Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0005547

Physical Location & Seq

Genomic Coordinates Reverse (-)

68503665 .. 68504375

Gene Structure 711 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG426500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGGCGACCGCTTATACATTGCGTAGTTGCTTCGACATATGCTCTACTATTTGTTTTATCTGTGTTGTTGTCACGGGCGTCACCACAGTTGGTATTGCGATGAAGAGAGAATCTAAACCTCCCTATCACTCAAACATTCATGTAACTCATGCTTCGCTCACCGAATTCACAATCATCACCACCAAGAACACTAACACCCTCCGCTATAATCTTGTCTTCCACACCACCCTCCAAAACCCCAACAAAGATTTCGGCATACATTATCATAACATCACGGTCATGGCTTATTACCAAGAGAAGAGGTTTGTTGCGGAGAGCTACTCTTATGTGTTTTACCAAGAGAAAAATGAAACAACTCTTCTCAAATTGTCATTCAGAGGACAGCAGGACATGGATACTCTTGGGGTTGAAAAGGATCTTAATTCCGAGGCTAAGCATCAATGTGCACACGTCGAGGACAACAATGTTGGATCAGCTAATAATAATTACGACATCTTTGTCAGACTCTATCTTCAAAACACTGCAATCCCTAAGGCGACGTTTAAGAAGAATTGGAAAGTGAACTCCCAGTTCATATGCGACTTGAAGAAGGTTCCGTTGATCAAGTCGGCGAATTATTTCCCCAGTACTTTCAAGACTATCGAATGTGATTCCTATCTCCCGCAAGTATATCATGCACCCGGCCTTAAGAGTAAACGATTTGTTTGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002252 GO:0002376 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0005911 GO:0006950 GO:0006952 GO:0007275 GO:0007568 GO:0008150 GO:0009506 GO:0009507 GO:0009536 GO:0009605 GO:0009607 GO:0009615 GO:0010150 GO:0016020 GO:0030054 GO:0031224 GO:0031225 GO:0031226 GO:0032501 GO:0032502 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044425 GO:0044444 GO:0044459 GO:0044464 GO:0046658 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0050896 GO:0051607 GO:0051704 GO:0051707 GO:0055044 GO:0071944 GO:0090693 GO:0098542 GO:0099402

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LEA_2

Protein Analysis

236

Amino Acids

27.19

Weight (kDa)

8.95

Isoelectric Point (pI)

43.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LEA_2	PF03168	76 - 129	6.1e-06	Late embryogenesis abundant protein

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: OG0005547)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g32184 FvH4_7g32210
rosa_chinensis	RchiOBHm_Chr3g0448411
rosa_multiflora	Rmu_sc0003308.1_g000008 Rmu_sc0008418.1_g000004 Rmu_sc0008418.1_g000005 Rmu_sc0010238.1_g000009 Rmu_sc0010238.1_g000010
rosa_roxburghii	Rroxscaffold_4G00278410 Rroxscaffold_4G00278420 Rroxscaffold_6G00426600
rosa_rugosa	Rorug02G0612200
rosa_samantha	Rh1AG454600 Rh1AG454700 Rh1BG411900 Rh1BG412000 Rh1CG426500 Rh1DG444100 Rh1DG444200 Rh3AG011500 Rh3AG011600 Rh3BG011300 Rh3BG011400 Rh3CG011000 Rh3CG011100 Rh3DG011700 Rh3DG011800
rosa_wichuraiana	Rw0G013340 Rw0G013350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	497
AciI	CCGC	4 cut(s)	9, 202, 311, 662
AclWI	GGATC	2 cut(s)	423, 478
AcsI	RAATTY	1 cut(s)	164
AcyI	GRCGYC	1 cut(s)	78
AfaI	GTAC	1 cut(s)	628
AflII	CTTAAG	1 cut(s)	686
AflIII	ACRYGT	1 cut(s)	448
AgsI	TTSAA	4 cut(s)	410, 515, 586, 634
AjiI	CACGTC	1 cut(s)	451
AjuI	GAANNNNNNNTTGG	2 cut(s)	233, 265
AluBI	AGCT	2 cut(s)	318, 476
AluI	AGCT	2 cut(s)	318, 476
Alw21I	GWGCWC	1 cut(s)	448
Alw44I	GTGCAC	1 cut(s)	444
AlwI	GGATC	2 cut(s)	423, 478
AoxI	GGCC	1 cut(s)	682
ApaLI	GTGCAC	1 cut(s)	444
ApoI	RAATTY	1 cut(s)	164
Asp700I	GAANNNNTTC	1 cut(s)	617
AsuC2I	CCSGG	1 cut(s)	681
AsuHPI	GGTGA	3 cut(s)	73, 151, 169
AxyI	CCTNAGG	1 cut(s)	531
BaeGI	GKGCMC	1 cut(s)	448
BbsI	GAAGAC	1 cut(s)	208
Bbv12I	GWGCWC	1 cut(s)	448
BciVI	GTATCC	1 cut(s)	388
BclI	TGATCA	1 cut(s)	600
BcnI	CCSGG	1 cut(s)	681
BfrI	CTTAAG	1 cut(s)	686
BfuI	GTATCC	1 cut(s)	388
BlpI	GCTNAGC	1 cut(s)	432
BmcAI	AGTACT	1 cut(s)	628
Bme1390I	CCNGG	1 cut(s)	681
BmgBI	CACGTC	1 cut(s)	451
BmiI	GGNNCC	1 cut(s)	594
BmrFI	CCNGG	1 cut(s)	681
BmrI	ACTGGG	2 cut(s)	562, 618
BmsI	GCATC	1 cut(s)	445
BmuI	ACTGGG	2 cut(s)	562, 618
BpiI	GAAGAC	1 cut(s)	208
BplI	GAGNNNNNCTC	2 cut(s)	305, 337
Bpu1102I	GCTNAGC	1 cut(s)	432
BpuMI	CCSGG	1 cut(s)	681
BsaBI	GATNNNNATC	1 cut(s)	654
BsaHI	GRCGYC	1 cut(s)	78
BsaJI	CCNNGG	1 cut(s)	426
Bse1I	ACTGG	2 cut(s)	568, 624
Bse21I	CCTNAGG	1 cut(s)	531
Bse3DI	GCAATG	1 cut(s)	17
Bse8I	GATNNNNATC	1 cut(s)	654
BseDI	CCNNGG	1 cut(s)	426
BseJI	GATNNNNATC	1 cut(s)	654
BseMI	GCAATG	1 cut(s)	17
BseNI	ACTGG	2 cut(s)	568, 624
BseSI	GKGCMC	1 cut(s)	448
Bsh1285I	CGRYCG	1 cut(s)	9
BshFI	GGCC	1 cut(s)	684
BsiEI	CGRYCG	1 cut(s)	9
BsiHKAI	GWGCWC	1 cut(s)	448
BsiSI	CCGG	1 cut(s)	681
BsnI	GGCC	1 cut(s)	684
Bsp1286I	GDGCHC	1 cut(s)	448
Bsp143I	GATC	3 cut(s)	415, 470, 600
Bsp1720I	GCTNAGC	1 cut(s)	432
BspACI	CCGC	4 cut(s)	9, 202, 311, 662
BspANI	GGCC	1 cut(s)	684
BspLI	GGNNCC	1 cut(s)	594
BspPI	GGATC	2 cut(s)	423, 478
BspTI	CTTAAG	1 cut(s)	686
BsrDI	GCAATG	1 cut(s)	17
BsrI	ACTGG	2 cut(s)	568, 624
BssECI	CCNNGG	1 cut(s)	426
BssMI	GATC	3 cut(s)	415, 470, 600
BssNI	GRCGYC	1 cut(s)	78
Bst4CI	ACNGT	2 cut(s)	88, 277
Bst6I	CTCTTC	3 cut(s)	98, 293, 363
BstACI	GRCGYC	1 cut(s)	78
BstAFI	CTTAAG	1 cut(s)	686
BstDEI	CTNAG	2 cut(s)	432, 531
BstKTI	GATC	3 cut(s)	418, 473, 603
BstMBI	GATC	3 cut(s)	415, 470, 600
BstMCI	CGRYCG	1 cut(s)	9
BstSCI	CCNGG	1 cut(s)	679
BstSLI	GKGCMC	1 cut(s)	448
BstV2I	GAAGAC	1 cut(s)	208
BstX2I	RGATCY	1 cut(s)	415
BstYI	RGATCY	1 cut(s)	415
Bsu36I	CCTNAGG	1 cut(s)	531
BsuI	GTATCC	1 cut(s)	388
BsuRI	GGCC	1 cut(s)	684
BtgZI	GCGATG	1 cut(s)	113
BtrI	CACGTC	1 cut(s)	451
BtsI	GCAGTG	1 cut(s)	519
BtsIMutI	CAGTG	1 cut(s)	519
CseI	GACGC	1 cut(s)	67
Csp6I	GTAC	1 cut(s)	627
CviAII	CATG	5 cut(s)	140, 149, 280, 391, 674
CviJI	RGCY	5 cut(s)	284, 318, 431, 476, 684
CviKI_1	RGCY	5 cut(s)	284, 318, 431, 476, 684
CviQI	GTAC	1 cut(s)	627
DdeI	CTNAG	2 cut(s)	432, 531
DpnI	GATC	3 cut(s)	417, 472, 602
DpnII	GATC	3 cut(s)	415, 470, 600
DrdI	GACNNNNNNGTC	1 cut(s)	497
DseDI	GACNNNNNNGTC	1 cut(s)	497
Eam1104I	CTCTTC	3 cut(s)	98, 293, 363
EarI	CTCTTC	3 cut(s)	98, 293, 363
Eco81I	CCTNAGG	1 cut(s)	531
EcoRI	GAATTC	1 cut(s)	164
FaeI	CATG	5 cut(s)	143, 152, 283, 394, 677
FatI	CATG	5 cut(s)	139, 148, 279, 390, 673
FauI	CCCGC	1 cut(s)	669
FauNDI	CATATG	2 cut(s)	38, 575
FbaI	TGATCA	1 cut(s)	600
HaeIII	GGCC	1 cut(s)	684
HapII	CCGG	1 cut(s)	681
HgaI	GACGC	1 cut(s)	67
Hin1I	GRCGYC	1 cut(s)	78
Hin1II	CATG	5 cut(s)	143, 152, 283, 394, 677
HinfI	GANTC	3 cut(s)	110, 504, 650
HpaII	CCGG	1 cut(s)	681
HphI	GGTGA	3 cut(s)	73, 151, 169
Hpy166II	GTNNAC	3 cut(s)	446, 562, 695
Hpy188I	TCNGA	3 cut(s)	377, 427, 503
Hpy188III	TCNNGA	1 cut(s)	634
Hpy8I	GTNNAC	3 cut(s)	446, 562, 695
Hpy99I	CGWCG	2 cut(s)	455, 541
HpyAV	CCTTC	1 cut(s)	583
HpyCH4III	ACNGT	2 cut(s)	88, 277
HpyCH4IV	ACGT	2 cut(s)	450, 539
HpyCH4V	TGCA	3 cut(s)	446, 524, 677
HpyF3I	CTNAG	2 cut(s)	432, 531
HpySE526I	ACGT	2 cut(s)	450, 539
Hsp92I	GRCGYC	1 cut(s)	78
Hsp92II	CATG	5 cut(s)	143, 152, 283, 394, 677
Ksp22I	TGATCA	1 cut(s)	600
Kzo9I	GATC	3 cut(s)	415, 470, 600
LpnPI	CCDG	4 cut(s)	371, 581, 637, 694
LweI	GCATC	1 cut(s)	445
MaeII	ACGT	2 cut(s)	450, 539
MaeIII	GTNAC	3 cut(s)	70, 79, 142
MalI	GATC	3 cut(s)	417, 472, 602
MboI	GATC	3 cut(s)	415, 470, 600
MboII	GAAGA	7 cut(s)	115, 208, 310, 350, 503, 559, 598
MflI	RGATCY	1 cut(s)	415
MhlI	GDGCHC	1 cut(s)	448
MluCI	AATT	6 cut(s)	164, 365, 421, 484, 550, 613
MlyI	GAGTC	1 cut(s)	498
MmeI	TCCRAC	1 cut(s)	448
MnlI	CCTC	7 cut(s)	129, 209, 239, 294, 371, 421, 448
MroXI	GAANNNNTTC	1 cut(s)	617
MseI	TTAA	3 cut(s)	420, 543, 687
MslI	CAYNNNNRTG	2 cut(s)	278, 441
MspCI	CTTAAG	1 cut(s)	686
MspI	CCGG	1 cut(s)	681
MspR9I	CCNGG	1 cut(s)	681
NciI	CCSGG	1 cut(s)	681
NdeI	CATATG	2 cut(s)	38, 575
NdeII	GATC	3 cut(s)	415, 470, 600
NlaIII	CATG	5 cut(s)	143, 152, 283, 394, 677
NlaIV	GGNNCC	1 cut(s)	594
NmuCI	GTSAC	2 cut(s)	70, 79
PdmI	GAANNNNTTC	1 cut(s)	617
PfeI	GAWTC	2 cut(s)	110, 650
PleI	GAGTC	1 cut(s)	498
PpsI	GAGTC	1 cut(s)	498
PspN4I	GGNNCC	1 cut(s)	594
PsuI	RGATCY	1 cut(s)	415
RsaI	GTAC	1 cut(s)	628
RsaNI	GTAC	1 cut(s)	627
RseI	CAYNNNNRTG	2 cut(s)	278, 441
SaqAI	TTAA	3 cut(s)	420, 543, 687
Sau3AI	GATC	3 cut(s)	415, 470, 600
ScaI	AGTACT	1 cut(s)	628
SchI	GAGTC	1 cut(s)	498
ScrFI	CCNGG	1 cut(s)	681
SduI	GDGCHC	1 cut(s)	448
SetI	ASST	7 cut(s)	121, 305, 320, 453, 478, 542, 594
SfaNI	GCATC	1 cut(s)	445
SmiMI	CAYNNNNRTG	2 cut(s)	278, 441
SmlI	CTYRAG	1 cut(s)	686
SmoI	CTYRAG	1 cut(s)	686
Sse9I	AATT	6 cut(s)	164, 365, 421, 484, 550, 613
SsiI	CCGC	4 cut(s)	9, 202, 311, 662
StyD4I	CCNGG	1 cut(s)	679
TaaI	ACNGT	2 cut(s)	88, 277
TaiI	ACGT	2 cut(s)	453, 542
TaqI	TCGA	3 cut(s)	33, 453, 642
TasI	AATT	6 cut(s)	164, 365, 421, 484, 550, 613
TatI	WGTACW	1 cut(s)	626
TfiI	GAWTC	2 cut(s)	110, 650
Tru1I	TTAA	3 cut(s)	420, 543, 687
Tru9I	TTAA	3 cut(s)	420, 543, 687
TscAI	CASTG	1 cut(s)	526
TseFI	GTSAC	2 cut(s)	70, 79
Tsp45I	GTSAC	2 cut(s)	70, 79
TspDTI	ATGAA	4 cut(s)	116, 128, 363, 562
TspGWI	ACGGA	1 cut(s)	585
TspRI	CASTG	1 cut(s)	526
Vha464I	CTTAAG	1 cut(s)	686
VneI	GTGCAC	1 cut(s)	444
XapI	RAATTY	1 cut(s)	164
XmnI	GAANNNNTTC	1 cut(s)	617
ZrmI	AGTACT	1 cut(s)	628

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