Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001972

Physical Location & Seq

Genomic Coordinates Forward (+)

45069661 .. 45121510

Gene Structure 51850 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG312200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGGTTTCCCTTCTCTCACTTTCTCACAATTTCTTCTCCAAAGGGTATTTGTCTGTGAGCCCAAGTCAGAGGTCAGTTTGTCGCTTTGTGCTTAAATTTTGGGCATTAGTATCAAGTTCTATGAGCTATTGGTATCTAAACCTTAGATTAAATTACTTGGGAATAAATGATTATCAGTATCTTACTTTTTATTGTCGATTATATGCAATGGAGCGAGGGTTGAAGATTCCTCAGAACAAGTGCACCAAGACCACCAATTCCCTCCTGATTTCACTCATGAAGCAGCTTGAAAAGAAAACAAGAGTACTTATATATTTCGGCAATGTCAGGGGGTTCTTGTCCGCTTCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0002376 GO:0002831 GO:0002833 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005768 GO:0005770 GO:0005771 GO:0006810 GO:0006950 GO:0006952 GO:0006955 GO:0007275 GO:0008150 GO:0009605 GO:0009607 GO:0009791 GO:0009814 GO:0009845 GO:0010154 GO:0012505 GO:0016192 GO:0022414 GO:0031347 GO:0031349 GO:0031410 GO:0031982 GO:0032101 GO:0032103 GO:0032501 GO:0032502 GO:0032504 GO:0032879 GO:0042802 GO:0042803 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043900 GO:0043902 GO:0044424 GO:0044444 GO:0044464 GO:0045087 GO:0046983 GO:0048316 GO:0048518 GO:0048583 GO:0048584 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0050789 GO:0050896 GO:0051049 GO:0051179 GO:0051234 GO:0051704 GO:0051707 GO:0061458 GO:0065007 GO:0080001 GO:0080134 GO:0090351 GO:0097708 GO:0098542 GO:1900424 GO:1900426 GO:1903335

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

Vta1

Protein Analysis

116

Amino Acids

13.55

Weight (kDa)

9.97

Isoelectric Point (pI)

33.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Vta1	PF04652	61 - 99	1.7e-06	Vta1 like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001972)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15190
fragaria_vesca	FvH4_3g19430
malus_domestica	MD03G1232600.v1.1 MD11G1253300.v1.1
prunus_persica	Prupe.4G176000_v2.0.a1
pyrus_communis	pycom03g17940 pycom11g22450
rosa_chinensis	RchiOBHm_Chr5g0032711
rosa_laevigata	RLG00000022904 RLG00000033418
rosa_multiflora	Rmu_sc0002292.1_g000007 Rmu_ssc0000242.1_g000013
rosa_roxburghii	Rroxscaffold_1G00047390 Rroxscaffold_1G00047850 Rroxscaffold_2G00126870
rosa_rugosa	Rorug01G0128400 Rorug04G0017100 Rorug05G0133200 Rorug05G0268300 Rorug05G0268400 Rorug05G0268500
rosa_samantha	Rh1DG018700 Rh1DG018800 Rh2AG155500 Rh2BG161800 Rh2BG417900 Rh2DG161100 Rh4CG241300 Rh4CG241400 Rh4DG279300 Rh5AG225700 Rh5AG312200 Rh5AG344000 Rh5AG482400 Rh5AG537200 Rh5BG226900 Rh5BG388200 Rh5BG503200 Rh5CG214800 Rh5CG254500 Rh5CG275300 Rh5CG360900 Rh5CG526500 Rh5DG231500
rosa_wichuraiana	Rw5G020690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	342
AcsI	RAATTY	1 cut(s)	95
AfaI	GTAC	1 cut(s)	306
AgsI	TTSAA	2 cut(s)	223, 290
AluBI	AGCT	2 cut(s)	126, 286
AluI	AGCT	2 cut(s)	126, 286
Alw21I	GWGCWC	1 cut(s)	245
Alw44I	GTGCAC	1 cut(s)	241
ApaLI	GTGCAC	1 cut(s)	241
ApeKI	GCWGC	1 cut(s)	283
ApoI	RAATTY	1 cut(s)	95
BaeGI	GKGCMC	1 cut(s)	245
BanII	GRGCYC	1 cut(s)	62
Bbv12I	GWGCWC	1 cut(s)	245
BbvI	GCAGC	1 cut(s)	295
BisI	GCNGC	1 cut(s)	284
BlsI	GCNGC	1 cut(s)	285
BmcAI	AGTACT	1 cut(s)	306
BsaXI	ACNNNNNCTCC	2 cut(s)	203, 233
Bse3DI	GCAATG	2 cut(s)	213, 328
BseMI	GCAATG	2 cut(s)	213, 328
BseMII	CTCAG	1 cut(s)	245
BseSI	GKGCMC	1 cut(s)	245
BseXI	GCAGC	1 cut(s)	295
BsiHKAI	GWGCWC	1 cut(s)	245
Bsp1286I	GDGCHC	2 cut(s)	62, 245
BspACI	CCGC	1 cut(s)	342
BspCNI	CTCAG	1 cut(s)	244
BspHI	TCATGA	1 cut(s)	276
BsrDI	GCAATG	2 cut(s)	213, 328
BstDEI	CTNAG	2 cut(s)	143, 231
BstSLI	GKGCMC	1 cut(s)	245
BstV1I	GCAGC	1 cut(s)	295
CciI	TCATGA	1 cut(s)	276
Csp6I	GTAC	1 cut(s)	305
CviAII	CATG	1 cut(s)	277
CviJI	RGCY	3 cut(s)	60, 126, 286
CviKI_1	RGCY	3 cut(s)	60, 126, 286
CviQI	GTAC	1 cut(s)	305
DdeI	CTNAG	2 cut(s)	143, 231
Eco24I	GRGCYC	1 cut(s)	62
EcoT38I	GRGCYC	1 cut(s)	62
FaeI	CATG	1 cut(s)	280
FaiI	YATR	6 cut(s)	122, 202, 204, 278, 311, 313
FatI	CATG	1 cut(s)	276
Fnu4HI	GCNGC	1 cut(s)	284
FriOI	GRGCYC	1 cut(s)	62
Fsp4HI	GCNGC	1 cut(s)	284
GluI	GCNGC	1 cut(s)	284
Hin1II	CATG	1 cut(s)	280
HinfI	GANTC	1 cut(s)	226
Hpy166II	GTNNAC	1 cut(s)	243
Hpy188I	TCNGA	2 cut(s)	69, 234
Hpy188III	TCNNGA	3 cut(s)	265, 277, 348
Hpy8I	GTNNAC	1 cut(s)	243
HpyAV	CCTTC	1 cut(s)	20
HpyCH4V	TGCA	2 cut(s)	206, 243
HpyF3I	CTNAG	2 cut(s)	143, 231
Hsp92II	CATG	1 cut(s)	280
LmnI	GCTCC	1 cut(s)	211
LpnPI	CCDG	2 cut(s)	278, 313
Lsp1109I	GCAGC	1 cut(s)	295
MboII	GAAGA	2 cut(s)	25, 235
MhlI	GDGCHC	2 cut(s)	62, 245
MluCI	AATT	4 cut(s)	28, 95, 151, 256
MnlI	CCTC	4 cut(s)	63, 209, 240, 272
MseI	TTAA	2 cut(s)	93, 149
NlaIII	CATG	1 cut(s)	280
PagI	TCATGA	1 cut(s)	276
PfeI	GAWTC	1 cut(s)	226
PkrI	GCNGC	1 cut(s)	285
RsaI	GTAC	1 cut(s)	306
RsaNI	GTAC	1 cut(s)	305
SaqAI	TTAA	2 cut(s)	93, 149
SatI	GCNGC	1 cut(s)	284
ScaI	AGTACT	1 cut(s)	306
SduI	GDGCHC	2 cut(s)	62, 245
SetI	ASST	4 cut(s)	74, 128, 144, 288
Sse9I	AATT	4 cut(s)	28, 95, 151, 256
SsiI	CCGC	1 cut(s)	342
TaqI	TCGA	1 cut(s)	196
TasI	AATT	4 cut(s)	28, 95, 151, 256
TatI	WGTACW	1 cut(s)	304
TfiI	GAWTC	1 cut(s)	226
Tru1I	TTAA	2 cut(s)	93, 149
Tru9I	TTAA	2 cut(s)	93, 149
TseI	GCWGC	1 cut(s)	283
TspDTI	ATGAA	1 cut(s)	293
VneI	GTGCAC	1 cut(s)	241
XapI	RAATTY	1 cut(s)	95
ZrmI	AGTACT	1 cut(s)	306

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