Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0000756

Physical Location & Seq

Genomic Coordinates Forward (+)

43027242 .. 43028114

Gene Structure 873 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G028410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 621 bp

ATGCCTGAGAGCATTATCACTCTTTATGGAATTCCTCCTCCTCAAGTGAGAAAATATGTCCCTGGTAGTACTGCTGTTCATCAAGTGGATCTAGTACTGAGGAACAGAGATGAATTACTGAGCAAGCTCAAGTGTAACATGGAACAAGCTCAGGCCAGAATGAAGGTTTACTATGACAAACATCACACTGAAAGAGAGTTTGACATTGGTGATTGGGTATTCCTCAAATTGCAGCCATACAGACAAAAGTCAGTGCAGGTCAGGAAATCCCACAAATTGTCTCCAAAATACTTTGGTCCTTATCAGGTGATAGAAAAGATTGGTAAAGTGGCATACAAGTTAGAGCTCCCCGCTTCTGCAAGGGTGCATCCAGTGTTTCATGTATCTCTTCTAAAGAAGAAACTTGGAAGCTCAGTAGTTCCTTCTCCAACCTTACCTCCTAGTTTTGATTCCAACAAGAGCAATTGGGTTCCTGCTAAGGTGCTTCAGCGAGCTTTATTCAAGAAGGGTAACAAACCTGAGGTGAGATGGTTGATTCAATGGAAGAATGGTTCAGAGGACGATGCCACGTGGGAATGTGCAGAAGAATTTCAGAAGCGTTTTCCAGATTTTAAGGGGTAA

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

Chromo RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

206

Amino Acids

23.87

Weight (kDa)

9.73

Isoelectric Point (pI)

45.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SH3_Tf2-1	PF24626	70 - 133	1.7e-26	Tf2-1-like, SH3 domain
Integrase_p58_C	PF22938	99 - 133	3.8e-06	Integrase p58, C-terminal domain

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: OG0000756)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00155
fragaria_vesca	FvH4_2g19791 FvH4_3g30422 FvH4_3g30933 FvH4_3g30934 FvH4_3g31635 FvH4_4g05353 FvH4_4g06571 FvH4_4g06572 FvH4_4g06573 FvH4_4g08682 FvH4_4g12501 FvH4_5g33111 FvH4_6g20641 FvH4_6g22262 FvH4_6g24731 FvH4_6g52751
pyrus_communis	pycom10g18150
rosa_chinensis	RchiOBHm_Chr1g0321671 RchiOBHm_Chr2g0126521 RchiOBHm_Chr3g0451511 RchiOBHm_Chr3g0473251 RchiOBHm_Chr4g0397431 RchiOBHm_Chr4g0399101 RchiOBHm_Chr4g0399111 RchiOBHm_Chr4g0414841 RchiOBHm_Chr5g0021471 RchiOBHm_Chr5g0021481 RchiOBHm_Chr5g0075951 RchiOBHm_Chr5g0078051 RchiOBHm_Chr6g0286161 RchiOBHm_Chr6g0286171 RchiOBHm_Chr7g0185771
rosa_laevigata	RLG00000010238 RLG00000030464
rosa_roxburghii	Rroxscaffold_1G00071870 Rroxscaffold_2G00080460 Rroxscaffold_2G00085610 Rroxscaffold_2G00093090 Rroxscaffold_2G00134320 Rroxscaffold_3G00238340 Rroxscaffold_3G00255160 Rroxscaffold_4G00280870 Rroxscaffold_6G00402930 Rroxscaffold_6G00428840 Rroxscaffold_7G00197340
rosa_samantha	Rh3CG229300 Rh7BG226300
rosa_wichuraiana	Rw0G002510 Rw0G003200 Rw0G021820 Rw0G023810 Rw1G014640 Rw2G004390 Rw2G007910 Rw2G018470 Rw2G037630 Rw2G044860 Rw2G053420 Rw3G002230 Rw3G028200 Rw4G004770 Rw4G006640 Rw5G005440 Rw5G024120 Rw5G028050 Rw5G028410 Rw6G004650 Rw6G019400 Rw7G026910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	247
AciI	CCGC	1 cut(s)	351
AclWI	GGATC	1 cut(s)	96
AcsI	RAATTY	2 cut(s)	30, 587
AcuI	CTGAAG	1 cut(s)	470
AcvI	CACGTG	1 cut(s)	570
AfaI	GTAC	2 cut(s)	70, 96
AgsI	TTSAA	2 cut(s)	502, 539
AjnI	CCWGG	1 cut(s)	61
AloI	GAACNNNNNNTCC	2 cut(s)	535, 567
AluBI	AGCT	5 cut(s)	127, 149, 346, 411, 494
AluI	AGCT	5 cut(s)	127, 149, 346, 411, 494
Alw21I	GWGCWC	1 cut(s)	348
Alw26I	GTCTC	1 cut(s)	285
AlwI	GGATC	1 cut(s)	96
AoxI	GGCC	1 cut(s)	153
ApeKI	GCWGC	1 cut(s)	232
ApoI	RAATTY	2 cut(s)	30, 587
Asp700I	GAANNNNTTC	1 cut(s)	588
AspS9I	GGNCC	1 cut(s)	296
AsuHPI	GGTGA	3 cut(s)	221, 319, 535
AvaII	GGWCC	1 cut(s)	296
AxyI	CCTNAGG	1 cut(s)	519
BanII	GRGCYC	1 cut(s)	348
BbrPI	CACGTG	1 cut(s)	570
Bbv12I	GWGCWC	1 cut(s)	348
BbvI	GCAGC	1 cut(s)	244
BccI	CCATC	1 cut(s)	522
BciT130I	CCWGG	1 cut(s)	63
BcoDI	GTCTC	1 cut(s)	285
BfaI	CTAG	2 cut(s)	92, 441
BfuAI	ACCTGC	1 cut(s)	247
BisI	GCNGC	1 cut(s)	233
BlsI	GCNGC	1 cut(s)	234
BmcAI	AGTACT	2 cut(s)	70, 96
Bme1390I	CCNGG	1 cut(s)	63
Bme18I	GGWCC	1 cut(s)	296
BmgT120I	GGNCC	1 cut(s)	296
BmiI	GGNNCC	1 cut(s)	471
BmrFI	CCNGG	1 cut(s)	63
BmsI	GCATC	2 cut(s)	376, 553
BoxI	GACNNNNGTC	1 cut(s)	247
Bpu10I	CCTNAGC	2 cut(s)	150, 477
BpuEI	CTTGAG	2 cut(s)	27, 113
BsaAI	YACGTR	1 cut(s)	570
BsaJI	CCNNGG	1 cut(s)	61
BsaXI	ACNNNNNCTCC	2 cut(s)	421, 451
Bse1I	ACTGG	1 cut(s)	371
Bse21I	CCTNAGG	1 cut(s)	519
BseBI	CCWGG	1 cut(s)	63
BseDI	CCNNGG	1 cut(s)	61
BseGI	GGATG	1 cut(s)	367
BseMII	CTCAG	5 cut(s)	89, 110, 164, 426, 510
BseNI	ACTGG	1 cut(s)	371
BseRI	GAGGAG	2 cut(s)	27, 30
BseXI	GCAGC	1 cut(s)	244
BsgI	GTGCAG	2 cut(s)	275, 600
BshFI	GGCC	1 cut(s)	155
BsiHKAI	GWGCWC	1 cut(s)	348
BslFI	GGGAC	1 cut(s)	44
BsmAI	GTCTC	1 cut(s)	285
BsmFI	GGGAC	1 cut(s)	44
BsnI	GGCC	1 cut(s)	155
Bsp1286I	GDGCHC	1 cut(s)	348
Bsp143I	GATC	1 cut(s)	88
BspACI	CCGC	1 cut(s)	351
BspANI	GGCC	1 cut(s)	155
BspCNI	CTCAG	5 cut(s)	90, 111, 163, 425, 511
BspLI	GGNNCC	1 cut(s)	471
BspMI	ACCTGC	1 cut(s)	247
BspPI	GGATC	1 cut(s)	96
BsrI	ACTGG	1 cut(s)	371
BssECI	CCNNGG	1 cut(s)	61
BssMI	GATC	1 cut(s)	88
Bst2UI	CCWGG	1 cut(s)	63
Bst6I	CTCTTC	1 cut(s)	393
BstBAI	YACGTR	1 cut(s)	570
BstC8I	GCNNGC	2 cut(s)	125, 492
BstDEI	CTNAG	7 cut(s)	6, 98, 119, 150, 412, 477, 519
BstF5I	GGATG	1 cut(s)	367
BstKTI	GATC	1 cut(s)	91
BstMAI	GTCTC	1 cut(s)	285
BstMBI	GATC	1 cut(s)	88
BstNI	CCWGG	1 cut(s)	63
BstPAI	GACNNNNGTC	1 cut(s)	247
BstSCI	CCNGG	1 cut(s)	61
BstV1I	GCAGC	1 cut(s)	244
BstX2I	RGATCY	1 cut(s)	88
BstYI	RGATCY	1 cut(s)	88
Bsu36I	CCTNAGG	1 cut(s)	519
BsuRI	GGCC	1 cut(s)	155
BtsCI	GGATG	1 cut(s)	367
BtsIMutI	CAGTG	3 cut(s)	186, 258, 378
BveI	ACCTGC	1 cut(s)	247
Cac8I	GCNNGC	2 cut(s)	125, 492
Cfr13I	GGNCC	1 cut(s)	296
Csp6I	GTAC	2 cut(s)	69, 95
CviAII	CATG	2 cut(s)	139, 380
CviJI	RGCY	7 cut(s)	127, 149, 155, 235, 346, 411, 494
CviKI_1	RGCY	7 cut(s)	127, 149, 155, 235, 346, 411, 494
CviQI	GTAC	2 cut(s)	69, 95
DdeI	CTNAG	7 cut(s)	6, 98, 119, 150, 412, 477, 519
DpnI	GATC	1 cut(s)	90
DpnII	GATC	1 cut(s)	88
Eam1104I	CTCTTC	1 cut(s)	393
EarI	CTCTTC	1 cut(s)	393
Ecl136II	GAGCTC	1 cut(s)	346
Eco24I	GRGCYC	1 cut(s)	348
Eco47I	GGWCC	1 cut(s)	296
Eco53kI	GAGCTC	1 cut(s)	346
Eco57I	CTGAAG	1 cut(s)	470
Eco72I	CACGTG	1 cut(s)	570
Eco81I	CCTNAGG	1 cut(s)	519
EcoICRI	GAGCTC	1 cut(s)	346
EcoRI	GAATTC	1 cut(s)	30
EcoRII	CCWGG	1 cut(s)	61
EcoT38I	GRGCYC	1 cut(s)	348
FaeI	CATG	2 cut(s)	142, 383
FaiI	YATR	7 cut(s)	27, 57, 140, 174, 238, 334, 381
FaqI	GGGAC	1 cut(s)	44
FatI	CATG	2 cut(s)	138, 379
FauI	CCCGC	1 cut(s)	358
Fnu4HI	GCNGC	1 cut(s)	233
FokI	GGATG	1 cut(s)	354
FriOI	GRGCYC	1 cut(s)	348
Fsp4HI	GCNGC	1 cut(s)	233
FspBI	CTAG	2 cut(s)	92, 441
GluI	GCNGC	1 cut(s)	233
HaeIII	GGCC	1 cut(s)	155
Hin1II	CATG	2 cut(s)	142, 383
HinfI	GANTC	2 cut(s)	449, 535
HphI	GGTGA	3 cut(s)	221, 319, 535
Hpy166II	GTNNAC	1 cut(s)	169
Hpy188I	TCNGA	2 cut(s)	556, 594
Hpy188III	TCNNGA	3 cut(s)	262, 502, 605
Hpy8I	GTNNAC	1 cut(s)	169
HpyAV	CCTTC	3 cut(s)	157, 432, 499
HpyCH4IV	ACGT	1 cut(s)	569
HpyCH4V	TGCA	5 cut(s)	232, 256, 359, 367, 581
HpyF3I	CTNAG	7 cut(s)	6, 98, 119, 150, 412, 477, 519
HpySE526I	ACGT	1 cut(s)	569
Hsp92II	CATG	2 cut(s)	142, 383
Kzo9I	GATC	1 cut(s)	88
LmnI	GCTCC	1 cut(s)	351
Lsp1109I	GCAGC	1 cut(s)	244
LweI	GCATC	2 cut(s)	376, 553
MaeI	CTAG	2 cut(s)	92, 441
MaeII	ACGT	1 cut(s)	569
MaeIII	GTNAC	2 cut(s)	134, 509
MalI	GATC	1 cut(s)	90
MboI	GATC	1 cut(s)	88
MboII	GAAGA	4 cut(s)	380, 409, 556, 596
MfeI	CAATTG	1 cut(s)	463
MflI	RGATCY	1 cut(s)	88
MhlI	GDGCHC	1 cut(s)	348
MluCI	AATT	6 cut(s)	30, 113, 227, 275, 463, 587
MmeI	TCCRAC	2 cut(s)	452, 477
MnlI	CCTC	8 cut(s)	45, 48, 51, 93, 233, 447, 514, 550
MroXI	GAANNNNTTC	1 cut(s)	588
MseI	TTAA	1 cut(s)	612
MspR9I	CCNGG	1 cut(s)	63
MunI	CAATTG	1 cut(s)	463
MvaI	CCWGG	1 cut(s)	63
NdeII	GATC	1 cut(s)	88
NlaIII	CATG	2 cut(s)	142, 383
NlaIV	GGNNCC	1 cut(s)	471
PdmI	GAANNNNTTC	1 cut(s)	588
PfeI	GAWTC	2 cut(s)	449, 535
PkrI	GCNGC	1 cut(s)	234
PmaCI	CACGTG	1 cut(s)	570
PmlI	CACGTG	1 cut(s)	570
Ppu21I	YACGTR	1 cut(s)	570
PshAI	GACNNNNGTC	1 cut(s)	247
Psp124BI	GAGCTC	1 cut(s)	348
Psp6I	CCWGG	1 cut(s)	61
PspCI	CACGTG	1 cut(s)	570
PspGI	CCWGG	1 cut(s)	61
PspN4I	GGNNCC	1 cut(s)	471
PspPI	GGNCC	1 cut(s)	296
PsuI	RGATCY	1 cut(s)	88
RsaI	GTAC	2 cut(s)	70, 96
RsaNI	GTAC	2 cut(s)	69, 95
SacI	GAGCTC	1 cut(s)	348
SaqAI	TTAA	1 cut(s)	612
SatI	GCNGC	1 cut(s)	233
Sau3AI	GATC	1 cut(s)	88
Sau96I	GGNCC	1 cut(s)	296
ScaI	AGTACT	2 cut(s)	70, 96
ScrFI	CCNGG	1 cut(s)	63
SduI	GDGCHC	1 cut(s)	348
SfaNI	GCATC	2 cut(s)	376, 553
SinI	GGWCC	1 cut(s)	296
SmlI	CTYRAG	2 cut(s)	42, 128
SmoI	CTYRAG	2 cut(s)	42, 128
Sse9I	AATT	6 cut(s)	30, 113, 227, 275, 463, 587
SsiI	CCGC	1 cut(s)	351
SspMI	CTAG	2 cut(s)	92, 441
SstI	GAGCTC	1 cut(s)	348
StyD4I	CCNGG	1 cut(s)	61
TaiI	ACGT	1 cut(s)	572
TasI	AATT	6 cut(s)	30, 113, 227, 275, 463, 587
TatI	WGTACW	2 cut(s)	68, 94
TfiI	GAWTC	2 cut(s)	449, 535
Tru1I	TTAA	1 cut(s)	612
Tru9I	TTAA	1 cut(s)	612
TscAI	CASTG	3 cut(s)	193, 258, 378
TseI	GCWGC	1 cut(s)	232
TspDTI	ATGAA	4 cut(s)	68, 126, 176, 368
TspRI	CASTG	3 cut(s)	193, 258, 378
VpaK11BI	GGWCC	1 cut(s)	296
XapI	RAATTY	2 cut(s)	30, 587
XmnI	GAANNNNTTC	1 cut(s)	588
XspI	CTAG	2 cut(s)	92, 441
ZrmI	AGTACT	2 cut(s)	70, 96

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