Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0010384

Physical Location & Seq

Genomic Coordinates Reverse (-)

10328414 .. 10331933

Gene Structure 3520 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000032028

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGACAACCCCTGCAGTTGGAAGGTACAAATTAAACTCTGATGGAGCTTTGGAAAACAACGGTCAAAGAAGAGGGTTAGGTGCAGTTATTCGGAATGAGTTTGGCCAATTAATGGGAGCGATCGCTCACCCAATTAGTGGTCACTTCTCTCCTTTAGCAACTGAACTTTTGGCACTGAAAGCGGGCATTTGTTTTGCTCTTGAAGTGGGTATTATTCCTCTTGATATCGAAGTCAACAGTAAAGAAGTAGCTTGCCTAGTGAATTTTGTTGAACTTTGTTGGTCTGAGGAGGGTACTTTGGTAGAAGACATCAAGACTCTTATGCACGCCTGCGGTACCGATAAGTCCCAGAGCCGACTCAGCACCATATACATGGCAAAGAAAACCAACGACTCTCAGGAACCAGTCTCTTCTTCCTCCACCAACACCCCAGAAGAAGCTTCCACTCGGAGAATGGTGTTGAGGGTCAGACGAAGCGACGCGACAAAGAGGTTATCAAGCTTAATCAGAGCTGAGGAGAAGGAAAAGAGGGTTGTTTCAGTTAAAAGGTCAAAAACCAAGCAGAAGAAAAAAGGTGCTAAAATTGATGCCAAGATGCCCAAGAAACCACCAACTGCATTCTTCTATTTCTTGGAGGACTTCCGCAAGGAATTTCAAGAGCAAAATCCAGAAGTCAAGACTATGCGTGAGGTTGGAAAGGCATGTGGAGAGAAGTGGAAGACATTGACATATGAGGACAAGGTCAAATACTATGATATAGCCATGGAGAAACGAGCCGAGTTTGACAAGGCCATGTCAGAATATATCAAGAAAAAGGAAAGTGGTGAGGGTGACGAAACTGAGGATGATGAAGATTACTATATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HMG_box

Protein Analysis

289

Amino Acids

32.53

Weight (kDa)

8.41

Isoelectric Point (pI)

56.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	12 - 109	9.4e-13	Reverse transcriptase-like
HMG_box_2	PF09011	198 - 268	1.2e-14	HMG-box domain
HMG_box	PF00505	200 - 268	2.7e-17	HMG (high mobility group) box
HMG_WDHD1	PF24815	203 - 250	2.2e-09	WDHD1 HMG box

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: OG0010384)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G34450 AT2G34450 AT2G34450 AT2G34450
fragaria_vesca	FvH4_3g05880
malus_domestica	MD05G1286800.v1.1 MD10G1264300.v1.1
prunus_persica	Prupe.4G078100_v2.0.a1 Prupe.4G078100_v2.0.a1
pyrus_communis	pycom05g26520
rosa_chinensis	RchiOBHm_Chr5g0013561
rosa_laevigata	RLG00000032028
rosa_multiflora	Rmu_sc0002573.1_g000020 Rmu_sc0003458.1_g000025
rosa_roxburghii	Rroxscaffold_1G00063010
rosa_rugosa	Rorug05G0011000
rosa_samantha	Rh5AG105600 Rh5BG101900 Rh5CG113700 Rh5DG100400
rosa_wichuraiana	Rw5G009200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	335
AccB1I	GGYRCC	1 cut(s)	335
AccB7I	CCANNNNNTGG	2 cut(s)	112, 137
AccII	CGCG	1 cut(s)	482
AciI	CCGC	3 cut(s)	182, 333, 643
AcoI	YGGCCR	1 cut(s)	103
AcsI	RAATTY	2 cut(s)	262, 650
AfaI	GTAC	3 cut(s)	26, 295, 337
AfiI	CCNNNNNNNGG	3 cut(s)	17, 112, 137
AgsI	TTSAA	3 cut(s)	203, 272, 656
AluBI	AGCT	5 cut(s)	47, 251, 440, 501, 512
AluI	AGCT	5 cut(s)	47, 251, 440, 501, 512
Alw26I	GTCTC	1 cut(s)	412
AoxI	GGCC	2 cut(s)	103, 789
ApoI	RAATTY	2 cut(s)	262, 650
AseI	ATTAAT	1 cut(s)	110
AsiSI	GCGATCGC	1 cut(s)	123
Asp718I	GGTACC	1 cut(s)	335
AsuHPI	GGTGA	3 cut(s)	119, 836, 842
BaeI	ACNNNNGTAYC	2 cut(s)	285, 318
BalI	TGGCCA	1 cut(s)	105
BanI	GGYRCC	1 cut(s)	335
BbsI	GAAGAC	2 cut(s)	312, 725
BbvCI	CCTCAGC	1 cut(s)	513
BccI	CCATC	1 cut(s)	35
BcoDI	GTCTC	1 cut(s)	412
BfaI	CTAG	1 cut(s)	257
BfmI	CTRYAG	1 cut(s)	12
BmiI	GGNNCC	2 cut(s)	337, 402
BmsI	GCATC	2 cut(s)	577, 585
BpiI	GAAGAC	2 cut(s)	312, 725
Bpu10I	CCTNAGC	1 cut(s)	513
BsaJI	CCNNGG	1 cut(s)	762
Bsc4I	CCNNNNNNNGG	3 cut(s)	17, 112, 137
Bse1I	ACTGG	1 cut(s)	404
BseDI	CCNNGG	1 cut(s)	762
BseGI	GGATG	1 cut(s)	850
BseLI	CCNNNNNNNGG	3 cut(s)	17, 112, 137
BseMII	CTCAG	5 cut(s)	276, 373, 410, 504, 831
BseNI	ACTGG	1 cut(s)	404
BseRI	GAGGAG	2 cut(s)	302, 530
BsgI	GTGCAG	1 cut(s)	102
Bsh1236I	CGCG	1 cut(s)	482
Bsh1285I	CGRYCG	1 cut(s)	123
BshFI	GGCC	2 cut(s)	105, 791
BshNI	GGYRCC	1 cut(s)	335
BsiEI	CGRYCG	1 cut(s)	123
BslFI	GGGAC	1 cut(s)	331
BslI	CCNNNNNNNGG	3 cut(s)	17, 112, 137
BsmAI	GTCTC	1 cut(s)	412
BsmFI	GGGAC	1 cut(s)	331
BsmI	GAATGC	1 cut(s)	617
BsnI	GGCC	2 cut(s)	105, 791
Bsp143I	GATC	1 cut(s)	120
Bsp19I	CCATGG	1 cut(s)	762
BspACI	CCGC	3 cut(s)	182, 333, 643
BspANI	GGCC	2 cut(s)	105, 791
BspCNI	CTCAG	5 cut(s)	277, 372, 409, 505, 832
BspFNI	CGCG	1 cut(s)	482
BspLI	GGNNCC	2 cut(s)	337, 402
BspMAI	CTGCAG	1 cut(s)	16
BspT107I	GGYRCC	1 cut(s)	335
BsrI	ACTGG	1 cut(s)	404
BssECI	CCNNGG	1 cut(s)	762
BssMI	GATC	1 cut(s)	120
BssT1I	CCWWGG	1 cut(s)	762
Bst4CI	ACNGT	2 cut(s)	62, 239
Bst6I	CTCTTC	2 cut(s)	64, 415
BstC8I	GCNNGC	4 cut(s)	184, 253, 327, 331
BstDEI	CTNAG	5 cut(s)	285, 359, 396, 513, 840
BstDSI	CCRYGG	1 cut(s)	762
BstF5I	GGATG	1 cut(s)	850
BstFNI	CGCG	1 cut(s)	482
BstKTI	GATC	1 cut(s)	123
BstMAI	GTCTC	1 cut(s)	412
BstMBI	GATC	1 cut(s)	120
BstMCI	CGRYCG	1 cut(s)	123
BstMWI	GCNNNNNNNGC	2 cut(s)	179, 360
BstNSI	RCATGY	1 cut(s)	705
BstSFI	CTRYAG	1 cut(s)	12
BstUI	CGCG	1 cut(s)	482
BstV2I	GAAGAC	2 cut(s)	312, 725
BstXI	CCANNNNNNTGG	1 cut(s)	373
BsuRI	GGCC	2 cut(s)	105, 791
BtgI	CCRYGG	1 cut(s)	762
BtsCI	GGATG	1 cut(s)	850
BtsIMutI	CAGTG	1 cut(s)	173
Cac8I	GCNNGC	4 cut(s)	184, 253, 327, 331
CseI	GACGC	1 cut(s)	488
Csp6I	GTAC	3 cut(s)	25, 294, 336
CviAII	CATG	4 cut(s)	373, 702, 763, 793
CviQI	GTAC	3 cut(s)	25, 294, 336
DdeI	CTNAG	5 cut(s)	285, 359, 396, 513, 840
DpnI	GATC	1 cut(s)	122
DpnII	GATC	1 cut(s)	120
EaeI	YGGCCR	1 cut(s)	103
Eam1104I	CTCTTC	2 cut(s)	64, 415
EarI	CTCTTC	2 cut(s)	64, 415
Eco130I	CCWWGG	1 cut(s)	762
Eco32I	GATATC	1 cut(s)	226
EcoRV	GATATC	1 cut(s)	226
EcoT14I	CCWWGG	1 cut(s)	762
ErhI	CCWWGG	1 cut(s)	762
FaeI	CATG	4 cut(s)	376, 705, 766, 796
FaqI	GGGAC	1 cut(s)	331
FatI	CATG	4 cut(s)	372, 701, 762, 792
FauI	CCCGC	1 cut(s)	175
FauNDI	CATATG	1 cut(s)	730
FokI	GGATG	1 cut(s)	857
FspBI	CTAG	1 cut(s)	257
HaeIII	GGCC	2 cut(s)	105, 791
HgaI	GACGC	1 cut(s)	488
Hin1II	CATG	4 cut(s)	376, 705, 766, 796
HincII	GTYRAC	1 cut(s)	235
HindII	GTYRAC	1 cut(s)	235
HindIII	AAGCTT	2 cut(s)	438, 499
HinfI	GANTC	3 cut(s)	316, 357, 392
HphI	GGTGA	3 cut(s)	119, 836, 842
Hpy166II	GTNNAC	1 cut(s)	235
Hpy188I	TCNGA	8 cut(s)	40, 93, 286, 450, 470, 509, 799, 866
Hpy188III	TCNNGA	8 cut(s)	200, 221, 313, 398, 656, 668, 676, 808
Hpy8I	GTNNAC	1 cut(s)	235
Hpy99I	CGWCG	1 cut(s)	482
HpyAV	CCTTC	2 cut(s)	15, 514
HpyCH4III	ACNGT	2 cut(s)	62, 239
HpyCH4V	TGCA	4 cut(s)	14, 83, 325, 617
HpyF10VI	GCNNNNNNNGC	2 cut(s)	179, 360
HpyF3I	CTNAG	5 cut(s)	285, 359, 396, 513, 840
Hsp92II	CATG	4 cut(s)	376, 705, 766, 796
KpnI	GGTACC	1 cut(s)	339
Kzo9I	GATC	1 cut(s)	120
LmnI	GCTCC	2 cut(s)	44, 116
LpnPI	CCDG	7 cut(s)	24, 343, 362, 383, 417, 444, 681
LweI	GCATC	2 cut(s)	577, 585
MaeI	CTAG	1 cut(s)	257
MaeIII	GTNAC	2 cut(s)	140, 830
MalI	GATC	1 cut(s)	122
MboI	GATC	1 cut(s)	120
MboII	GAAGA	9 cut(s)	81, 317, 402, 405, 446, 577, 613, 730, 863
MlsI	TGGCCA	1 cut(s)	105
MluCI	AATT	6 cut(s)	29, 107, 132, 262, 582, 650
MluNI	TGGCCA	1 cut(s)	105
MlyI	GAGTC	3 cut(s)	310, 351, 386
MmeI	TCCRAC	1 cut(s)	673
Mox20I	TGGCCA	1 cut(s)	105
MscI	TGGCCA	1 cut(s)	105
MseI	TTAA	4 cut(s)	32, 110, 503, 543
MslI	CAYNNNNRTG	1 cut(s)	371
Msp20I	TGGCCA	1 cut(s)	105
Mva1269I	GAATGC	1 cut(s)	617
MvnI	CGCG	1 cut(s)	482
MwoI	GCNNNNNNNGC	2 cut(s)	179, 360
NcoI	CCATGG	1 cut(s)	762
NdeI	CATATG	1 cut(s)	730
NdeII	GATC	1 cut(s)	120
NlaIII	CATG	4 cut(s)	376, 705, 766, 796
NlaIV	GGNNCC	2 cut(s)	337, 402
NmeAIII	GCCGAG	1 cut(s)	802
NmuCI	GTSAC	2 cut(s)	140, 830
NspI	RCATGY	1 cut(s)	705
PctI	GAATGC	1 cut(s)	617
PflFI	GACNNNGTC	1 cut(s)	740
PflMI	CCANNNNNTGG	2 cut(s)	112, 137
Ple19I	CGATCG	1 cut(s)	123
PleI	GAGTC	3 cut(s)	310, 351, 386
PpsI	GAGTC	3 cut(s)	310, 351, 386
PshBI	ATTAAT	1 cut(s)	110
PspN4I	GGNNCC	2 cut(s)	337, 402
PstI	CTGCAG	1 cut(s)	16
PsyI	GACNNNGTC	1 cut(s)	740
PvuI	CGATCG	1 cut(s)	123
RgaI	GCGATCGC	1 cut(s)	123
RsaI	GTAC	3 cut(s)	26, 295, 337
RsaNI	GTAC	3 cut(s)	25, 294, 336
RseI	CAYNNNNRTG	1 cut(s)	371
SaqAI	TTAA	4 cut(s)	32, 110, 503, 543
Sau3AI	GATC	1 cut(s)	120
SchI	GAGTC	3 cut(s)	310, 351, 386
SfaAI	GCGATCGC	1 cut(s)	123
SfaNI	GCATC	2 cut(s)	577, 585
SfcI	CTRYAG	1 cut(s)	12
SgfI	GCGATCGC	1 cut(s)	123
SmiMI	CAYNNNNRTG	1 cut(s)	371
Sse9I	AATT	6 cut(s)	29, 107, 132, 262, 582, 650
SsiI	CCGC	3 cut(s)	182, 333, 643
SspMI	CTAG	1 cut(s)	257
StyI	CCWWGG	1 cut(s)	762
TaaI	ACNGT	2 cut(s)	62, 239
TaqI	TCGA	1 cut(s)	228
TasI	AATT	6 cut(s)	29, 107, 132, 262, 582, 650
Tru1I	TTAA	4 cut(s)	32, 110, 503, 543
Tru9I	TTAA	4 cut(s)	32, 110, 503, 543
TscAI	CASTG	1 cut(s)	180
TseFI	GTSAC	2 cut(s)	140, 830
Tsp45I	GTSAC	2 cut(s)	140, 830
TspDTI	ATGAA	1 cut(s)	864
TspRI	CASTG	1 cut(s)	180
Tth111I	GACNNNGTC	1 cut(s)	740
Van91I	CCANNNNNTGG	2 cut(s)	112, 137
VspI	ATTAAT	1 cut(s)	110
XapI	RAATTY	2 cut(s)	262, 650
XceI	RCATGY	1 cut(s)	705
XcmI	CCANNNNNNNNNTGG	1 cut(s)	451
XspI	CTAG	1 cut(s)	257

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