Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Forward (+)

71238590 .. 71240784

Gene Structure 2195 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG413500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 984 bp

ATGAACTTCTCGTCACACGTTTCGTACACGACGGGTCGTACTTTCGCCACCACCACCTCTTCTCCTTCTTCTTCGTGGAGAACAAGACCGAACCTTTCCGCTGGAATTAAGTCAAATAAAGTTGACTTTGCGCTGACCAGAGTCCATGTTCAGCTTCGAAGTAATGGCAGCAGCAGCAGCCGCCGCAAAACGACGTCGTGTTGTGCTCGGACGAACGCAATGGAAGTGGAAAAGGAAGCGTTCTATTTAGTCCGGAAAGGAGATATTGTTGGCGTGTATAGGAATTTCGGTGACTGTGAGGCCCAGATTGGTTCTTCGATATGTGATCCTCCTGTTAGTGTGTACAAAGGTTACTCCTTGCCTAAGGACACTGAAGAACATCTTGTGTCTTTTGGACTTACCAATGCAATTTACACTATCAGAGCTGAAGATTTGAAGCAGGACCATTTCGGCAAGCTTATGCTTTGCCCTTTTCATGAGCCAGCAGCTTCAGAATGTGAAGAGTCTGTCACGGATACATCTGTCAACGGTTCCGATGAAGTGCCTCGATCAGAAAATGTGGGCTTCTGTACCCTCGAGTTTGATGGTGCATCAAAGGGAAATCCTGGACTAGCTGGTGCTGGAGCTGTGCTGCGGGCTGATGATGGAAGTTTGATCTGTAAAGTTCACGAAGGTCTGGGTATTAAGACCAATAATGTTGCTGAGTACCGAGCTCTGATTTTAGGGTTAAAATGTGCTCTCAAGAAAGGTTTTACCAAGATTCGAGTCCAGGGTGATTCCAAACTTGTTTGTATGCAGGTTCAAGGTTTATGGAAGGTCAAAAACCAGAATCTGTCTGATTTGTGTGAAGAGGTGAAGGAACTGAAAGAAAAATTTGTCTCCTTTGAGATCAGTCATGTTCTGAGGGACAAAAATTCAGAGGCAGATGCTCAAGCAAACTTGGCAGTTCGTCTTAGTGATGGTGAAGTCCATGAAGTAATTTAA

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

327

Amino Acids

35.72

Weight (kDa)

6.71

Isoelectric Point (pI)

29.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	194 - 314	3.2e-28	Reverse transcriptase-like
RNase_H	PF00075	195 - 296	4.1e-09	RNase H

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: 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	1 cut(s)	197
Acc36I	ACCTGC	1 cut(s)	787
AccIII	TCCGGA	1 cut(s)	252
AciI	CCGC	4 cut(s)	99, 181, 184, 634
AclWI	GGATC	1 cut(s)	320
AcsI	RAATTY	3 cut(s)	283, 872, 913
AcuI	CTGAAG	3 cut(s)	393, 447, 474
AcyI	GRCGYC	1 cut(s)	194
AfaI	GTAC	5 cut(s)	26, 40, 344, 571, 707
AflIII	ACRYGT	1 cut(s)	16
AgsI	TTSAA	2 cut(s)	436, 803
AjnI	CCWGG	2 cut(s)	604, 768
AluBI	AGCT	7 cut(s)	154, 425, 457, 488, 614, 626, 713
AluI	AGCT	7 cut(s)	154, 425, 457, 488, 614, 626, 713
Alw21I	GWGCWC	3 cut(s)	208, 715, 739
Alw26I	GTCTC	1 cut(s)	883
AlwI	GGATC	1 cut(s)	320
AlwNI	CAGNNNCTG	1 cut(s)	832
Ama87I	CYCGRG	1 cut(s)	575
Aor13HI	TCCGGA	1 cut(s)	252
AoxI	GGCC	1 cut(s)	300
ApeKI	GCWGC	6 cut(s)	168, 171, 174, 177, 485, 631
ApoI	RAATTY	3 cut(s)	283, 872, 913
AspLEI	GCGC	1 cut(s)	133
AspS9I	GGNCC	2 cut(s)	301, 442
AsuHPI	GGTGA	4 cut(s)	302, 785, 865, 974
AsuII	TTCGAA	1 cut(s)	157
AvaI	CYCGRG	1 cut(s)	575
AvaII	GGWCC	1 cut(s)	442
AxyI	CCTNAGG	1 cut(s)	363
BaeI	ACNNNNGTAYC	2 cut(s)	507, 540
BanII	GRGCYC	1 cut(s)	715
Bbv12I	GWGCWC	3 cut(s)	208, 715, 739
BbvI	GCAGC	6 cut(s)	180, 183, 186, 189, 497, 618
BccI	CCATC	3 cut(s)	578, 638, 953
BciT130I	CCWGG	2 cut(s)	606, 770
BciVI	GTATCC	1 cut(s)	508
BcoDI	GTCTC	1 cut(s)	883
BfaI	CTAG	1 cut(s)	611
BfuAI	ACCTGC	1 cut(s)	787
BfuI	GTATCC	1 cut(s)	508
BisI	GCNGC	8 cut(s)	169, 172, 175, 178, 181, 184, 486, 632
BlsI	GCNGC	8 cut(s)	170, 173, 176, 179, 182, 185, 487, 633
Bme1390I	CCNGG	2 cut(s)	606, 770
Bme18I	GGWCC	1 cut(s)	442
BmeT110I	CYCGRG	1 cut(s)	575
BmgT120I	GGNCC	2 cut(s)	301, 442
BmiI	GGNNCC	1 cut(s)	532
BmrFI	CCNGG	2 cut(s)	606, 770
BmsI	GCATC	2 cut(s)	599, 916
BoxI	GACNNNNGTC	1 cut(s)	140
BpmI	CTGGAG	1 cut(s)	642
Bpu14I	TTCGAA	1 cut(s)	157
BpuEI	CTTGAG	2 cut(s)	725, 915
BsaHI	GRCGYC	1 cut(s)	194
BsaJI	CCNNGG	1 cut(s)	769
BsaWI	WCCGGW	1 cut(s)	252
BsaXI	ACNNNNNCTCC	4 cut(s)	46, 76, 252, 282
Bse21I	CCTNAGG	1 cut(s)	363
Bse3DI	GCAATG	1 cut(s)	225
BseAI	TCCGGA	1 cut(s)	252
BseBI	CCWGG	2 cut(s)	606, 770
BseDI	CCNNGG	1 cut(s)	769
BseMI	GCAATG	1 cut(s)	225
BseMII	CTCAG	2 cut(s)	693, 893
BseXI	GCAGC	6 cut(s)	180, 183, 186, 189, 497, 618
BshFI	GGCC	1 cut(s)	302
BsiHKAI	GWGCWC	3 cut(s)	208, 715, 739
BsiHKCI	CYCGRG	1 cut(s)	575
BsiSI	CCGG	1 cut(s)	253
BslFI	GGGAC	1 cut(s)	920
BsmAI	GTCTC	1 cut(s)	883
BsmFI	GGGAC	1 cut(s)	920
BsnI	GGCC	1 cut(s)	302
BsoBI	CYCGRG	1 cut(s)	575
Bsp119I	TTCGAA	1 cut(s)	157
Bsp1286I	GDGCHC	3 cut(s)	208, 715, 739
Bsp13I	TCCGGA	1 cut(s)	252
Bsp1407I	TGTACA	1 cut(s)	342
Bsp143I	GATC	4 cut(s)	325, 548, 654, 888
BspACI	CCGC	4 cut(s)	99, 181, 184, 634
BspANI	GGCC	1 cut(s)	302
BspCNI	CTCAG	2 cut(s)	694, 894
BspEI	TCCGGA	1 cut(s)	252
BspHI	TCATGA	1 cut(s)	475
BspLI	GGNNCC	1 cut(s)	532
BspMI	ACCTGC	1 cut(s)	787
BspPI	GGATC	1 cut(s)	320
BspT104I	TTCGAA	1 cut(s)	157
BsrDI	GCAATG	1 cut(s)	225
BsrGI	TGTACA	1 cut(s)	342
BssECI	CCNNGG	1 cut(s)	769
BssMI	GATC	4 cut(s)	325, 548, 654, 888
BssNI	GRCGYC	1 cut(s)	194
Bst2UI	CCWGG	2 cut(s)	606, 770
Bst4CI	ACNGT	2 cut(s)	296, 530
Bst6I	CTCTTC	3 cut(s)	64, 495, 843
BstACI	GRCGYC	1 cut(s)	194
BstAUI	TGTACA	1 cut(s)	342
BstBI	TTCGAA	1 cut(s)	157
BstC8I	GCNNGC	3 cut(s)	455, 483, 636
BstDEI	CTNAG	4 cut(s)	363, 702, 902, 953
BstHHI	GCGC	1 cut(s)	133
BstKTI	GATC	4 cut(s)	328, 551, 657, 891
BstMAI	GTCTC	1 cut(s)	883
BstMBI	GATC	4 cut(s)	325, 548, 654, 888
BstMWI	GCNNNNNNNGC	5 cut(s)	174, 177, 180, 183, 941
BstNI	CCWGG	2 cut(s)	606, 770
BstPAI	GACNNNNGTC	1 cut(s)	140
BstSCI	CCNGG	2 cut(s)	604, 768
BstV1I	GCAGC	6 cut(s)	180, 183, 186, 189, 497, 618
Bsu36I	CCTNAGG	1 cut(s)	363
BsuI	GTATCC	1 cut(s)	508
BsuRI	GGCC	1 cut(s)	302
BtsIMutI	CAGTG	1 cut(s)	369
BveI	ACCTGC	1 cut(s)	787
Cac8I	GCNNGC	3 cut(s)	455, 483, 636
CaiI	CAGNNNCTG	1 cut(s)	832
CciI	TCATGA	1 cut(s)	475
CfoI	GCGC	1 cut(s)	133
Cfr13I	GGNCC	2 cut(s)	301, 442
Csp6I	GTAC	5 cut(s)	25, 39, 343, 570, 706
CspCI	CAANNNNNGTGG	2 cut(s)	207, 242
CviAII	CATG	4 cut(s)	146, 476, 896, 971
CviQI	GTAC	5 cut(s)	25, 39, 343, 570, 706
DdeI	CTNAG	4 cut(s)	363, 702, 902, 953
DpnI	GATC	4 cut(s)	327, 550, 656, 890
DpnII	GATC	4 cut(s)	325, 548, 654, 888
Eam1104I	CTCTTC	3 cut(s)	64, 495, 843
EarI	CTCTTC	3 cut(s)	64, 495, 843
Ecl136II	GAGCTC	1 cut(s)	713
Eco24I	GRGCYC	1 cut(s)	715
Eco47I	GGWCC	1 cut(s)	442
Eco53kI	GAGCTC	1 cut(s)	713
Eco57I	CTGAAG	3 cut(s)	393, 447, 474
Eco81I	CCTNAGG	1 cut(s)	363
Eco88I	CYCGRG	1 cut(s)	575
EcoICRI	GAGCTC	1 cut(s)	713
EcoRII	CCWGG	2 cut(s)	604, 768
EcoT38I	GRGCYC	1 cut(s)	715
FaeI	CATG	4 cut(s)	149, 479, 899, 974
FaiI	YATR	9 cut(s)	147, 279, 322, 461, 477, 794, 811, 897, 972
FalI	AAGNNNNNCTT	2 cut(s)	366, 398
FaqI	GGGAC	1 cut(s)	920
FatI	CATG	4 cut(s)	145, 475, 895, 970
FauI	CCCGC	1 cut(s)	627
Fnu4HI	GCNGC	8 cut(s)	169, 172, 175, 178, 181, 184, 486, 632
FriOI	GRGCYC	1 cut(s)	715
Fsp4HI	GCNGC	8 cut(s)	169, 172, 175, 178, 181, 184, 486, 632
FspBI	CTAG	1 cut(s)	611
GlaI	GCGC	1 cut(s)	132
GluI	GCNGC	8 cut(s)	169, 172, 175, 178, 181, 184, 486, 632
GsuI	CTGGAG	1 cut(s)	642
HaeIII	GGCC	1 cut(s)	302
HapII	CCGG	1 cut(s)	253
HhaI	GCGC	1 cut(s)	133
Hin1I	GRCGYC	1 cut(s)	194
Hin1II	CATG	4 cut(s)	149, 479, 899, 974
Hin6I	GCGC	1 cut(s)	131
HinP1I	GCGC	1 cut(s)	131
HincII	GTYRAC	2 cut(s)	124, 526
HindII	GTYRAC	2 cut(s)	124, 526
HindIII	AAGCTT	1 cut(s)	455
HinfI	GANTC	6 cut(s)	141, 503, 760, 765, 776, 829
HpaII	CCGG	1 cut(s)	253
HphI	GGTGA	4 cut(s)	302, 785, 865, 974
Hpy166II	GTNNAC	5 cut(s)	27, 124, 343, 526, 667
Hpy188I	TCNGA	9 cut(s)	210, 422, 493, 535, 553, 717, 838, 903, 919
Hpy188III	TCNNGA	4 cut(s)	253, 476, 668, 742
Hpy8I	GTNNAC	5 cut(s)	27, 124, 343, 526, 667
Hpy99I	CGWCG	3 cut(s)	34, 196, 199
HpyAV	CCTTC	4 cut(s)	75, 665, 808, 850
HpyCH4III	ACNGT	2 cut(s)	296, 530
HpyCH4IV	ACGT	2 cut(s)	18, 194
HpyCH4V	TGCA	3 cut(s)	407, 590, 796
HpyF10VI	GCNNNNNNNGC	5 cut(s)	174, 177, 180, 183, 941
HpyF3I	CTNAG	4 cut(s)	363, 702, 902, 953
HpySE526I	ACGT	2 cut(s)	18, 194
Hsp92I	GRCGYC	1 cut(s)	194
Hsp92II	CATG	4 cut(s)	149, 479, 899, 974
HspAI	GCGC	1 cut(s)	131
Kpn2I	TCCGGA	1 cut(s)	252
Kzo9I	GATC	4 cut(s)	325, 548, 654, 888
LmnI	GCTCC	1 cut(s)	623
Lsp1109I	GCAGC	6 cut(s)	180, 183, 186, 189, 497, 618
LweI	GCATC	2 cut(s)	599, 916
MaeI	CTAG	1 cut(s)	611
MaeII	ACGT	2 cut(s)	18, 194
MaeIII	GTNAC	4 cut(s)	12, 290, 350, 508
MalI	GATC	4 cut(s)	327, 550, 656, 890
MboI	GATC	4 cut(s)	325, 548, 654, 888
MboII	GAAGA	8 cut(s)	51, 60, 63, 306, 386, 440, 512, 860
MhlI	GDGCHC	3 cut(s)	208, 715, 739
MluCI	AATT	6 cut(s)	105, 283, 408, 872, 913, 978
MlyI	GAGTC	3 cut(s)	150, 512, 774
MnlI	CCTC	8 cut(s)	67, 292, 339, 555, 584, 844, 897, 913
MroI	TCCGGA	1 cut(s)	252
MseI	TTAA	4 cut(s)	108, 684, 728, 982
MspA1I	CMGCKG	1 cut(s)	101
MspI	CCGG	1 cut(s)	253
MspR9I	CCNGG	2 cut(s)	606, 770
MvaI	CCWGG	2 cut(s)	606, 770
MwoI	GCNNNNNNNGC	5 cut(s)	174, 177, 180, 183, 941
NdeII	GATC	4 cut(s)	325, 548, 654, 888
NlaIII	CATG	4 cut(s)	149, 479, 899, 974
NlaIV	GGNNCC	1 cut(s)	532
NmuCI	GTSAC	3 cut(s)	12, 290, 508
NspV	TTCGAA	1 cut(s)	157
PaeR7I	CTCGAG	1 cut(s)	575
PagI	TCATGA	1 cut(s)	475
PfeI	GAWTC	3 cut(s)	760, 776, 829
PfoI	TCCNGGA	1 cut(s)	604
PkrI	GCNGC	8 cut(s)	170, 173, 176, 179, 182, 185, 487, 633
PleI	GAGTC	3 cut(s)	149, 511, 773
PpsI	GAGTC	3 cut(s)	149, 511, 773
PshAI	GACNNNNGTC	1 cut(s)	140
Psp124BI	GAGCTC	1 cut(s)	715
Psp6I	CCWGG	2 cut(s)	604, 768
PspGI	CCWGG	2 cut(s)	604, 768
PspN4I	GGNNCC	1 cut(s)	532
PspPI	GGNCC	2 cut(s)	301, 442
PspXI	VCTCGAGB	1 cut(s)	575
PstNI	CAGNNNCTG	1 cut(s)	832
RsaI	GTAC	5 cut(s)	26, 40, 344, 571, 707
RsaNI	GTAC	5 cut(s)	25, 39, 343, 570, 706
SacI	GAGCTC	1 cut(s)	715
SaqAI	TTAA	4 cut(s)	108, 684, 728, 982
SatI	GCNGC	8 cut(s)	169, 172, 175, 178, 181, 184, 486, 632
Sau3AI	GATC	4 cut(s)	325, 548, 654, 888
Sau96I	GGNCC	2 cut(s)	301, 442
SchI	GAGTC	3 cut(s)	150, 512, 774
ScrFI	CCNGG	2 cut(s)	606, 770
SduI	GDGCHC	3 cut(s)	208, 715, 739
SfaNI	GCATC	2 cut(s)	599, 916
Sfr274I	CTCGAG	1 cut(s)	575
SfuI	TTCGAA	1 cut(s)	157
SinI	GGWCC	1 cut(s)	442
SlaI	CTCGAG	1 cut(s)	575
SmlI	CTYRAG	3 cut(s)	575, 740, 930
SmoI	CTYRAG	3 cut(s)	575, 740, 930
Sse9I	AATT	6 cut(s)	105, 283, 408, 872, 913, 978
SsiI	CCGC	4 cut(s)	99, 181, 184, 634
SspMI	CTAG	1 cut(s)	611
SstI	GAGCTC	1 cut(s)	715
StyD4I	CCNGG	2 cut(s)	604, 768
TaaI	ACNGT	2 cut(s)	296, 530
TaiI	ACGT	2 cut(s)	21, 197
TaqI	TCGA	5 cut(s)	157, 317, 547, 576, 763
TaqII	GACCGA	1 cut(s)	103
TasI	AATT	6 cut(s)	105, 283, 408, 872, 913, 978
TatI	WGTACW	1 cut(s)	342
TauI	GCSGC	2 cut(s)	183, 186
TfiI	GAWTC	3 cut(s)	760, 776, 829
Tru1I	TTAA	4 cut(s)	108, 684, 728, 982
Tru9I	TTAA	4 cut(s)	108, 684, 728, 982
TscAI	CASTG	1 cut(s)	376
TseFI	GTSAC	3 cut(s)	12, 290, 508
TseI	GCWGC	6 cut(s)	168, 171, 174, 177, 485, 631
Tsp45I	GTSAC	3 cut(s)	12, 290, 508
TspDTI	ATGAA	3 cut(s)	17, 464, 552
TspGWI	ACGGA	1 cut(s)	527
TspRI	CASTG	1 cut(s)	376
VpaK11BI	GGWCC	1 cut(s)	442
XapI	RAATTY	3 cut(s)	283, 872, 913
XhoI	CTCGAG	1 cut(s)	575
XspI	CTAG	1 cut(s)	611
ZraI	GACGTC	1 cut(s)	195

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