Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000756

Physical Location & Seq

Genomic Coordinates Reverse (-)

39378000 .. 39379286

Gene Structure 1287 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ38517

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGTGTGGTGGGGAAAAGCCACAAACCTGGGTACAAGCACTACCATGGGCTGAATGGTGGTATAACACAGCCTCCCACTCTGCCATTTTGATGTCCCCCTTTGAAGCTCTTTATGGATATGCTCCTCCTCCTACTTTGCCATACTTACCAGGCTCCACCACTCTTGCTCAAGTTGATCAACAGTTAAAAAGTAGGGATGAGCTACTGTCTTCACTTAAAAGGAATTTGGTGAGGGCTCAAGCTAGAATGAAAGGGTTTCATGATCGAAAGCATTCTGAAAGAACTTTTGCAGTGGGAGACATGGTATACCTCAAGCTGCAACCATACAAGCAACAAACTCTGCATCAAGGTGCTTTTCACAAACTATCTGCCAAGTATTATGGTCCCTTTGCTGTGACAGAAAGAATAGGCTCAGTAGCCTATAGACTTAAACTTCCTGCCAATGCAAAAATCCACAATGTCTTCCATGTGTCCCTACTTAAGAAGAAAATTGGAGACAATGCTTCTGTGGCATCCCAACTTCCACCTATCATGGATCCAGCCAATCCCAAGTGGACACCCTCTGCTGTACTTCAGAGAAGAATGGTAAAAAGACATGGTGCTGCTACAACCCAATGGCTTGTGCAATGGTTTGGCACTACCCCAGAAGAAGCAATATGGGAATTTGCTGATGAAATCCTTCTCCGGTTTCCGAATTTTGATTCTGAAACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

237

Amino Acids

26.95

Weight (kDa)

9.6

Isoelectric Point (pI)

41.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SH3_Tf2-1	PF24626	99 - 163	5.3e-23	Tf2-1-like, SH3 domain
Integrase_p58_C	PF22938	128 - 162	1.6e-06	Integrase p58, C-terminal domain

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

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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: 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)
AccI	GTMKAC	1 cut(s)	306
AclWI	GGATC	2 cut(s)	530, 543
AcsI	RAATTY	3 cut(s)	223, 662, 694
AcuI	CTGAAG	1 cut(s)	557
AfaI	GTAC	2 cut(s)	33, 570
AflII	CTTAAG	1 cut(s)	479
AgsI	TTSAA	1 cut(s)	104
AjnI	CCWGG	2 cut(s)	26, 148
AluBI	AGCT	4 cut(s)	107, 202, 242, 316
AluI	AGCT	4 cut(s)	107, 202, 242, 316
Alw26I	GTCTC	2 cut(s)	291, 489
AlwI	GGATC	2 cut(s)	530, 543
ApeKI	GCWGC	2 cut(s)	316, 602
ApoI	RAATTY	3 cut(s)	223, 662, 694
Asp700I	GAANNNNTTC	2 cut(s)	271, 678
AspS9I	GGNCC	1 cut(s)	383
AsuHPI	GGTGA	1 cut(s)	241
AvaII	GGWCC	1 cut(s)	383
BamHI	GGATCC	1 cut(s)	535
BanII	GRGCYC	1 cut(s)	238
BbsI	GAAGAC	2 cut(s)	201, 454
BbvI	GCAGC	2 cut(s)	303, 589
BciT130I	CCWGG	2 cut(s)	28, 150
BclI	TGATCA	1 cut(s)	175
BcoDI	GTCTC	2 cut(s)	291, 489
BfaI	CTAG	1 cut(s)	243
BfmI	CTRYAG	1 cut(s)	421
BfrI	CTTAAG	1 cut(s)	479
BisI	GCNGC	2 cut(s)	317, 603
BlsI	GCNGC	2 cut(s)	318, 604
Bme1390I	CCNGG	2 cut(s)	28, 150
Bme18I	GGWCC	1 cut(s)	383
BmgT120I	GGNCC	1 cut(s)	383
BmiI	GGNNCC	3 cut(s)	154, 385, 537
BmrFI	CCNGG	2 cut(s)	28, 150
BmsI	GCATC	2 cut(s)	352, 521
BpiI	GAAGAC	2 cut(s)	201, 454
BpuEI	CTTGAG	3 cut(s)	153, 222, 296
BsaJI	CCNNGG	2 cut(s)	27, 44
BsaWI	WCCGGW	1 cut(s)	684
BsaXI	ACNNNNNCTCC	4 cut(s)	56, 86, 288, 318
Bse3DI	GCAATG	1 cut(s)	632
BseBI	CCWGG	2 cut(s)	28, 150
BseDI	CCNNGG	2 cut(s)	27, 44
BseGI	GGATG	2 cut(s)	202, 512
BseMI	GCAATG	1 cut(s)	632
BseMII	CTCAG	1 cut(s)	426
BseRI	GAGGAG	2 cut(s)	114, 117
BseXI	GCAGC	2 cut(s)	303, 589
BsiSI	CCGG	1 cut(s)	685
BslFI	GGGAC	3 cut(s)	79, 369, 457
BsmAI	GTCTC	2 cut(s)	291, 489
BsmFI	GGGAC	3 cut(s)	79, 369, 457
BsmI	GAATGC	1 cut(s)	271
Bsp1286I	GDGCHC	1 cut(s)	238
Bsp143I	GATC	3 cut(s)	175, 262, 535
Bsp19I	CCATGG	1 cut(s)	44
BspCNI	CTCAG	1 cut(s)	425
BspHI	TCATGA	1 cut(s)	259
BspLI	GGNNCC	3 cut(s)	154, 385, 537
BspPI	GGATC	2 cut(s)	530, 543
BspTI	CTTAAG	1 cut(s)	479
BsrDI	GCAATG	1 cut(s)	632
BssECI	CCNNGG	2 cut(s)	27, 44
BssMI	GATC	3 cut(s)	175, 262, 535
BssNAI	GTATAC	1 cut(s)	307
BssT1I	CCWWGG	1 cut(s)	44
Bst1107I	GTATAC	1 cut(s)	307
Bst2UI	CCWGG	2 cut(s)	28, 150
Bst4CI	ACNGT	2 cut(s)	183, 207
BstAFI	CTTAAG	1 cut(s)	479
BstDEI	CTNAG	1 cut(s)	412
BstDSI	CCRYGG	1 cut(s)	44
BstF5I	GGATG	2 cut(s)	202, 512
BstKTI	GATC	3 cut(s)	178, 265, 538
BstMAI	GTCTC	2 cut(s)	291, 489
BstMBI	GATC	3 cut(s)	175, 262, 535
BstMWI	GCNNNNNNNGC	1 cut(s)	509
BstNI	CCWGG	2 cut(s)	28, 150
BstSCI	CCNGG	2 cut(s)	26, 148
BstSFI	CTRYAG	1 cut(s)	421
BstV1I	GCAGC	2 cut(s)	303, 589
BstV2I	GAAGAC	2 cut(s)	201, 454
BstX2I	RGATCY	1 cut(s)	535
BstXI	CCANNNNNNTGG	1 cut(s)	27
BstYI	RGATCY	1 cut(s)	535
BstZ17I	GTATAC	1 cut(s)	307
BtgI	CCRYGG	1 cut(s)	44
BtsCI	GGATG	2 cut(s)	202, 512
BtsI	GCAGTG	1 cut(s)	297
BtsIMutI	CAGTG	1 cut(s)	297
CciI	TCATGA	1 cut(s)	259
Cfr13I	GGNCC	1 cut(s)	383
Csp6I	GTAC	2 cut(s)	32, 569
CspCI	CAANNNNNGTGG	2 cut(s)	145, 180
CviAII	CATG	6 cut(s)	45, 260, 301, 467, 532, 596
CviQI	GTAC	2 cut(s)	32, 569
DdeI	CTNAG	1 cut(s)	412
DpnI	GATC	3 cut(s)	177, 264, 537
DpnII	GATC	3 cut(s)	175, 262, 535
Eco130I	CCWWGG	1 cut(s)	44
Eco24I	GRGCYC	1 cut(s)	238
Eco47I	GGWCC	1 cut(s)	383
Eco57I	CTGAAG	1 cut(s)	557
EcoRII	CCWGG	2 cut(s)	26, 148
EcoT14I	CCWWGG	1 cut(s)	44
EcoT38I	GRGCYC	1 cut(s)	238
ErhI	CCWWGG	1 cut(s)	44
FaeI	CATG	6 cut(s)	48, 263, 304, 470, 535, 599
FaqI	GGGAC	3 cut(s)	79, 369, 457
FatI	CATG	6 cut(s)	44, 259, 300, 466, 531, 595
FbaI	TGATCA	1 cut(s)	175
FblI	GTMKAC	1 cut(s)	306
Fnu4HI	GCNGC	2 cut(s)	317, 603
FokI	GGATG	2 cut(s)	209, 499
FriOI	GRGCYC	1 cut(s)	238
Fsp4HI	GCNGC	2 cut(s)	317, 603
FspBI	CTAG	1 cut(s)	243
GluI	GCNGC	2 cut(s)	317, 603
HapII	CCGG	1 cut(s)	685
Hin1II	CATG	6 cut(s)	48, 263, 304, 470, 535, 599
HinfI	GANTC	1 cut(s)	701
HpaII	CCGG	1 cut(s)	685
HphI	GGTGA	1 cut(s)	241
Hpy166II	GTNNAC	2 cut(s)	307, 555
Hpy188I	TCNGA	4 cut(s)	277, 576, 693, 706
Hpy188III	TCNNGA	1 cut(s)	260
Hpy8I	GTNNAC	2 cut(s)	307, 555
HpyAV	CCTTC	1 cut(s)	689
HpyCH4III	ACNGT	2 cut(s)	183, 207
HpyCH4V	TGCA	5 cut(s)	290, 319, 343, 446, 625
HpyF10VI	GCNNNNNNNGC	1 cut(s)	509
HpyF3I	CTNAG	1 cut(s)	412
Hsp92II	CATG	6 cut(s)	48, 263, 304, 470, 535, 599
Ksp22I	TGATCA	1 cut(s)	175
Kzo9I	GATC	3 cut(s)	175, 262, 535
LmnI	GCTCC	2 cut(s)	127, 158
LpnPI	CCDG	8 cut(s)	13, 40, 135, 162, 450, 552, 657, 698
Lsp1109I	GCAGC	2 cut(s)	303, 589
LweI	GCATC	2 cut(s)	352, 521
MaeI	CTAG	1 cut(s)	243
MaeIII	GTNAC	1 cut(s)	394
MalI	GATC	3 cut(s)	177, 264, 537
MboI	GATC	3 cut(s)	175, 262, 535
MboII	GAAGA	5 cut(s)	201, 454, 496, 591, 659
MflI	RGATCY	1 cut(s)	535
MhlI	GDGCHC	1 cut(s)	238
MluCI	AATT	4 cut(s)	223, 489, 662, 694
MnlI	CCTC	6 cut(s)	82, 135, 138, 225, 320, 571
MroXI	GAANNNNTTC	2 cut(s)	271, 678
MseI	TTAA	4 cut(s)	185, 216, 429, 480
MslI	CAYNNNNRTG	3 cut(s)	43, 89, 348
MspCI	CTTAAG	1 cut(s)	479
MspI	CCGG	1 cut(s)	685
MspR9I	CCNGG	2 cut(s)	28, 150
Mva1269I	GAATGC	1 cut(s)	271
MvaI	CCWGG	2 cut(s)	28, 150
MwoI	GCNNNNNNNGC	1 cut(s)	509
NcoI	CCATGG	1 cut(s)	44
NdeII	GATC	3 cut(s)	175, 262, 535
NlaIII	CATG	6 cut(s)	48, 263, 304, 470, 535, 599
NlaIV	GGNNCC	3 cut(s)	154, 385, 537
NmuCI	GTSAC	1 cut(s)	394
PagI	TCATGA	1 cut(s)	259
PctI	GAATGC	1 cut(s)	271
PdmI	GAANNNNTTC	2 cut(s)	271, 678
PfeI	GAWTC	1 cut(s)	701
PkrI	GCNGC	2 cut(s)	318, 604
Psp6I	CCWGG	2 cut(s)	26, 148
PspGI	CCWGG	2 cut(s)	26, 148
PspN4I	GGNNCC	3 cut(s)	154, 385, 537
PspPI	GGNCC	1 cut(s)	383
PsuI	RGATCY	1 cut(s)	535
RsaI	GTAC	2 cut(s)	33, 570
RsaNI	GTAC	2 cut(s)	32, 569
RseI	CAYNNNNRTG	3 cut(s)	43, 89, 348
SaqAI	TTAA	4 cut(s)	185, 216, 429, 480
SatI	GCNGC	2 cut(s)	317, 603
Sau3AI	GATC	3 cut(s)	175, 262, 535
Sau96I	GGNCC	1 cut(s)	383
ScrFI	CCNGG	2 cut(s)	28, 150
SduI	GDGCHC	1 cut(s)	238
SetI	ASST	8 cut(s)	29, 109, 204, 244, 312, 318, 352, 529
SfaNI	GCATC	2 cut(s)	352, 521
SfcI	CTRYAG	1 cut(s)	421
SinI	GGWCC	1 cut(s)	383
SmiMI	CAYNNNNRTG	3 cut(s)	43, 89, 348
SmlI	CTYRAG	4 cut(s)	168, 237, 311, 479
SmoI	CTYRAG	4 cut(s)	168, 237, 311, 479
Sse9I	AATT	4 cut(s)	223, 489, 662, 694
SspMI	CTAG	1 cut(s)	243
StyD4I	CCNGG	2 cut(s)	26, 148
StyI	CCWWGG	1 cut(s)	44
TaaI	ACNGT	2 cut(s)	183, 207
TaqI	TCGA	1 cut(s)	265
TasI	AATT	4 cut(s)	223, 489, 662, 694
TatI	WGTACW	1 cut(s)	568
TfiI	GAWTC	1 cut(s)	701
Tru1I	TTAA	4 cut(s)	185, 216, 429, 480
Tru9I	TTAA	4 cut(s)	185, 216, 429, 480
TscAI	CASTG	1 cut(s)	297
TseFI	GTSAC	1 cut(s)	394
TseI	GCWGC	2 cut(s)	316, 602
Tsp45I	GTSAC	1 cut(s)	394
TspDTI	ATGAA	3 cut(s)	248, 263, 687
TspRI	CASTG	1 cut(s)	297
Vha464I	CTTAAG	1 cut(s)	479
VpaK11BI	GGWCC	1 cut(s)	383
XapI	RAATTY	3 cut(s)	223, 662, 694
XcmI	CCANNNNNNNNNTGG	1 cut(s)	51
XmiI	GTMKAC	1 cut(s)	306
XmnI	GAANNNNTTC	2 cut(s)	271, 678
XspI	CTAG	1 cut(s)	243

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