Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0000370

Physical Location & Seq

Genomic Coordinates Forward (+)

17337039 .. 17337968

Gene Structure 930 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG196600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGGTAGGTGAAGCTGATCACTGGTGGAAGGTGAATCAGTCTAGAGCACAAGTTGGTGGCCATCCACCAACTTGGGACAAGTTTCTGGAATTGTTTTGGGAGAAATATTTTCCAGATTCTGTTCGAGATCACACGGAGTTGGAATTTGCTGAGCTACAACAAGAGAGTATGTCTGTAGCTGACCATGAGGCCTTGTTTACAAAACTTTATCATTTCTCTCAACCTCTTACTGAAGAAAGAAAGGCAAAGAAGTTTATGAGAACTTTGAAGGAGCCTATTCAAGATAGCCTTTCAATTTTGAAACTTGTGAGTTATTCGGAGATGGTGGACCGGGCAATGATTATTGAAGATAATTTTAACCGTGCCAACTTGAAGAAACGATCCAGACTAGATGATTGGCATTCTGTTGGTAGTGAAAAGAAACAAGTTACTATGTCTAACAGACCGCAAAGTTCTTCAAGAGGAGATTACCAAAGCTCTTTCTCAAGGCCTGGACCGAGAGTTTGTGCTAAACGTAGACAAAGACATACGGGGCAGTGTTTTCTTGATGTGAGGAGATGTTTCAAATGTGGGAAAACTGATCGTTTCATAAGAGAATGTCCTGATCTGGTAACAACACCTAATTCTAATCAGCAAAGTGGATCACAAGGCCAGAGGTCCTCAATGTTCACACCAGCATTTGGACAACAAAGACAAACGGTAGCTGGGAGAGTGTTTGCACTTACTACCAGAGAGGCTGAGGCCACACCTGATGTGATTACATGTACTATTCTTATTGTTGGCCAACTGGCAAAAGTATTAATCGACCCAGGCTCTACCCATTCGTTTGTTTCCTTCACTTTTGCTTATGTGTTAAATAAAATTGTTGAGTTACTTGGAATCACTTTATCTGTTACTACCCCCTTGAAGAGATCAGTTGTTGTTGACTGA

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

309

Amino Acids

35.3

Weight (kDa)

9.2

Isoelectric Point (pI)

48.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Retrotrans_gag	PF03732	3 - 91	3.1e-11	Retrotransposon gag protein
RVP_2	PF08284	234 - 307	2.1e-16	Retroviral aspartyl protease

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

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)	680
AccI	GTMKAC	1 cut(s)	517
AciI	CCGC	1 cut(s)	446
AclWI	GGATC	2 cut(s)	375, 649
AcoI	YGGCCR	2 cut(s)	58, 781
AcsI	RAATTY	1 cut(s)	143
AcuI	CTGAAG	1 cut(s)	252
AfaI	GTAC	1 cut(s)	766
AfiI	CCNNNNNNNGG	1 cut(s)	680
AflIII	ACRYGT	1 cut(s)	761
AgsI	TTSAA	9 cut(s)	268, 281, 294, 301, 347, 373, 459, 565, 907
AjnI	CCWGG	2 cut(s)	490, 808
AluBI	AGCT	5 cut(s)	14, 154, 179, 477, 704
AluI	AGCT	5 cut(s)	14, 154, 179, 477, 704
Alw21I	GWGCWC	1 cut(s)	49
AlwI	GGATC	2 cut(s)	375, 649
AlwNI	CAGNNNCTG	1 cut(s)	119
AoxI	GGCC	6 cut(s)	58, 189, 488, 649, 741, 781
ApoI	RAATTY	1 cut(s)	143
ArsI	GACNNNNNNTTYG	2 cut(s)	486, 518
AseI	ATTAAT	1 cut(s)	800
AspS9I	GGNCC	3 cut(s)	328, 494, 657
AsuC2I	CCSGG	1 cut(s)	332
AsuHPI	GGTGA	2 cut(s)	20, 43
AvaII	GGWCC	3 cut(s)	328, 494, 657
BalI	TGGCCA	2 cut(s)	60, 783
Bbv12I	GWGCWC	1 cut(s)	49
BbvCI	CCTCAGC	1 cut(s)	738
BccI	CCATC	2 cut(s)	69, 316
BciT130I	CCWGG	2 cut(s)	492, 810
BclI	TGATCA	1 cut(s)	16
BcnI	CCSGG	1 cut(s)	332
BfaI	CTAG	2 cut(s)	42, 389
BfmI	CTRYAG	1 cut(s)	174
BlpI	GCTNAGC	1 cut(s)	150
Bme1390I	CCNGG	3 cut(s)	332, 492, 810
Bme18I	GGWCC	3 cut(s)	328, 494, 657
BmgT120I	GGNCC	3 cut(s)	328, 494, 657
BmiI	GGNNCC	1 cut(s)	273
BmrFI	CCNGG	3 cut(s)	332, 492, 810
Bpu10I	CCTNAGC	1 cut(s)	738
Bpu1102I	GCTNAGC	1 cut(s)	150
BpuEI	CTTGAG	1 cut(s)	469
BpuMI	CCSGG	1 cut(s)	332
BsaJI	CCNNGG	1 cut(s)	808
Bsc4I	CCNNNNNNNGG	1 cut(s)	680
Bse1I	ACTGG	2 cut(s)	26, 792
Bse3DI	GCAATG	1 cut(s)	342
BseBI	CCWGG	2 cut(s)	492, 810
BseDI	CCNNGG	1 cut(s)	808
BseGI	GGATG	1 cut(s)	61
BseLI	CCNNNNNNNGG	1 cut(s)	680
BseMI	GCAATG	1 cut(s)	342
BseMII	CTCAG	2 cut(s)	141, 729
BseNI	ACTGG	2 cut(s)	26, 792
BseRI	GAGGAG	2 cut(s)	477, 568
BseYI	CCCAGC	1 cut(s)	704
BshFI	GGCC	6 cut(s)	60, 191, 490, 651, 743, 783
BsiHKAI	GWGCWC	1 cut(s)	49
BsiSI	CCGG	1 cut(s)	331
BslFI	GGGAC	1 cut(s)	89
BslI	CCNNNNNNNGG	1 cut(s)	680
BsmFI	GGGAC	1 cut(s)	89
BsmI	GAATGC	1 cut(s)	400
BsnI	GGCC	6 cut(s)	60, 191, 490, 651, 743, 783
Bsp1286I	GDGCHC	1 cut(s)	49
Bsp143I	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
Bsp1720I	GCTNAGC	1 cut(s)	150
BspACI	CCGC	1 cut(s)	446
BspANI	GGCC	6 cut(s)	60, 191, 490, 651, 743, 783
BspCNI	CTCAG	2 cut(s)	142, 730
BspLI	GGNNCC	1 cut(s)	273
BspPI	GGATC	2 cut(s)	375, 649
BsrDI	GCAATG	1 cut(s)	342
BsrI	ACTGG	2 cut(s)	26, 792
BssECI	CCNNGG	1 cut(s)	808
BssMI	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
Bst2UI	CCWGG	2 cut(s)	492, 810
Bst4CI	ACNGT	2 cut(s)	362, 700
Bst6I	CTCTTC	1 cut(s)	902
BstDEI	CTNAG	2 cut(s)	150, 738
BstF5I	GGATG	1 cut(s)	61
BstKTI	GATC	7 cut(s)	19, 130, 383, 583, 607, 644, 914
BstMBI	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
BstNI	CCWGG	2 cut(s)	492, 810
BstNSI	RCATGY	1 cut(s)	765
BstSCI	CCNGG	3 cut(s)	330, 490, 808
BstSFI	CTRYAG	1 cut(s)	174
BstXI	CCANNNNNNTGG	1 cut(s)	72
BsuRI	GGCC	6 cut(s)	60, 191, 490, 651, 743, 783
BtsCI	GGATG	1 cut(s)	61
BtsI	GCAGTG	1 cut(s)	542
BtsIMutI	CAGTG	2 cut(s)	19, 542
CaiI	CAGNNNCTG	1 cut(s)	119
Cfr13I	GGNCC	3 cut(s)	328, 494, 657
Csp6I	GTAC	1 cut(s)	765
CviAII	CATG	2 cut(s)	185, 762
CviQI	GTAC	1 cut(s)	765
DdeI	CTNAG	2 cut(s)	150, 738
DpnI	GATC	7 cut(s)	18, 129, 382, 582, 606, 643, 913
DpnII	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
EaeI	YGGCCR	2 cut(s)	58, 781
Eam1104I	CTCTTC	1 cut(s)	902
EarI	CTCTTC	1 cut(s)	902
Eco147I	AGGCCT	2 cut(s)	191, 490
Eco47I	GGWCC	3 cut(s)	328, 494, 657
Eco57I	CTGAAG	1 cut(s)	252
EcoO109I	RGGNCCY	1 cut(s)	657
EcoRII	CCWGG	2 cut(s)	490, 808
FaeI	CATG	2 cut(s)	188, 765
FaiI	YATR	8 cut(s)	170, 186, 257, 434, 528, 590, 763, 849
FalI	AAGNNNNNCTT	2 cut(s)	273, 305
FaqI	GGGAC	1 cut(s)	89
FatI	CATG	2 cut(s)	184, 761
FbaI	TGATCA	1 cut(s)	16
FblI	GTMKAC	1 cut(s)	517
FokI	GGATG	1 cut(s)	48
FspBI	CTAG	2 cut(s)	42, 389
GsaI	CCCAGC	1 cut(s)	708
HaeIII	GGCC	6 cut(s)	60, 191, 490, 651, 743, 783
HapII	CCGG	1 cut(s)	331
Hin1II	CATG	2 cut(s)	188, 765
HincII	GTYRAC	1 cut(s)	925
HindII	GTYRAC	1 cut(s)	925
HinfI	GANTC	3 cut(s)	34, 116, 879
HpaII	CCGG	1 cut(s)	331
HphI	GGTGA	2 cut(s)	20, 43
Hpy166II	GTNNAC	5 cut(s)	198, 328, 518, 669, 925
Hpy188I	TCNGA	1 cut(s)	319
Hpy188III	TCNNGA	9 cut(s)	42, 86, 113, 125, 281, 384, 459, 545, 602
Hpy8I	GTNNAC	5 cut(s)	198, 328, 518, 669, 925
HpyAV	CCTTC	3 cut(s)	22, 262, 844
HpyCH4III	ACNGT	2 cut(s)	362, 700
HpyCH4IV	ACGT	1 cut(s)	514
HpyCH4V	TGCA	1 cut(s)	719
HpyF3I	CTNAG	2 cut(s)	150, 738
HpySE526I	ACGT	1 cut(s)	514
Hsp92II	CATG	2 cut(s)	188, 765
Ksp22I	TGATCA	1 cut(s)	16
Kzo9I	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
LmnI	GCTCC	1 cut(s)	271
MaeI	CTAG	2 cut(s)	42, 389
MaeII	ACGT	1 cut(s)	514
MaeIII	GTNAC	4 cut(s)	427, 610, 870, 892
MalI	GATC	7 cut(s)	18, 129, 382, 582, 606, 643, 913
MboI	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
MboII	GAAGA	5 cut(s)	245, 359, 385, 447, 919
MhlI	GDGCHC	1 cut(s)	49
MlsI	TGGCCA	2 cut(s)	60, 783
MluCI	AATT	6 cut(s)	89, 143, 294, 352, 622, 861
MluNI	TGGCCA	2 cut(s)	60, 783
MmeI	TCCRAC	1 cut(s)	120
MnlI	CCTC	8 cut(s)	181, 234, 455, 546, 648, 670, 727, 733
Mox20I	TGGCCA	2 cut(s)	60, 783
MscI	TGGCCA	2 cut(s)	60, 783
MseI	TTAA	3 cut(s)	357, 800, 854
Msp20I	TGGCCA	2 cut(s)	60, 783
MspI	CCGG	1 cut(s)	331
MspR9I	CCNGG	3 cut(s)	332, 492, 810
Mva1269I	GAATGC	1 cut(s)	400
MvaI	CCWGG	2 cut(s)	492, 810
NciI	CCSGG	1 cut(s)	332
NdeII	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
NlaIII	CATG	2 cut(s)	188, 765
NlaIV	GGNNCC	1 cut(s)	273
NspI	RCATGY	1 cut(s)	765
PceI	AGGCCT	2 cut(s)	191, 490
PciI	ACATGT	1 cut(s)	761
PctI	GAATGC	1 cut(s)	400
PfeI	GAWTC	3 cut(s)	34, 116, 879
PflMI	CCANNNNNTGG	1 cut(s)	680
PpuMI	RGGWCCY	1 cut(s)	657
PscI	ACATGT	1 cut(s)	761
PshBI	ATTAAT	1 cut(s)	800
Psp5II	RGGWCCY	1 cut(s)	657
Psp6I	CCWGG	2 cut(s)	490, 808
PspFI	CCCAGC	1 cut(s)	704
PspGI	CCWGG	2 cut(s)	490, 808
PspN4I	GGNNCC	1 cut(s)	273
PspPI	GGNCC	3 cut(s)	328, 494, 657
PspPPI	RGGWCCY	1 cut(s)	657
PstNI	CAGNNNCTG	1 cut(s)	119
RsaI	GTAC	1 cut(s)	766
RsaNI	GTAC	1 cut(s)	765
SaqAI	TTAA	3 cut(s)	357, 800, 854
Sau3AI	GATC	7 cut(s)	16, 127, 380, 580, 604, 641, 911
Sau96I	GGNCC	3 cut(s)	328, 494, 657
ScrFI	CCNGG	3 cut(s)	332, 492, 810
SduI	GDGCHC	1 cut(s)	49
SfcI	CTRYAG	1 cut(s)	174
SinI	GGWCC	3 cut(s)	328, 494, 657
SmlI	CTYRAG	1 cut(s)	484
SmoI	CTYRAG	1 cut(s)	484
Sse9I	AATT	6 cut(s)	89, 143, 294, 352, 622, 861
SseBI	AGGCCT	2 cut(s)	191, 490
SsiI	CCGC	1 cut(s)	446
SspI	AATATT	1 cut(s)	107
SspMI	CTAG	2 cut(s)	42, 389
StuI	AGGCCT	2 cut(s)	191, 490
StyD4I	CCNGG	3 cut(s)	330, 490, 808
TaaI	ACNGT	2 cut(s)	362, 700
TaiI	ACGT	1 cut(s)	517
TaqI	TCGA	2 cut(s)	124, 804
TaqII	GACCGA	1 cut(s)	511
TasI	AATT	6 cut(s)	89, 143, 294, 352, 622, 861
TatI	WGTACW	1 cut(s)	764
TfiI	GAWTC	3 cut(s)	34, 116, 879
Tru1I	TTAA	3 cut(s)	357, 800, 854
Tru9I	TTAA	3 cut(s)	357, 800, 854
TscAI	CASTG	2 cut(s)	26, 542
TspDTI	ATGAA	1 cut(s)	577
TspGWI	ACGGA	1 cut(s)	149
TspRI	CASTG	2 cut(s)	26, 542
Van91I	CCANNNNNTGG	1 cut(s)	680
VpaK11BI	GGWCC	3 cut(s)	328, 494, 657
VspI	ATTAAT	1 cut(s)	800
XapI	RAATTY	1 cut(s)	143
XbaI	TCTAGA	1 cut(s)	41
XceI	RCATGY	1 cut(s)	765
XmiI	GTMKAC	1 cut(s)	517
XspI	CTAG	2 cut(s)	42, 389

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