Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0000370

Physical Location & Seq

Genomic Coordinates Forward (+)

46807627 .. 46810843

Gene Structure 3217 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG335800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 513 bp

ATGGAATCAATGCCTTACCCAGAGTATGAGAAGAAGTTTGAGTCACTATCAAGGCTTGCTCCACATCTTGTGGATACTGAGGAGAGCAAAGCAAGGAGATTTGTGCAAGGTCTTAGGTCAGATATCAAGAGAGCTGTGGAAGTCCTTGATTTGCTTACATACGTAGAAGTGGTAAGAAGAGCTCAAATTGTTGCTAAGCATGATGTGCCGGTGGCTACTAGAGAGATAATTGACAAAGACAAGGGTCCAGTACAAAAGAGACCATGTGAAAGTGGTGGCCAAGTAGTGGTCCAAATTCAGGTTGGAGGAAATAAGAGGCCTAGAACTTGTGACGTAAGTAGGGGACACTTCACACAAAACTGCCCTGACACGAAGAATGGTCAGGAGGATACTCACACCAATAACAAGACTTCAGGAAGGGTTTTTGCACTATCAAAGAAGGAGGCTAAAGCATCGCCATCTGGGGTGGCAGGGAAACTTAAAATCTCTGAACTTGCTAAAACAATCAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000943 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003887 GO:0003964 GO:0004518 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006278 GO:0006508 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0018130 GO:0019438 GO:0019538 GO:0032196 GO:0032197 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071897 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140096 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901564 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RVP_2 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

170

Amino Acids

18.91

Weight (kDa)

9.56

Isoelectric Point (pI)

45.76

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000370)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica	MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica	Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis	pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis	RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata	RLG00000029892
rosa_multiflora	Rmu_sc0001866.1_g000007
rosa_roxburghii	Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa	Rorug05G0160500 Rorug06G0096500
rosa_samantha	Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana	Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	286
AcoI	YGGCCR	1 cut(s)	277
AcsI	RAATTY	1 cut(s)	294
AcuI	CTGAAG	1 cut(s)	396
AfaI	GTAC	1 cut(s)	252
AfiI	CCNNNNNNNGG	2 cut(s)	286, 298
AluBI	AGCT	2 cut(s)	134, 182
AluI	AGCT	2 cut(s)	134, 182
Alw21I	GWGCWC	1 cut(s)	184
Alw26I	GTCTC	1 cut(s)	253
AoxI	GGCC	2 cut(s)	277, 317
ApoI	RAATTY	1 cut(s)	294
AspS9I	GGNCC	2 cut(s)	245, 289
AvaII	GGWCC	2 cut(s)	245, 289
BalI	TGGCCA	1 cut(s)	279
BanII	GRGCYC	1 cut(s)	184
Bbv12I	GWGCWC	1 cut(s)	184
BccI	CCATC	1 cut(s)	466
BciVI	GTATCC	2 cut(s)	67, 382
BcoDI	GTCTC	1 cut(s)	253
BfaI	CTAG	2 cut(s)	219, 321
BfuI	GTATCC	2 cut(s)	67, 382
BlpI	GCTNAGC	1 cut(s)	195
Bme18I	GGWCC	2 cut(s)	245, 289
BmgT120I	GGNCC	2 cut(s)	245, 289
BmiI	GGNNCC	1 cut(s)	246
BmsI	GCATC	1 cut(s)	461
BoxI	GACNNNNGTC	1 cut(s)	243
Bpu1102I	GCTNAGC	1 cut(s)	195
BsaAI	YACGTR	1 cut(s)	163
BsaI	GGTCTC	1 cut(s)	253
Bsc4I	CCNNNNNNNGG	2 cut(s)	286, 298
Bse118I	RCCGGY	1 cut(s)	208
Bse1I	ACTGG	1 cut(s)	248
BseLI	CCNNNNNNNGG	2 cut(s)	286, 298
BseMII	CTCAG	1 cut(s)	69
BseNI	ACTGG	1 cut(s)	248
BseRI	GAGGAG	1 cut(s)	95
BshFI	GGCC	2 cut(s)	279, 319
BsiHKAI	GWGCWC	1 cut(s)	184
BsiSI	CCGG	1 cut(s)	209
BslFI	GGGAC	1 cut(s)	357
BslI	CCNNNNNNNGG	2 cut(s)	286, 298
BsmAI	GTCTC	1 cut(s)	253
BsmFI	GGGAC	1 cut(s)	357
BsnI	GGCC	2 cut(s)	279, 319
Bso31I	GGTCTC	1 cut(s)	253
Bsp1286I	GDGCHC	1 cut(s)	184
Bsp1720I	GCTNAGC	1 cut(s)	195
BspANI	GGCC	2 cut(s)	279, 319
BspCNI	CTCAG	1 cut(s)	70
BspLI	GGNNCC	1 cut(s)	246
BspQI	GCTCTTC	1 cut(s)	172
BspTNI	GGTCTC	1 cut(s)	253
BsrFI	RCCGGY	1 cut(s)	208
BsrI	ACTGG	1 cut(s)	248
BssAI	RCCGGY	1 cut(s)	208
Bst6I	CTCTTC	1 cut(s)	172
BstAPI	GCANNNNNTGC	1 cut(s)	205
BstBAI	YACGTR	1 cut(s)	163
BstC8I	GCNNGC	1 cut(s)	57
BstDEI	CTNAG	3 cut(s)	78, 113, 195
BstMAI	GTCTC	1 cut(s)	253
BstMWI	GCNNNNNNNGC	1 cut(s)	205
BstPAI	GACNNNNGTC	1 cut(s)	243
BstSNI	TACGTA	1 cut(s)	163
BsuI	GTATCC	2 cut(s)	67, 382
BsuRI	GGCC	2 cut(s)	279, 319
BtgZI	GCGATG	1 cut(s)	438
Cac8I	GCNNGC	1 cut(s)	57
Cfr10I	RCCGGY	1 cut(s)	208
Cfr13I	GGNCC	2 cut(s)	245, 289
Csp6I	GTAC	1 cut(s)	251
CviAII	CATG	2 cut(s)	200, 264
CviJI	RGCY	7 cut(s)	55, 134, 182, 215, 279, 319, 446
CviKI_1	RGCY	7 cut(s)	55, 134, 182, 215, 279, 319, 446
CviQI	GTAC	1 cut(s)	251
DdeI	CTNAG	3 cut(s)	78, 113, 195
EaeI	YGGCCR	1 cut(s)	277
Eam1104I	CTCTTC	1 cut(s)	172
EarI	CTCTTC	1 cut(s)	172
Ecl136II	GAGCTC	1 cut(s)	182
Eco105I	TACGTA	1 cut(s)	163
Eco147I	AGGCCT	1 cut(s)	319
Eco24I	GRGCYC	1 cut(s)	184
Eco31I	GGTCTC	1 cut(s)	253
Eco32I	GATATC	1 cut(s)	124
Eco47I	GGWCC	2 cut(s)	245, 289
Eco53kI	GAGCTC	1 cut(s)	182
Eco57I	CTGAAG	1 cut(s)	396
EcoICRI	GAGCTC	1 cut(s)	182
EcoRV	GATATC	1 cut(s)	124
EcoT38I	GRGCYC	1 cut(s)	184
FaeI	CATG	2 cut(s)	203, 267
FaiI	YATR	4 cut(s)	27, 160, 201, 265
FaqI	GGGAC	1 cut(s)	357
FatI	CATG	2 cut(s)	199, 263
FriOI	GRGCYC	1 cut(s)	184
FspBI	CTAG	2 cut(s)	219, 321
HaeIII	GGCC	2 cut(s)	279, 319
HapII	CCGG	1 cut(s)	209
Hin1II	CATG	2 cut(s)	203, 267
HinfI	GANTC	2 cut(s)	5, 41
HpaII	CCGG	1 cut(s)	209
Hpy188I	TCNGA	2 cut(s)	121, 490
Hpy188III	TCNNGA	3 cut(s)	127, 383, 414
HpyAV	CCTTC	2 cut(s)	411, 433
HpyCH4IV	ACGT	2 cut(s)	162, 333
HpyCH4V	TGCA	2 cut(s)	106, 428
HpyF10VI	GCNNNNNNNGC	1 cut(s)	205
HpyF3I	CTNAG	3 cut(s)	78, 113, 195
HpySE526I	ACGT	2 cut(s)	162, 333
Hsp92II	CATG	2 cut(s)	203, 267
LguI	GCTCTTC	1 cut(s)	172
LmnI	GCTCC	1 cut(s)	64
LpnPI	CCDG	9 cut(s)	33, 222, 261, 284, 368, 378, 399, 447, 456
LweI	GCATC	1 cut(s)	461
MaeI	CTAG	2 cut(s)	219, 321
MaeII	ACGT	2 cut(s)	162, 333
MaeIII	GTNAC	2 cut(s)	42, 329
MboII	GAAGA	3 cut(s)	43, 189, 385
MhlI	GDGCHC	1 cut(s)	184
MlsI	TGGCCA	1 cut(s)	279
MluCI	AATT	3 cut(s)	186, 228, 294
MluNI	TGGCCA	1 cut(s)	279
MlyI	GAGTC	1 cut(s)	50
MmeI	TCCRAC	1 cut(s)	283
MnlI	CCTC	5 cut(s)	73, 299, 309, 379, 436
Mox20I	TGGCCA	1 cut(s)	279
MscI	TGGCCA	1 cut(s)	279
MseI	TTAA	1 cut(s)	480
Msp20I	TGGCCA	1 cut(s)	279
MspI	CCGG	1 cut(s)	209
MwoI	GCNNNNNNNGC	1 cut(s)	205
NlaIII	CATG	2 cut(s)	203, 267
NlaIV	GGNNCC	1 cut(s)	246
NmuCI	GTSAC	2 cut(s)	42, 329
PceI	AGGCCT	1 cut(s)	319
PciSI	GCTCTTC	1 cut(s)	172
PfeI	GAWTC	1 cut(s)	5
PflMI	CCANNNNNTGG	1 cut(s)	286
PleI	GAGTC	1 cut(s)	49
PpsI	GAGTC	1 cut(s)	49
Ppu21I	YACGTR	1 cut(s)	163
PshAI	GACNNNNGTC	1 cut(s)	243
Psp124BI	GAGCTC	1 cut(s)	184
PspN4I	GGNNCC	1 cut(s)	246
PspPI	GGNCC	2 cut(s)	245, 289
RsaI	GTAC	1 cut(s)	252
RsaNI	GTAC	1 cut(s)	251
SacI	GAGCTC	1 cut(s)	184
SapI	GCTCTTC	1 cut(s)	172
SaqAI	TTAA	1 cut(s)	480
Sau96I	GGNCC	2 cut(s)	245, 289
SchI	GAGTC	1 cut(s)	50
SduI	GDGCHC	1 cut(s)	184
SetI	ASST	7 cut(s)	112, 119, 136, 165, 184, 303, 336
SfaNI	GCATC	1 cut(s)	461
SinI	GGWCC	2 cut(s)	245, 289
SnaBI	TACGTA	1 cut(s)	163
Sse9I	AATT	3 cut(s)	186, 228, 294
SseBI	AGGCCT	1 cut(s)	319
SspMI	CTAG	2 cut(s)	219, 321
SstI	GAGCTC	1 cut(s)	184
StuI	AGGCCT	1 cut(s)	319
TaiI	ACGT	2 cut(s)	165, 336
TasI	AATT	3 cut(s)	186, 228, 294
TatI	WGTACW	1 cut(s)	250
TfiI	GAWTC	1 cut(s)	5
Tru1I	TTAA	1 cut(s)	480
Tru9I	TTAA	1 cut(s)	480
TseFI	GTSAC	2 cut(s)	42, 329
Tsp45I	GTSAC	2 cut(s)	42, 329
Van91I	CCANNNNNTGG	1 cut(s)	286
VpaK11BI	GGWCC	2 cut(s)	245, 289
XapI	RAATTY	1 cut(s)	294
XcmI	CCANNNNNNNNNTGG	1 cut(s)	299
XspI	CTAG	2 cut(s)	219, 321

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