Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0000411

Physical Location & Seq

Genomic Coordinates Reverse (-)

66449307 .. 66449900

Gene Structure 594 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG409800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGGAAGACCATACGGACGAAGACAACCTCTGCTCCATTCTCTCCGACCTGCTCAGGCACCTCAGGGTGGCCAAAACCCTCGACTCCGACCACGACATGGCCTTCAATCTCCAACTGCAGGAAGCCATGGCCGACTCTCTCGCTCTCCAACCACCATCCACTTCTCAACTCAATCTCCACCCTCGGATTCACGACCACAATTTCGTAATCGACCTCACCGACTCGGCGGAGGCCTACTGCACGAACGACGCGTCGTCGTCCTCGTCGAAGGCGGCGGAGGAGGAGAGCGAGTGTTTTAGACTGTATTTCAAGGGGCTTGTAAGCGAGGAGAGGGTCAAGGACATGGATGTCATTGTGGCCGGGGTTGGGGCGGCCGTTTGTGACGCTAGAGATAATCTGATTTTGGAGGCCAAGAAGAATCTGGAGGTGTTTGGTGGTGGTGAGGTTCTGAGCAATGAGGCTGCTGAGCTTGAGGCTCTTATTGAAGGGCTCAGTACAGCTCTCGCTCTGGACTTGAGAAATGTCACATTTTTCTGTGATGACAGCAAGCTTTACCAATATGTGAGTTTTACTATTTTGCCATTCAAATATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000209 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009653 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010604 GO:0016567 GO:0016740 GO:0019222 GO:0019538 GO:0019787 GO:0019899 GO:0030154 GO:0030162 GO:0030435 GO:0031323 GO:0031325 GO:0031329 GO:0031331 GO:0031624 GO:0032268 GO:0032270 GO:0032434 GO:0032436 GO:0032446 GO:0032502 GO:0032991 GO:0036211 GO:0042176 GO:0043170 GO:0043412 GO:0043934 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044390 GO:0044424 GO:0044464 GO:0045732 GO:0045862 GO:0048518 GO:0048522 GO:0048646 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0061136 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1901800 GO:1902494 GO:1903050 GO:1903052 GO:1903362 GO:1903364 GO:1990234 GO:2000058 GO:2000060

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

IBR RVT_3 zf-C3HC4

Protein Analysis

197

Amino Acids

21.81

Weight (kDa)

4.39

Isoelectric Point (pI)

52.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	120 - 188	3.1e-09	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000411)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G45470 AT3G45555 AT5G60250
fragaria_vesca	FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33470 FvH4_3g33471 FvH4_3g33480 FvH4_3g33480
malus_domestica	MD03G1130800.v1.1 MD11G1125600.v1.1 MD11G1125700.v1.1 MD11G1125800.v1.1 MD11G1126100.v1.1 MD11G1152600.v1.1
prunus_persica	Prupe.6G094100_v2.0.a1 Prupe.6G094100_v2.0.a1 Prupe.6G094200_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G115600_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1
pyrus_communis	pycom11g10590 pycom11g10600 pycom11g10620 pycom11g10640 pycom11g12510
rosa_chinensis	RchiOBHm_Chr5g0060811 RchiOBHm_Chr5g0060821 RchiOBHm_Chr5g0060851 RchiOBHm_Chr5g0060881 RchiOBHm_Chr5g0060891
rosa_laevigata	RLG00000035404 RLG00000035405 RLG00000035407 RLG00000035408
rosa_multiflora	Rmu_sc0000420.1_g000048 Rmu_sc0000420.1_g000049 Rmu_sc0000727.1_g000006 Rmu_sc0000727.1_g000007 Rmu_sc0000727.1_g000024 Rmu_sc0000727.1_g000025 Rmu_sc0024212.1_g000001 Rmu_sc0024212.1_g000003 Rmu_sc0027900.1_g000003 Rmu_sc0030258.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019780 Rroxscaffold_1G00019790 Rroxscaffold_1G00019800 Rroxscaffold_1G00019810 Rroxscaffold_1G00019820 Rroxscaffold_1G00019840 Rroxscaffold_1G00019850
rosa_rugosa	Rorug05G0334200 Rorug05G0334300 Rorug05G0334400 Rorug05G0334500 Rorug05G0334600 Rorug05G0334700
rosa_samantha	Rh4BG359600 Rh4CG373900 Rh5AG397000 Rh5AG397100 Rh5AG397200 Rh5AG397300 Rh5AG397400 Rh5AG397500 Rh5AG397600 Rh5AG397700 Rh5BG409300 Rh5BG409400 Rh5BG409800 Rh5BG409900 Rh5BG410000 Rh5BG410100 Rh5CG434100 Rh5CG434200 Rh5CG434600 Rh5CG434700 Rh5CG434800 Rh5CG434900 Rh5CG435000 Rh5DG424100 Rh5DG424200 Rh5DG424400 Rh5DG424500 Rh5DG424600 Rh5DG424800
rosa_wichuraiana	Rw5G037420 Rw5G037430 Rw5G037480 Rw5G037490 Rw5G037500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	347
Acc36I	ACCTGC	1 cut(s)	57
AccB1I	GGYRCC	1 cut(s)	57
AccB7I	CCANNNNNTGG	1 cut(s)	97
AccII	CGCG	1 cut(s)	251
AciI	CCGC	4 cut(s)	227, 272, 275, 371
AcoI	YGGCCR	4 cut(s)	69, 129, 357, 372
AfaI	GTAC	1 cut(s)	496
AfiI	CCNNNNNNNGG	4 cut(s)	67, 97, 118, 366
AflIII	ACRYGT	1 cut(s)	249
AgsI	TTSAA	4 cut(s)	106, 310, 485, 586
AhdI	GACNNNNNGTC	1 cut(s)	253
AluBI	AGCT	3 cut(s)	469, 500, 550
AluI	AGCT	3 cut(s)	469, 500, 550
AoxI	GGCC	7 cut(s)	69, 99, 129, 231, 357, 372, 408
ApeKI	GCWGC	1 cut(s)	461
ArsI	GACNNNNNNTTYG	4 cut(s)	185, 217, 236, 268
AsuC2I	CCSGG	1 cut(s)	361
AsuHPI	GGTGA	2 cut(s)	208, 452
AxyI	CCTNAGG	1 cut(s)	62
BalI	TGGCCA	1 cut(s)	71
BanI	GGYRCC	1 cut(s)	57
BanII	GRGCYC	1 cut(s)	492
BbsI	GAAGAC	2 cut(s)	12, 27
BbvI	GCAGC	1 cut(s)	448
BccI	CCATC	1 cut(s)	163
BceAI	ACGGC	1 cut(s)	359
BcnI	CCSGG	1 cut(s)	361
BfaI	CTAG	1 cut(s)	387
BfmI	CTRYAG	1 cut(s)	116
BfuAI	ACCTGC	1 cut(s)	57
BisI	GCNGC	3 cut(s)	273, 372, 462
BlpI	GCTNAGC	1 cut(s)	465
BlsI	GCNGC	3 cut(s)	274, 373, 463
Bme1390I	CCNGG	1 cut(s)	361
BmeRI	GACNNNNNGTC	1 cut(s)	253
BmiI	GGNNCC	1 cut(s)	59
BmrFI	CCNGG	1 cut(s)	361
BpiI	GAAGAC	2 cut(s)	12, 27
BpmI	CTGGAG	1 cut(s)	443
Bpu10I	CCTNAGC	1 cut(s)	53
Bpu1102I	GCTNAGC	1 cut(s)	465
BpuEI	CTTGAG	2 cut(s)	491, 535
BpuMI	CCSGG	1 cut(s)	361
BsaJI	CCNNGG	3 cut(s)	126, 182, 360
BsaXI	ACNNNNNCTCC	6 cut(s)	17, 47, 159, 189, 275, 305
Bsc4I	CCNNNNNNNGG	4 cut(s)	67, 97, 118, 366
Bse21I	CCTNAGG	1 cut(s)	62
Bse3DI	GCAATG	1 cut(s)	460
BseDI	CCNNGG	3 cut(s)	126, 182, 360
BseGI	GGATG	2 cut(s)	155, 352
BseLI	CCNNNNNNNGG	4 cut(s)	67, 97, 118, 366
BseMI	GCAATG	1 cut(s)	460
BseMII	CTCAG	5 cut(s)	67, 76, 440, 456, 505
BseRI	GAGGAG	3 cut(s)	293, 296, 341
BseX3I	CGGCCG	1 cut(s)	372
BseXI	GCAGC	1 cut(s)	448
BsgI	GTGCAG	1 cut(s)	223
Bsh1236I	CGCG	1 cut(s)	251
Bsh1285I	CGRYCG	1 cut(s)	375
BshFI	GGCC	7 cut(s)	71, 101, 131, 233, 359, 374, 410
BshNI	GGYRCC	1 cut(s)	57
BsiEI	CGRYCG	1 cut(s)	375
BsiSI	CCGG	1 cut(s)	360
BslI	CCNNNNNNNGG	4 cut(s)	67, 97, 118, 366
BsnI	GGCC	7 cut(s)	71, 101, 131, 233, 359, 374, 410
Bsp1286I	GDGCHC	1 cut(s)	492
Bsp1720I	GCTNAGC	1 cut(s)	465
Bsp19I	CCATGG	1 cut(s)	126
BspACI	CCGC	4 cut(s)	227, 272, 275, 371
BspANI	GGCC	7 cut(s)	71, 101, 131, 233, 359, 374, 410
BspCNI	CTCAG	5 cut(s)	66, 75, 441, 457, 504
BspFNI	CGCG	1 cut(s)	251
BspLI	GGNNCC	1 cut(s)	59
BspMAI	CTGCAG	1 cut(s)	120
BspMI	ACCTGC	1 cut(s)	57
BspT107I	GGYRCC	1 cut(s)	57
BsrDI	GCAATG	1 cut(s)	460
BssECI	CCNNGG	3 cut(s)	126, 182, 360
BssT1I	CCWWGG	1 cut(s)	126
Bst4CI	ACNGT	1 cut(s)	303
BstC8I	GCNNGC	1 cut(s)	548
BstDEI	CTNAG	5 cut(s)	53, 62, 449, 465, 491
BstDSI	CCRYGG	1 cut(s)	126
BstF5I	GGATG	2 cut(s)	155, 352
BstFNI	CGCG	1 cut(s)	251
BstMCI	CGRYCG	1 cut(s)	375
BstSCI	CCNGG	1 cut(s)	359
BstSFI	CTRYAG	1 cut(s)	116
BstUI	CGCG	1 cut(s)	251
BstV1I	GCAGC	1 cut(s)	448
BstV2I	GAAGAC	2 cut(s)	12, 27
BstZI	CGGCCG	1 cut(s)	372
Bsu36I	CCTNAGG	1 cut(s)	62
BsuRI	GGCC	7 cut(s)	71, 101, 131, 233, 359, 374, 410
BtgI	CCRYGG	1 cut(s)	126
BtsCI	GGATG	2 cut(s)	155, 352
BveI	ACCTGC	1 cut(s)	57
Cac8I	GCNNGC	1 cut(s)	548
CseI	GACGC	3 cut(s)	240, 257, 392
Csp6I	GTAC	1 cut(s)	495
CviAII	CATG	3 cut(s)	97, 127, 343
CviQI	GTAC	1 cut(s)	495
DdeI	CTNAG	5 cut(s)	53, 62, 449, 465, 491
DrdI	GACNNNNNNGTC	1 cut(s)	347
DriI	GACNNNNNGTC	1 cut(s)	253
DseDI	GACNNNNNNGTC	1 cut(s)	347
EaeI	YGGCCR	4 cut(s)	69, 129, 357, 372
EagI	CGGCCG	1 cut(s)	372
Eam1105I	GACNNNNNGTC	1 cut(s)	253
EciI	GGCGGA	2 cut(s)	242, 290
EclXI	CGGCCG	1 cut(s)	372
Eco130I	CCWWGG	1 cut(s)	126
Eco147I	AGGCCT	1 cut(s)	233
Eco24I	GRGCYC	1 cut(s)	492
Eco52I	CGGCCG	1 cut(s)	372
Eco81I	CCTNAGG	1 cut(s)	62
EcoT14I	CCWWGG	1 cut(s)	126
EcoT38I	GRGCYC	1 cut(s)	492
ErhI	CCWWGG	1 cut(s)	126
FaeI	CATG	3 cut(s)	100, 130, 346
FaiI	YATR	5 cut(s)	12, 98, 128, 344, 561
FatI	CATG	3 cut(s)	96, 126, 342
Fnu4HI	GCNGC	3 cut(s)	273, 372, 462
FokI	GGATG	2 cut(s)	142, 359
FriOI	GRGCYC	1 cut(s)	492
Fsp4HI	GCNGC	3 cut(s)	273, 372, 462
FspBI	CTAG	1 cut(s)	387
GluI	GCNGC	3 cut(s)	273, 372, 462
GsuI	CTGGAG	1 cut(s)	443
HaeIII	GGCC	7 cut(s)	71, 101, 131, 233, 359, 374, 410
HapII	CCGG	1 cut(s)	360
HgaI	GACGC	3 cut(s)	240, 257, 392
Hin1II	CATG	3 cut(s)	100, 130, 346
HindIII	AAGCTT	1 cut(s)	548
HinfI	GANTC	5 cut(s)	83, 134, 187, 221, 418
HpaII	CCGG	1 cut(s)	360
HphI	GGTGA	2 cut(s)	208, 452
Hpy188I	TCNGA	5 cut(s)	46, 88, 186, 399, 450
Hpy188III	TCNNGA	3 cut(s)	191, 422, 509
Hpy99I	CGWCG	4 cut(s)	251, 256, 259, 268
HpyAV	CCTTC	3 cut(s)	112, 262, 479
HpyCH4III	ACNGT	1 cut(s)	303
HpyCH4V	TGCA	2 cut(s)	118, 240
HpyF3I	CTNAG	5 cut(s)	53, 62, 449, 465, 491
Hsp92II	CATG	3 cut(s)	100, 130, 346
LmnI	GCTCC	1 cut(s)	38
LpnPI	CCDG	7 cut(s)	40, 49, 62, 104, 373, 407, 494
Lsp1109I	GCAGC	1 cut(s)	448
MaeI	CTAG	1 cut(s)	387
MaeIII	GTNAC	2 cut(s)	380, 523
MboII	GAAGA	3 cut(s)	17, 32, 427
MhlI	GDGCHC	1 cut(s)	492
MlsI	TGGCCA	1 cut(s)	71
MluCI	AATT	1 cut(s)	199
MluI	ACGCGT	1 cut(s)	249
MluNI	TGGCCA	1 cut(s)	71
MlyI	GAGTC	3 cut(s)	77, 128, 215
MmeI	TCCRAC	4 cut(s)	69, 111, 136, 172
Mox20I	TGGCCA	1 cut(s)	71
MscI	TGGCCA	1 cut(s)	71
Msp20I	TGGCCA	1 cut(s)	71
MspI	CCGG	1 cut(s)	360
MspR9I	CCNGG	1 cut(s)	361
MvnI	CGCG	1 cut(s)	251
NciI	CCSGG	1 cut(s)	361
NcoI	CCATGG	1 cut(s)	126
NlaIII	CATG	3 cut(s)	100, 130, 346
NlaIV	GGNNCC	1 cut(s)	59
NmeAIII	GCCGAG	1 cut(s)	203
NmuCI	GTSAC	2 cut(s)	380, 523
PceI	AGGCCT	1 cut(s)	233
PcsI	WCGNNNNNNNCGW	4 cut(s)	216, 248, 260, 263
PfeI	GAWTC	2 cut(s)	187, 418
PflMI	CCANNNNNTGG	1 cut(s)	97
PkrI	GCNGC	3 cut(s)	274, 373, 463
PleI	GAGTC	3 cut(s)	77, 128, 215
PpsI	GAGTC	3 cut(s)	77, 128, 215
PspN4I	GGNNCC	1 cut(s)	59
PstI	CTGCAG	1 cut(s)	120
RsaI	GTAC	1 cut(s)	496
RsaNI	GTAC	1 cut(s)	495
SatI	GCNGC	3 cut(s)	273, 372, 462
SchI	GAGTC	3 cut(s)	77, 128, 215
ScrFI	CCNGG	1 cut(s)	361
SduI	GDGCHC	1 cut(s)	492
SetI	ASST	9 cut(s)	30, 51, 63, 216, 429, 447, 471, 502, 552
SfcI	CTRYAG	1 cut(s)	116
SmlI	CTYRAG	2 cut(s)	470, 514
SmoI	CTYRAG	2 cut(s)	470, 514
Sse9I	AATT	1 cut(s)	199
SseBI	AGGCCT	1 cut(s)	233
SsiI	CCGC	4 cut(s)	227, 272, 275, 371
SspI	AATATT	1 cut(s)	590
SspMI	CTAG	1 cut(s)	387
StuI	AGGCCT	1 cut(s)	233
StyD4I	CCNGG	1 cut(s)	359
StyI	CCWWGG	1 cut(s)	126
TaaI	ACNGT	1 cut(s)	303
TaqI	TCGA	3 cut(s)	81, 210, 266
TasI	AATT	1 cut(s)	199
TatI	WGTACW	1 cut(s)	494
TauI	GCSGC	2 cut(s)	275, 374
TfiI	GAWTC	2 cut(s)	187, 418
TseFI	GTSAC	2 cut(s)	380, 523
TseI	GCWGC	1 cut(s)	461
Tsp45I	GTSAC	2 cut(s)	380, 523
TspGWI	ACGGA	1 cut(s)	29
Van91I	CCANNNNNTGG	1 cut(s)	97
XcmI	CCANNNNNNNNNTGG	1 cut(s)	418
XspI	CTAG	1 cut(s)	387

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