Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Forward (+)

61423653 .. 61427282

Gene Structure 3630 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG434300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGAACTGCTTGTCGCAGGTCTCATCCTACACGGCGGCGATTTTCCGAACGACAGGTCGTTCATTAGGGACCGGTGCTCTGTACGGACCCTGGAAGCGAAAATTGGACGTCTACGCTGGGGTGAAGCTAATCAGCTTTGAATCGGCGGTTTCCAGATTCCGGACTCAGCTCTACTCGTCTGAGAGCAAAGCGACGTCGTCTCGGCCGCGGAAGAAGAAGTCAGCACCCGAACGAGTTACGGACCCGGAAAAGGACGCATTCTATGTAGTCCGCAAAGGAAATGTGGTCGGTGTCTATAAGAGCTTCGCTGATTGCCAAGCTGAGCAAGGCTCTTCGATATGTGATCCTCCTATTAGTGTGTACAAAGGGTACTCTATGCCTAAGAAGGATGAGCAATATCTTGCTTCCTGTGGACTTCAGAATGCGCTTTACACTATTTCAGCTGCAGATATGAAAGATGAGCTTTTTGGCAAGCTTGTGGACTGTCCTCTTGGAGATCCAGCATCTTCAAAAGGCGAAACGTCTGACAAGACTGCAGCCAAGAAGAGATCCCACCAAGAGGCTGAATCAGAAAATGTGGAAGTAATTGGTTCAACTTCTGTATCAGATACTCCTTCCAGAAAGCAGACCAAGAAAAAGGCTGAAGTTGAAGTTCCCCCTTCTGGCCGTGGCTGTACTCTTCAATTTGATGGTGCATCAAAAGGAAATCCTGGAGTAGCTGGTGCTGGAGCTGTACTGCAAGCAGATGATGGAACCTTGATCTGTAAACTACGTGAAGGTCTGGGTGTTGCAACCAGTAACGCTGCTGAGTACCAAGCTGTTATTTTAGGGTTAAAATATGCGCTTAAAAAAGGTTTTTCCAGGATTTTTGTTCAAGGTGACTCCAAACTCGTCTGTATGCAGGTTGGTTATGTCAATATTTTCTGCTTCTCAAGCAGTTTGTGTCATCTCTGA

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

Cauli_VI DUF393 RVT_3

Protein Analysis

317

Amino Acids

34.02

Weight (kDa)

9.08

Isoelectric Point (pI)

36.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_H	PF00075	227 - 300	6.8e-06	RNase H
RVT_3	PF13456	229 - 302	2.7e-12	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001415)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981
malus_domestica	MD15G1022000.v1.1 MD16G1087400.v1.1
prunus_persica	Prupe.1G259600_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1
pyrus_communis	pycom09g11760 pycom15g01830 pycom16g07500
rosa_chinensis	RchiOBHm_Chr4g0444511 RchiOBHm_Chr6g0245201 RchiOBHm_Chr6g0301731
rosa_laevigata	RLG00000005828 RLG00000011227 RLG00000015316
rosa_roxburghii	Rroxscaffold_3G00242180 Rroxscaffold_5G00384990 Rroxscaffold_7G00166470 Rroxscaffold_7G00215360
rosa_rugosa	Rorug03G0154200
rosa_samantha	Rh4AG413500 Rh4BG425000 Rh4CG439600 Rh4DG420500 Rh6AG027900 Rh6AG421000 Rh6BG024100 Rh6BG427700 Rh6CG434300 Rh6DG421200
rosa_wichuraiana	Rw4G035520 Rw6G002360 Rw6G036440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	2 cut(s)	111, 197
Acc36I	ACCTGC	2 cut(s)	7, 892
AccI	GTMKAC	1 cut(s)	111
AccII	CGCG	1 cut(s)	208
AccIII	TCCGGA	1 cut(s)	159
AciI	CCGC	5 cut(s)	35, 146, 206, 208, 271
AclWI	GGATC	3 cut(s)	338, 491, 543
AcoI	YGGCCR	2 cut(s)	203, 664
AcuI	CTGAAG	2 cut(s)	401, 663
AcyI	GRCGYC	2 cut(s)	108, 194
AfaI	GTAC	6 cut(s)	83, 362, 371, 676, 735, 812
AfiI	CCNNNNNNNGG	4 cut(s)	159, 250, 559, 662
AgeI	ACCGGT	1 cut(s)	71
AgsI	TTSAA	6 cut(s)	140, 510, 594, 650, 683, 875
AjnI	CCWGG	3 cut(s)	89, 709, 860
AjuI	GAANNNNNNNTTGG	2 cut(s)	86, 118
Alw21I	GWGCWC	1 cut(s)	79
Alw26I	GTCTC	2 cut(s)	25, 204
AlwI	GGATC	3 cut(s)	338, 491, 543
Aor13HI	TCCGGA	1 cut(s)	159
AoxI	GGCC	2 cut(s)	203, 664
ApeKI	GCWGC	3 cut(s)	443, 536, 803
ArsI	GACNNNNNNTTYG	2 cut(s)	40, 72
AsiGI	ACCGGT	1 cut(s)	71
AspLEI	GCGC	2 cut(s)	427, 844
AspS9I	GGNCC	3 cut(s)	69, 86, 241
AsuC2I	CCSGG	1 cut(s)	245
AsuHPI	GGTGA	2 cut(s)	133, 890
AvaII	GGWCC	3 cut(s)	69, 86, 241
BaeI	ACNNNNGTAYC	2 cut(s)	585, 618
Bbv12I	GWGCWC	1 cut(s)	79
BbvI	GCAGC	3 cut(s)	430, 548, 790
BccI	CCATC	2 cut(s)	683, 743
BceAI	ACGGC	2 cut(s)	48, 651
BciT130I	CCWGG	3 cut(s)	91, 711, 862
BcnI	CCSGG	1 cut(s)	245
BcoDI	GTCTC	2 cut(s)	25, 204
BfmI	CTRYAG	2 cut(s)	444, 534
BfuAI	ACCTGC	2 cut(s)	7, 892
BisI	GCNGC	5 cut(s)	36, 206, 444, 537, 804
BlpI	GCTNAGC	1 cut(s)	321
BlsI	GCNGC	5 cut(s)	37, 207, 445, 538, 805
Bme1390I	CCNGG	4 cut(s)	91, 245, 711, 862
Bme18I	GGWCC	3 cut(s)	69, 86, 241
BmgT120I	GGNCC	3 cut(s)	69, 86, 241
BmiI	GGNNCC	4 cut(s)	70, 88, 243, 754
BmrFI	CCNGG	4 cut(s)	91, 245, 711, 862
BmsI	GCATC	2 cut(s)	512, 704
BplI	GAGNNNNNCTC	2 cut(s)	314, 346
BpmI	CTGGAG	2 cut(s)	732, 747
Bpu1102I	GCTNAGC	1 cut(s)	321
BpuEI	CTTGAG	1 cut(s)	916
BpuMI	CCSGG	1 cut(s)	245
BsaAI	YACGTR	1 cut(s)	773
BsaHI	GRCGYC	2 cut(s)	108, 194
BsaI	GGTCTC	1 cut(s)	25
BsaJI	CCNNGG	3 cut(s)	89, 206, 667
BsaWI	WCCGGW	2 cut(s)	71, 159
Bsc4I	CCNNNNNNNGG	4 cut(s)	159, 250, 559, 662
Bse118I	RCCGGY	1 cut(s)	71
Bse1I	ACTGG	1 cut(s)	795
BseAI	TCCGGA	1 cut(s)	159
BseBI	CCWGG	3 cut(s)	91, 711, 862
BseDI	CCNNGG	3 cut(s)	89, 206, 667
BseGI	GGATG	2 cut(s)	23, 394
BseLI	CCNNNNNNNGG	4 cut(s)	159, 250, 559, 662
BseMII	CTCAG	4 cut(s)	171, 179, 312, 798
BseNI	ACTGG	1 cut(s)	795
BseX3I	CGGCCG	1 cut(s)	203
BseXI	GCAGC	3 cut(s)	430, 548, 790
BseYI	CCCAGC	1 cut(s)	116
Bsh1236I	CGCG	1 cut(s)	208
Bsh1285I	CGRYCG	1 cut(s)	206
BshFI	GGCC	2 cut(s)	205, 666
BshTI	ACCGGT	1 cut(s)	71
BsiEI	CGRYCG	1 cut(s)	206
BsiHKAI	GWGCWC	1 cut(s)	79
BsiSI	CCGG	3 cut(s)	72, 160, 245
BslFI	GGGAC	1 cut(s)	82
BslI	CCNNNNNNNGG	4 cut(s)	159, 250, 559, 662
BsmAI	GTCTC	2 cut(s)	25, 204
BsmBI	CGTCTC	1 cut(s)	204
BsmFI	GGGAC	1 cut(s)	82
BsmI	GAATGC	2 cut(s)	257, 427
BsnI	GGCC	2 cut(s)	205, 666
Bso31I	GGTCTC	1 cut(s)	25
Bsp1286I	GDGCHC	1 cut(s)	79
Bsp13I	TCCGGA	1 cut(s)	159
Bsp1407I	TGTACA	1 cut(s)	360
Bsp143I	GATC	4 cut(s)	343, 496, 548, 759
Bsp1720I	GCTNAGC	1 cut(s)	321
BspACI	CCGC	5 cut(s)	35, 146, 206, 208, 271
BspANI	GGCC	2 cut(s)	205, 666
BspCNI	CTCAG	4 cut(s)	172, 178, 313, 799
BspEI	TCCGGA	1 cut(s)	159
BspFNI	CGCG	1 cut(s)	208
BspLI	GGNNCC	4 cut(s)	70, 88, 243, 754
BspMAI	CTGCAG	2 cut(s)	448, 538
BspMI	ACCTGC	2 cut(s)	7, 892
BspPI	GGATC	3 cut(s)	338, 491, 543
BspQI	GCTCTTC	1 cut(s)	337
BspTNI	GGTCTC	1 cut(s)	25
BsrFI	RCCGGY	1 cut(s)	71
BsrGI	TGTACA	1 cut(s)	360
BsrI	ACTGG	1 cut(s)	795
BssAI	RCCGGY	1 cut(s)	71
BssECI	CCNNGG	3 cut(s)	89, 206, 667
BssMI	GATC	4 cut(s)	343, 496, 548, 759
BssNI	GRCGYC	2 cut(s)	108, 194
Bst2UI	CCWGG	3 cut(s)	91, 711, 862
Bst4CI	ACNGT	1 cut(s)	485
Bst6I	CTCTTC	3 cut(s)	337, 539, 684
BstACI	GRCGYC	2 cut(s)	108, 194
BstAUI	TGTACA	1 cut(s)	360
BstBAI	YACGTR	1 cut(s)	773
BstC8I	GCNNGC	2 cut(s)	473, 741
BstDEI	CTNAG	5 cut(s)	165, 180, 321, 381, 807
BstDSI	CCRYGG	2 cut(s)	206, 667
BstF5I	GGATG	2 cut(s)	23, 394
BstFNI	CGCG	1 cut(s)	208
BstHHI	GCGC	2 cut(s)	427, 844
BstKTI	GATC	4 cut(s)	346, 499, 551, 762
BstMAI	GTCTC	2 cut(s)	25, 204
BstMBI	GATC	4 cut(s)	343, 496, 548, 759
BstMCI	CGRYCG	1 cut(s)	206
BstMWI	GCNNNNNNNGC	1 cut(s)	933
BstNI	CCWGG	3 cut(s)	91, 711, 862
BstSCI	CCNGG	4 cut(s)	89, 243, 709, 860
BstSFI	CTRYAG	2 cut(s)	444, 534
BstUI	CGCG	1 cut(s)	208
BstV1I	GCAGC	3 cut(s)	430, 548, 790
BstX2I	RGATCY	2 cut(s)	496, 548
BstYI	RGATCY	2 cut(s)	496, 548
BstZI	CGGCCG	1 cut(s)	203
BsuRI	GGCC	2 cut(s)	205, 666
BtgI	CCRYGG	2 cut(s)	206, 667
BtsCI	GGATG	2 cut(s)	23, 394
BveI	ACCTGC	2 cut(s)	7, 892
Cac8I	GCNNGC	2 cut(s)	473, 741
CfoI	GCGC	2 cut(s)	427, 844
Cfr10I	RCCGGY	1 cut(s)	71
Cfr13I	GGNCC	3 cut(s)	69, 86, 241
Cfr42I	CCGCGG	1 cut(s)	209
CseI	GACGC	1 cut(s)	263
Csp6I	GTAC	6 cut(s)	82, 361, 370, 675, 734, 811
CspAI	ACCGGT	1 cut(s)	71
CviQI	GTAC	6 cut(s)	82, 361, 370, 675, 734, 811
DdeI	CTNAG	5 cut(s)	165, 180, 321, 381, 807
DpnI	GATC	4 cut(s)	345, 498, 550, 761
DpnII	GATC	4 cut(s)	343, 496, 548, 759
EaeI	YGGCCR	2 cut(s)	203, 664
EagI	CGGCCG	1 cut(s)	203
Eam1104I	CTCTTC	3 cut(s)	337, 539, 684
EarI	CTCTTC	3 cut(s)	337, 539, 684
EclXI	CGGCCG	1 cut(s)	203
Eco31I	GGTCTC	1 cut(s)	25
Eco47I	GGWCC	3 cut(s)	69, 86, 241
Eco52I	CGGCCG	1 cut(s)	203
Eco57I	CTGAAG	2 cut(s)	401, 663
EcoRII	CCWGG	3 cut(s)	89, 709, 860
Esp3I	CGTCTC	1 cut(s)	204
FaiI	YATR	8 cut(s)	264, 297, 340, 377, 452, 840, 899, 912
FalI	AAGNNNNNCTT	2 cut(s)	447, 479
FaqI	GGGAC	1 cut(s)	82
FblI	GTMKAC	1 cut(s)	111
Fnu4HI	GCNGC	5 cut(s)	36, 206, 444, 537, 804
FokI	GGATG	2 cut(s)	10, 401
Fsp4HI	GCNGC	5 cut(s)	36, 206, 444, 537, 804
GlaI	GCGC	2 cut(s)	426, 843
GluI	GCNGC	5 cut(s)	36, 206, 444, 537, 804
GsaI	CCCAGC	1 cut(s)	120
GsuI	CTGGAG	2 cut(s)	732, 747
HaeIII	GGCC	2 cut(s)	205, 666
HapII	CCGG	3 cut(s)	72, 160, 245
HgaI	GACGC	1 cut(s)	263
HhaI	GCGC	2 cut(s)	427, 844
Hin1I	GRCGYC	2 cut(s)	108, 194
Hin6I	GCGC	2 cut(s)	425, 842
HinP1I	GCGC	2 cut(s)	425, 842
HindIII	AAGCTT	1 cut(s)	473
HinfI	GANTC	5 cut(s)	140, 156, 163, 566, 881
HpaII	CCGG	3 cut(s)	72, 160, 245
HphI	GGTGA	2 cut(s)	133, 890
Hpy166II	GTNNAC	5 cut(s)	112, 361, 413, 481, 767
Hpy188I	TCNGA	7 cut(s)	47, 181, 420, 526, 571, 607, 953
Hpy188III	TCNNGA	3 cut(s)	153, 160, 618
Hpy8I	GTNNAC	5 cut(s)	112, 361, 413, 481, 767
Hpy99I	CGWCG	2 cut(s)	196, 199
HpyAV	CCTTC	4 cut(s)	379, 624, 669, 770
HpyCH4III	ACNGT	1 cut(s)	485
HpyCH4IV	ACGT	4 cut(s)	108, 194, 521, 772
HpyCH4V	TGCA	6 cut(s)	446, 536, 695, 739, 791, 901
HpyF10VI	GCNNNNNNNGC	1 cut(s)	933
HpyF3I	CTNAG	5 cut(s)	165, 180, 321, 381, 807
HpySE526I	ACGT	4 cut(s)	108, 194, 521, 772
Hsp92I	GRCGYC	2 cut(s)	108, 194
HspAI	GCGC	2 cut(s)	425, 842
Kpn2I	TCCGGA	1 cut(s)	159
KspI	CCGCGG	1 cut(s)	209
Kzo9I	GATC	4 cut(s)	343, 496, 548, 759
LguI	GCTCTTC	1 cut(s)	337
LmnI	GCTCC	1 cut(s)	728
Lsp1109I	GCAGC	3 cut(s)	430, 548, 790
LweI	GCATC	2 cut(s)	512, 704
MaeII	ACGT	4 cut(s)	108, 194, 521, 772
MaeIII	GTNAC	3 cut(s)	235, 797, 878
MalI	GATC	4 cut(s)	345, 498, 550, 761
MboI	GATC	4 cut(s)	343, 496, 548, 759
MboII	GAAGA	6 cut(s)	223, 226, 324, 498, 556, 671
MflI	RGATCY	2 cut(s)	496, 548
MhlI	GDGCHC	1 cut(s)	79
MluCI	AATT	3 cut(s)	101, 585, 683
MlyI	GAGTC	2 cut(s)	157, 875
MnlI	CCTC	3 cut(s)	357, 498, 553
MroI	TCCGGA	1 cut(s)	159
MseI	TTAA	2 cut(s)	833, 846
MspA1I	CMGCKG	2 cut(s)	208, 443
MspI	CCGG	3 cut(s)	72, 160, 245
MspR9I	CCNGG	4 cut(s)	91, 245, 711, 862
Mva1269I	GAATGC	2 cut(s)	257, 427
MvaI	CCWGG	3 cut(s)	91, 711, 862
MvnI	CGCG	1 cut(s)	208
MwoI	GCNNNNNNNGC	1 cut(s)	933
NciI	CCSGG	1 cut(s)	245
NdeII	GATC	4 cut(s)	343, 496, 548, 759
NlaIV	GGNNCC	4 cut(s)	70, 88, 243, 754
NmeAIII	GCCGAG	1 cut(s)	181
NmuCI	GTSAC	1 cut(s)	878
PciSI	GCTCTTC	1 cut(s)	337
PctI	GAATGC	2 cut(s)	257, 427
PfeI	GAWTC	3 cut(s)	140, 156, 566
PflFI	GACNNNGTC	1 cut(s)	196
PfoI	TCCNGGA	2 cut(s)	709, 860
PinAI	ACCGGT	1 cut(s)	71
PkrI	GCNGC	5 cut(s)	37, 207, 445, 538, 805
PleI	GAGTC	2 cut(s)	157, 875
PpsI	GAGTC	2 cut(s)	157, 875
Ppu21I	YACGTR	1 cut(s)	773
Psp6I	CCWGG	3 cut(s)	89, 709, 860
PspFI	CCCAGC	1 cut(s)	116
PspGI	CCWGG	3 cut(s)	89, 709, 860
PspN4I	GGNNCC	4 cut(s)	70, 88, 243, 754
PspPI	GGNCC	3 cut(s)	69, 86, 241
PstI	CTGCAG	2 cut(s)	448, 538
PsuI	RGATCY	2 cut(s)	496, 548
PsyI	GACNNNGTC	1 cut(s)	196
PvuII	CAGCTG	1 cut(s)	443
RsaI	GTAC	6 cut(s)	83, 362, 371, 676, 735, 812
RsaNI	GTAC	6 cut(s)	82, 361, 370, 675, 734, 811
SacII	CCGCGG	1 cut(s)	209
SapI	GCTCTTC	1 cut(s)	337
SaqAI	TTAA	2 cut(s)	833, 846
SatI	GCNGC	5 cut(s)	36, 206, 444, 537, 804
Sau3AI	GATC	4 cut(s)	343, 496, 548, 759
Sau96I	GGNCC	3 cut(s)	69, 86, 241
SchI	GAGTC	2 cut(s)	157, 875
ScrFI	CCNGG	4 cut(s)	91, 245, 711, 862
SduI	GDGCHC	1 cut(s)	79
SfaNI	GCATC	2 cut(s)	512, 704
SfcI	CTRYAG	2 cut(s)	444, 534
Sfr303I	CCGCGG	1 cut(s)	209
SgrBI	CCGCGG	1 cut(s)	209
SinI	GGWCC	3 cut(s)	69, 86, 241
SmlI	CTYRAG	1 cut(s)	931
SmoI	CTYRAG	1 cut(s)	931
Sse9I	AATT	3 cut(s)	101, 585, 683
SsiI	CCGC	5 cut(s)	35, 146, 206, 208, 271
SspI	AATATT	1 cut(s)	919
StyD4I	CCNGG	4 cut(s)	89, 243, 709, 860
TaaI	ACNGT	1 cut(s)	485
TaiI	ACGT	4 cut(s)	111, 197, 524, 775
TaqI	TCGA	1 cut(s)	335
TasI	AATT	3 cut(s)	101, 585, 683
TatI	WGTACW	3 cut(s)	360, 674, 733
TauI	GCSGC	2 cut(s)	38, 208
TfiI	GAWTC	3 cut(s)	140, 156, 566
Tru1I	TTAA	2 cut(s)	833, 846
Tru9I	TTAA	2 cut(s)	833, 846
TseFI	GTSAC	1 cut(s)	878
TseI	GCWGC	3 cut(s)	443, 536, 803
Tsp45I	GTSAC	1 cut(s)	878
TspDTI	ATGAA	3 cut(s)	17, 51, 467
TspGWI	ACGGA	2 cut(s)	99, 254
Tth111I	GACNNNGTC	1 cut(s)	196
VpaK11BI	GGWCC	3 cut(s)	69, 86, 241
XmiI	GTMKAC	1 cut(s)	111
ZraI	GACGTC	2 cut(s)	109, 195

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