATACTTCCCTGTTTGAGACCGACAACATCCTCCTGAGTGCTCCAACTGGACCCGGGGAAGGTAATGTTGCCATCCTCACCATTCTCCAGCAGTTCAGTATAAATATGGATAGATGTGATGATTATAGTGTAAATCACAGAGGGTACAAAGTATTGTATTTGGCTTCTGCTACAGCTATCGTTCGTAAGGTGGTGGCACATTTGAGTACAAGATTGAGGTCTTTTGGTGCCAAGGTGAAAGAAATGAGTGGTCATGACCAGACCCTCACTCACTCACAGATTGAAGAGACTCAGATTATTGTCACAACTCCTAAGGATTGGGAAATGATCACAAGAAAGTTTGGAGAACACACTTGTACACTGGTCATTATTGAGGGAGTTCATCTTCTCCACTCTACTATTGTTGCTAGAACGGTTAGGATGCTGGAGACCACCAAGAAAATACCCGATTGGTGGGTTTATCTGCTGTGTTCCCCAACTATGAAGACGTGGCGCGATTCTTGCGTGTTGATGATAATGGTCTTTTTAATTTTGACAATATTTGCAGACCTGTTCCTCTTTCTCTCAAGTGTGTTGGAATGGAGGATAGAAACCCACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000354 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0005911 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009506 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0022613 GO:0022618 GO:0030054 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034622 GO:0034641 GO:0042623 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0046540 GO:0055044 GO:0065003 GO:0070013 GO:0070035 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:0140098 GO:1901360 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

262

Amino Acids

29.94

Weight (kDa)

7.76

Isoelectric Point (pI)

38.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	67 - 225	1.1e-12	DEAD/DEAH box helicase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0003435)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G34630 AT2G34630
fragaria_vesca	FvH4_3g05080 FvH4_3g05080 FvH4_3g05080 FvH4_3g05080
malus_domestica	MD05G1280000.v1.1 MD05G1280200.v1.1 MD10G1258500.v1.1
prunus_persica	Prupe.4G085300_v2.0.a1
pyrus_communis	pycom05g26020 pycom10g21490
rosa_chinensis	RchiOBHm_Chr5g0014811 RchiOBHm_Chr5g0014881 RchiOBHm_Chr5g0014891
rosa_laevigata	RLG00000032144
rosa_multiflora	Rmu_sc0013610.1_g000004 Rmu_sc0013610.1_g000006 Rmu_sc0013610.1_g000007 Rmu_sc0013610.1_g000008 Rmu_sc0028154.1_g000001
rosa_roxburghii	Rroxscaffold_1G00001360 Rroxscaffold_1G00061680
rosa_rugosa	Rorug05G0020900 Rorug05G0021000 Rorug05G0021000
rosa_samantha	Rh5AG116800 Rh5AG116900 Rh5BG113200 Rh5BG113300 Rh5CG125000 Rh5CG125400 Rh5DG112600 Rh5DG113100 Rh5DG113300
rosa_wichuraiana	Rw5G010050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	416
AccII	CGCG	1 cut(s)	684
AfaI	GTAC	4 cut(s)	108, 335, 397, 547
AfiI	CCNNNNNNNGG	2 cut(s)	248, 642
AgsI	TTSAA	1 cut(s)	473
AjiI	CACGTC	1 cut(s)	678
AjnI	CCWGG	1 cut(s)	125
AluBI	AGCT	3 cut(s)	116, 163, 365
AluI	AGCT	3 cut(s)	116, 163, 365
Alw21I	GWGCWC	1 cut(s)	232
Alw26I	GTCTC	3 cut(s)	200, 470, 611
Ama87I	CYCGRG	1 cut(s)	242
AoxI	GGCC	2 cut(s)	8, 77
AspLEI	GCGC	1 cut(s)	684
AspS9I	GGNCC	1 cut(s)	239
AsuC2I	CCSGG	2 cut(s)	243, 244
AsuHPI	GGTGA	2 cut(s)	259, 436
AvaI	CYCGRG	1 cut(s)	242
AvaII	GGWCC	1 cut(s)	239
AxyI	CCTNAGG	1 cut(s)	501
BanI	GGYRCC	1 cut(s)	416
BbsI	GAAGAC	1 cut(s)	680
Bbv12I	GWGCWC	1 cut(s)	232
BccI	CCATC	1 cut(s)	269
BciT130I	CCWGG	1 cut(s)	127
BclI	TGATCA	1 cut(s)	516
BcnI	CCSGG	2 cut(s)	243, 244
BcoDI	GTCTC	3 cut(s)	200, 470, 611
BfaI	CTAG	2 cut(s)	26, 597
BfmI	CTRYAG	1 cut(s)	360
Bme1390I	CCNGG	3 cut(s)	127, 243, 244
Bme18I	GGWCC	1 cut(s)	239
BmeT110I	CYCGRG	1 cut(s)	242
BmgBI	CACGTC	1 cut(s)	678
BmgT120I	GGNCC	1 cut(s)	239
BmiI	GGNNCC	2 cut(s)	241, 418
BmrFI	CCNGG	3 cut(s)	127, 243, 244
BmsI	GCATC	1 cut(s)	600
BpiI	GAAGAC	1 cut(s)	680
BpmI	CTGGAG	2 cut(s)	260, 635
BpuEI	CTTGAG	1 cut(s)	739
BpuMI	CCSGG	2 cut(s)	243, 244
BsaI	GGTCTC	2 cut(s)	200, 611
BsaJI	CCNNGG	4 cut(s)	125, 242, 243, 420
Bsc4I	CCNNNNNNNGG	2 cut(s)	248, 642
Bse1I	ACTGG	2 cut(s)	241, 555
Bse21I	CCTNAGG	1 cut(s)	501
BseBI	CCWGG	1 cut(s)	127
BseDI	CCNNGG	4 cut(s)	125, 242, 243, 420
BseGI	GGATG	4 cut(s)	82, 216, 261, 615
BseLI	CCNNNNNNNGG	2 cut(s)	248, 642
BseMII	CTCAG	3 cut(s)	87, 215, 494
BseNI	ACTGG	2 cut(s)	241, 555
Bsh1236I	CGCG	1 cut(s)	684
BshFI	GGCC	2 cut(s)	10, 79
BshNI	GGYRCC	1 cut(s)	416
BsiHKAI	GWGCWC	1 cut(s)	232
BsiHKCI	CYCGRG	1 cut(s)	242
BsiSI	CCGG	1 cut(s)	243
BslI	CCNNNNNNNGG	2 cut(s)	248, 642
BsmAI	GTCTC	3 cut(s)	200, 470, 611
BsnI	GGCC	2 cut(s)	10, 79
Bso31I	GGTCTC	2 cut(s)	200, 611
BsoBI	CYCGRG	1 cut(s)	242
Bsp1286I	GDGCHC	1 cut(s)	232
Bsp1407I	TGTACA	1 cut(s)	545
Bsp143I	GATC	1 cut(s)	516
BspANI	GGCC	2 cut(s)	10, 79
BspCNI	CTCAG	3 cut(s)	88, 216, 493
BspFNI	CGCG	1 cut(s)	684
BspHI	TCATGA	1 cut(s)	442
BspLI	GGNNCC	2 cut(s)	241, 418
BspT107I	GGYRCC	1 cut(s)	416
BspTNI	GGTCTC	2 cut(s)	200, 611
BsrGI	TGTACA	1 cut(s)	545
BsrI	ACTGG	2 cut(s)	241, 555
BssECI	CCNNGG	4 cut(s)	125, 242, 243, 420
BssMI	GATC	1 cut(s)	516
BssT1I	CCWWGG	1 cut(s)	420
Bst2UI	CCWGG	1 cut(s)	127
Bst4CI	ACNGT	1 cut(s)	604
Bst6I	CTCTTC	1 cut(s)	468
BstAUI	TGTACA	1 cut(s)	545
BstDEI	CTNAG	4 cut(s)	96, 224, 480, 501
BstF5I	GGATG	4 cut(s)	82, 216, 261, 615
BstFNI	CGCG	1 cut(s)	684
BstHHI	GCGC	1 cut(s)	684
BstKTI	GATC	1 cut(s)	519
BstMAI	GTCTC	3 cut(s)	200, 470, 611
BstMBI	GATC	1 cut(s)	516
BstMWI	GCNNNNNNNGC	1 cut(s)	690
BstNI	CCWGG	1 cut(s)	127
BstNSI	RCATGY	1 cut(s)	124
BstSCI	CCNGG	3 cut(s)	125, 241, 242
BstSFI	CTRYAG	1 cut(s)	360
BstUI	CGCG	1 cut(s)	684
BstV2I	GAAGAC	1 cut(s)	680
Bsu36I	CCTNAGG	1 cut(s)	501
BsuRI	GGCC	2 cut(s)	10, 79
BtgZI	GCGATG	1 cut(s)	60
BtrI	CACGTC	1 cut(s)	678
BtsCI	GGATG	4 cut(s)	82, 216, 261, 615
BtsIMutI	CAGTG	2 cut(s)	548, 784
CciI	TCATGA	1 cut(s)	442
CfoI	GCGC	1 cut(s)	684
Cfr13I	GGNCC	1 cut(s)	239
Cfr9I	CCCGGG	1 cut(s)	242
Csp6I	GTAC	4 cut(s)	107, 334, 396, 546
CviAII	CATG	3 cut(s)	121, 158, 443
CviJI	RGCY	8 cut(s)	10, 39, 79, 116, 143, 163, 353, 365
CviKI_1	RGCY	8 cut(s)	10, 39, 79, 116, 143, 163, 353, 365
CviQI	GTAC	4 cut(s)	107, 334, 396, 546
DdeI	CTNAG	4 cut(s)	96, 224, 480, 501
DpnI	GATC	1 cut(s)	518
DpnII	GATC	1 cut(s)	516
Eam1104I	CTCTTC	1 cut(s)	468
EarI	CTCTTC	1 cut(s)	468
Eco130I	CCWWGG	1 cut(s)	420
Eco147I	AGGCCT	1 cut(s)	79
Eco31I	GGTCTC	2 cut(s)	200, 611
Eco47I	GGWCC	1 cut(s)	239
Eco81I	CCTNAGG	1 cut(s)	501
Eco88I	CYCGRG	1 cut(s)	242
EcoRII	CCWGG	1 cut(s)	125
EcoT14I	CCWWGG	1 cut(s)	420
ErhI	CCWWGG	1 cut(s)	420
FaeI	CATG	3 cut(s)	124, 161, 446
FaiI	YATR	8 cut(s)	122, 159, 189, 290, 296, 315, 444, 671
FatI	CATG	3 cut(s)	120, 157, 442
FbaI	TGATCA	1 cut(s)	516
FokI	GGATG	4 cut(s)	69, 203, 248, 622
FspBI	CTAG	2 cut(s)	26, 597
GlaI	GCGC	1 cut(s)	683
GsuI	CTGGAG	2 cut(s)	260, 635
HaeIII	GGCC	2 cut(s)	10, 79
HapII	CCGG	1 cut(s)	243
HhaI	GCGC	1 cut(s)	684
Hin1II	CATG	3 cut(s)	124, 161, 446
Hin6I	GCGC	1 cut(s)	682
HinP1I	GCGC	1 cut(s)	682
HinfI	GANTC	6 cut(s)	56, 68, 133, 153, 478, 686
HpaII	CCGG	1 cut(s)	243
HphI	GGTGA	2 cut(s)	259, 436
Hpy166II	GTNNAC	1 cut(s)	548
Hpy188I	TCNGA	1 cut(s)	483
Hpy188III	TCNNGA	3 cut(s)	86, 223, 443
Hpy8I	GTNNAC	1 cut(s)	548
HpyAV	CCTTC	1 cut(s)	242
HpyCH4III	ACNGT	1 cut(s)	604
HpyCH4IV	ACGT	1 cut(s)	677
HpyCH4V	TGCA	1 cut(s)	734
HpyF10VI	GCNNNNNNNGC	1 cut(s)	690
HpyF3I	CTNAG	4 cut(s)	96, 224, 480, 501
HpySE526I	ACGT	1 cut(s)	677
Hsp92II	CATG	3 cut(s)	124, 161, 446
HspAI	GCGC	1 cut(s)	682
Ksp22I	TGATCA	1 cut(s)	516
Kzo9I	GATC	1 cut(s)	516
LmnI	GCTCC	1 cut(s)	235
LweI	GCATC	1 cut(s)	600
MaeI	CTAG	2 cut(s)	26, 597
MaeII	ACGT	1 cut(s)	677
MaeIII	GTNAC	2 cut(s)	65, 490
MalI	GATC	1 cut(s)	518
MboI	GATC	1 cut(s)	516
MboII	GAAGA	3 cut(s)	485, 566, 685
MhlI	GDGCHC	1 cut(s)	232
MluCI	AATT	1 cut(s)	717
MlyI	GAGTC	4 cut(s)	50, 62, 142, 472
MmeI	TCCRAC	2 cut(s)	257, 744
MseI	TTAA	1 cut(s)	716
MspI	CCGG	1 cut(s)	243
MspR9I	CCNGG	3 cut(s)	127, 243, 244
MvaI	CCWGG	1 cut(s)	127
MvnI	CGCG	1 cut(s)	684
MwoI	GCNNNNNNNGC	1 cut(s)	690
NciI	CCSGG	2 cut(s)	243, 244
NdeII	GATC	1 cut(s)	516
NlaIII	CATG	3 cut(s)	124, 161, 446
NlaIV	GGNNCC	2 cut(s)	241, 418
NmuCI	GTSAC	2 cut(s)	65, 490
NspI	RCATGY	1 cut(s)	124
PagI	TCATGA	1 cut(s)	442
PceI	AGGCCT	1 cut(s)	79
PfeI	GAWTC	2 cut(s)	153, 686
PleI	GAGTC	4 cut(s)	50, 62, 141, 472
PpsI	GAGTC	4 cut(s)	50, 62, 141, 472
Psp6I	CCWGG	1 cut(s)	125
PspGI	CCWGG	1 cut(s)	125
PspN4I	GGNNCC	2 cut(s)	241, 418
PspPI	GGNCC	1 cut(s)	239
RsaI	GTAC	4 cut(s)	108, 335, 397, 547
RsaNI	GTAC	4 cut(s)	107, 334, 396, 546
SaqAI	TTAA	1 cut(s)	716
Sau3AI	GATC	1 cut(s)	516
Sau96I	GGNCC	1 cut(s)	239
SchI	GAGTC	4 cut(s)	50, 62, 142, 472
ScrFI	CCNGG	3 cut(s)	127, 243, 244
SduI	GDGCHC	1 cut(s)	232
SfaNI	GCATC	1 cut(s)	600
SfcI	CTRYAG	1 cut(s)	360
SinI	GGWCC	1 cut(s)	239
SmaI	CCCGGG	1 cut(s)	244
SmlI	CTYRAG	1 cut(s)	754
SmoI	CTYRAG	1 cut(s)	754
Sse9I	AATT	1 cut(s)	717
SseBI	AGGCCT	1 cut(s)	79
SspI	AATATT	1 cut(s)	729
SspMI	CTAG	2 cut(s)	26, 597
StuI	AGGCCT	1 cut(s)	79
StyD4I	CCNGG	3 cut(s)	125, 241, 242
StyI	CCWWGG	1 cut(s)	420
TaaI	ACNGT	1 cut(s)	604
TaiI	ACGT	1 cut(s)	680
TaqI	TCGA	2 cut(s)	5, 136
TaqII	GACCGA	1 cut(s)	224
TasI	AATT	1 cut(s)	717
TatI	WGTACW	2 cut(s)	395, 545
TfiI	GAWTC	2 cut(s)	153, 686
Tru1I	TTAA	1 cut(s)	716
Tru9I	TTAA	1 cut(s)	716
TscAI	CASTG	1 cut(s)	555
TseFI	GTSAC	2 cut(s)	65, 490
Tsp45I	GTSAC	2 cut(s)	65, 490
TspDTI	ATGAA	2 cut(s)	560, 686
TspGWI	ACGGA	2 cut(s)	53, 165
TspMI	CCCGGG	1 cut(s)	242
TspRI	CASTG	1 cut(s)	555
VpaK11BI	GGWCC	1 cut(s)	239
XceI	RCATGY	1 cut(s)	124
XmaI	CCCGGG	1 cut(s)	242
XspI	CTAG	2 cut(s)	26, 597

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