Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Forward (+)

62869739 .. 62871930

Gene Structure 2192 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG420500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGAACTTCTCGTCACACGTTTCGTACACGACGGGTCGTACTTTCGCCACCACCTCTTCTCCTTCTTCTTCGTGGAGAACAAAACCGAACCTTTCCGCTGGAATTAAGTCAAATAAAGTTGACTTTGCGCTGACCAGAGTCCATGTTCAGCTTCGAAGTAATGGCAGCAGCAGCCGCCGCCGCAAAACGACGTCGTGTTGTGCTCGGACGAACGCAATGGAAGTGGAAAAAGAAGCGTTCTATTTAGTCCGGAAAGGAGATATTGTTGGCGTGTATAGGAATTTCGGTGACTGTGAGGCCCAGATTGGTTCTTCGATATGTGATCCTCCTGTTAGTGTGTACAAAGGTTACTCCTTGCCTAAGGACACTGAAGAACATCTCGTGTCTTTTGGACTTACCAATGCAATTTACACTATCAGAGCTGAAGATTTGAAGCAGGACCATTTCGGCAAGCTTATGCTCTGCCCTTTTCATGAGCCAGCAGCTTCAGAATGTGAAGAGTCTGTCACGGATACATCTGTAAACGGTTCCGATGAAGTGCCTGGATCAGAATATGTGGGCTTCTGTACCCTCGAGTTTGATGGTGCATCAAAGGGAAATCCTGGACTAGCTGGTGCTGGAGCTGTGCTGCGAGCTGATGATGGAAGTTTGATCTGTAAAGTTCATGAAGGACTGGGTATCAAGACCAATAATGTTGCTGAGTACCGAGCTCTGATTTTAGGGTTAAGATGTGCTCTCAAGAAAGGTTTTACCAAGATTCGAGTCCAGGGTGATTCCAAACTTGTTTGTATGCAGGTTCAAGGTTTATGGAAGGTCAAAAACCAGAATCTGTCTGATTTGTGTGAAGAGGTGAAGGAACTAAAAGAAAAATTTGTCTCCTTTGAGATCAGTCATGTTCTGAGGGACAAAAATTCAGAGGCAGATGCTCAAGCAAACTTGGCAGTTCGTCTTAGTGACGGTGAAGTCCACGAAGTAATTTAA

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

326

Amino Acids

35.63

Weight (kDa)

6.71

Isoelectric Point (pI)

29.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	193 - 313	4.6e-28	Reverse transcriptase-like
RNase_H	PF00075	194 - 295	7e-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)
AasI	GACNNNNNNGTC	1 cut(s)	962
AatII	GACGTC	1 cut(s)	194
Acc36I	ACCTGC	1 cut(s)	784
AccIII	TCCGGA	1 cut(s)	249
AciI	CCGC	4 cut(s)	96, 175, 178, 181
AclWI	GGATC	2 cut(s)	317, 553
AcsI	RAATTY	3 cut(s)	280, 869, 910
AcuI	CTGAAG	3 cut(s)	390, 444, 471
AcyI	GRCGYC	1 cut(s)	191
AfaI	GTAC	5 cut(s)	26, 40, 341, 568, 704
AflIII	ACRYGT	1 cut(s)	16
AgsI	TTSAA	2 cut(s)	433, 800
AjnI	CCWGG	3 cut(s)	541, 601, 765
AluBI	AGCT	8 cut(s)	151, 422, 454, 485, 611, 623, 635, 710
AluI	AGCT	8 cut(s)	151, 422, 454, 485, 611, 623, 635, 710
Alw21I	GWGCWC	3 cut(s)	205, 712, 736
Alw26I	GTCTC	1 cut(s)	880
AlwI	GGATC	2 cut(s)	317, 553
AlwNI	CAGNNNCTG	1 cut(s)	829
Ama87I	CYCGRG	1 cut(s)	572
Aor13HI	TCCGGA	1 cut(s)	249
AoxI	GGCC	1 cut(s)	297
ApeKI	GCWGC	5 cut(s)	165, 168, 171, 482, 628
ApoI	RAATTY	3 cut(s)	280, 869, 910
AspLEI	GCGC	1 cut(s)	130
AspS9I	GGNCC	2 cut(s)	298, 439
AsuHPI	GGTGA	4 cut(s)	299, 782, 862, 971
AsuII	TTCGAA	1 cut(s)	154
AvaI	CYCGRG	1 cut(s)	572
AvaII	GGWCC	1 cut(s)	439
AxyI	CCTNAGG	1 cut(s)	360
BaeI	ACNNNNGTAYC	2 cut(s)	504, 537
BanII	GRGCYC	1 cut(s)	712
BauI	CACGAG	1 cut(s)	380
Bbv12I	GWGCWC	3 cut(s)	205, 712, 736
BbvI	GCAGC	5 cut(s)	177, 180, 183, 494, 615
BccI	CCATC	2 cut(s)	575, 635
BciT130I	CCWGG	3 cut(s)	543, 603, 767
BciVI	GTATCC	1 cut(s)	505
BcoDI	GTCTC	1 cut(s)	880
BfaI	CTAG	1 cut(s)	608
BfuAI	ACCTGC	1 cut(s)	784
BfuI	GTATCC	1 cut(s)	505
BisI	GCNGC	8 cut(s)	166, 169, 172, 175, 178, 181, 483, 629
BlsI	GCNGC	8 cut(s)	167, 170, 173, 176, 179, 182, 484, 630
Bme1390I	CCNGG	3 cut(s)	543, 603, 767
Bme18I	GGWCC	1 cut(s)	439
BmeT110I	CYCGRG	1 cut(s)	572
BmgT120I	GGNCC	2 cut(s)	298, 439
BmiI	GGNNCC	1 cut(s)	529
BmrFI	CCNGG	3 cut(s)	543, 603, 767
BmrI	ACTGGG	1 cut(s)	683
BmsI	GCATC	2 cut(s)	596, 913
BmuI	ACTGGG	1 cut(s)	683
BoxI	GACNNNNGTC	1 cut(s)	137
BpmI	CTGGAG	1 cut(s)	639
Bpu14I	TTCGAA	1 cut(s)	154
BpuEI	CTTGAG	2 cut(s)	722, 912
BsaHI	GRCGYC	1 cut(s)	191
BsaJI	CCNNGG	1 cut(s)	766
BsaWI	WCCGGW	1 cut(s)	249
BsaXI	ACNNNNNCTCC	4 cut(s)	43, 73, 249, 279
Bse1I	ACTGG	1 cut(s)	678
Bse21I	CCTNAGG	1 cut(s)	360
Bse3DI	GCAATG	1 cut(s)	222
BseAI	TCCGGA	1 cut(s)	249
BseBI	CCWGG	3 cut(s)	543, 603, 767
BseDI	CCNNGG	1 cut(s)	766
BseMI	GCAATG	1 cut(s)	222
BseMII	CTCAG	2 cut(s)	690, 890
BseNI	ACTGG	1 cut(s)	678
BseXI	GCAGC	5 cut(s)	177, 180, 183, 494, 615
BshFI	GGCC	1 cut(s)	299
BsiHKAI	GWGCWC	3 cut(s)	205, 712, 736
BsiHKCI	CYCGRG	1 cut(s)	572
BsiSI	CCGG	1 cut(s)	250
BslFI	GGGAC	1 cut(s)	917
BsmAI	GTCTC	1 cut(s)	880
BsmFI	GGGAC	1 cut(s)	917
BsnI	GGCC	1 cut(s)	299
BsoBI	CYCGRG	1 cut(s)	572
Bsp119I	TTCGAA	1 cut(s)	154
Bsp1286I	GDGCHC	3 cut(s)	205, 712, 736
Bsp13I	TCCGGA	1 cut(s)	249
Bsp1407I	TGTACA	1 cut(s)	339
Bsp143I	GATC	4 cut(s)	322, 545, 651, 885
BspACI	CCGC	4 cut(s)	96, 175, 178, 181
BspANI	GGCC	1 cut(s)	299
BspCNI	CTCAG	2 cut(s)	691, 891
BspEI	TCCGGA	1 cut(s)	249
BspHI	TCATGA	2 cut(s)	472, 664
BspLI	GGNNCC	1 cut(s)	529
BspMI	ACCTGC	1 cut(s)	784
BspPI	GGATC	2 cut(s)	317, 553
BspT104I	TTCGAA	1 cut(s)	154
BsrDI	GCAATG	1 cut(s)	222
BsrGI	TGTACA	1 cut(s)	339
BsrI	ACTGG	1 cut(s)	678
BssECI	CCNNGG	1 cut(s)	766
BssMI	GATC	4 cut(s)	322, 545, 651, 885
BssNI	GRCGYC	1 cut(s)	191
BssSI	CACGAG	1 cut(s)	380
Bst2BI	CACGAG	1 cut(s)	380
Bst2UI	CCWGG	3 cut(s)	543, 603, 767
Bst4CI	ACNGT	3 cut(s)	293, 527, 959
Bst6I	CTCTTC	3 cut(s)	61, 492, 840
BstACI	GRCGYC	1 cut(s)	191
BstAUI	TGTACA	1 cut(s)	339
BstBI	TTCGAA	1 cut(s)	154
BstC8I	GCNNGC	3 cut(s)	452, 480, 633
BstDEI	CTNAG	4 cut(s)	360, 699, 899, 950
BstHHI	GCGC	1 cut(s)	130
BstKTI	GATC	4 cut(s)	325, 548, 654, 888
BstMAI	GTCTC	1 cut(s)	880
BstMBI	GATC	4 cut(s)	322, 545, 651, 885
BstMWI	GCNNNNNNNGC	5 cut(s)	171, 174, 177, 180, 938
BstNI	CCWGG	3 cut(s)	543, 603, 767
BstPAI	GACNNNNGTC	1 cut(s)	137
BstSCI	CCNGG	3 cut(s)	541, 601, 765
BstV1I	GCAGC	5 cut(s)	177, 180, 183, 494, 615
Bsu36I	CCTNAGG	1 cut(s)	360
BsuI	GTATCC	1 cut(s)	505
BsuRI	GGCC	1 cut(s)	299
BtsIMutI	CAGTG	1 cut(s)	366
BveI	ACCTGC	1 cut(s)	784
Cac8I	GCNNGC	3 cut(s)	452, 480, 633
CaiI	CAGNNNCTG	1 cut(s)	829
CciI	TCATGA	2 cut(s)	472, 664
CfoI	GCGC	1 cut(s)	130
Cfr13I	GGNCC	2 cut(s)	298, 439
Csp6I	GTAC	5 cut(s)	25, 39, 340, 567, 703
CspCI	CAANNNNNGTGG	2 cut(s)	204, 239
CviAII	CATG	4 cut(s)	143, 473, 665, 893
CviQI	GTAC	5 cut(s)	25, 39, 340, 567, 703
DdeI	CTNAG	4 cut(s)	360, 699, 899, 950
DpnI	GATC	4 cut(s)	324, 547, 653, 887
DpnII	GATC	4 cut(s)	322, 545, 651, 885
DrdI	GACNNNNNNGTC	1 cut(s)	962
DseDI	GACNNNNNNGTC	1 cut(s)	962
Eam1104I	CTCTTC	3 cut(s)	61, 492, 840
EarI	CTCTTC	3 cut(s)	61, 492, 840
Ecl136II	GAGCTC	1 cut(s)	710
Eco24I	GRGCYC	1 cut(s)	712
Eco47I	GGWCC	1 cut(s)	439
Eco53kI	GAGCTC	1 cut(s)	710
Eco57I	CTGAAG	3 cut(s)	390, 444, 471
Eco81I	CCTNAGG	1 cut(s)	360
Eco88I	CYCGRG	1 cut(s)	572
EcoICRI	GAGCTC	1 cut(s)	710
EcoRII	CCWGG	3 cut(s)	541, 601, 765
EcoT38I	GRGCYC	1 cut(s)	712
FaeI	CATG	4 cut(s)	146, 476, 668, 896
FaqI	GGGAC	1 cut(s)	917
FatI	CATG	4 cut(s)	142, 472, 664, 892
Fnu4HI	GCNGC	8 cut(s)	166, 169, 172, 175, 178, 181, 483, 629
FriOI	GRGCYC	1 cut(s)	712
Fsp4HI	GCNGC	8 cut(s)	166, 169, 172, 175, 178, 181, 483, 629
FspBI	CTAG	1 cut(s)	608
GlaI	GCGC	1 cut(s)	129
GluI	GCNGC	8 cut(s)	166, 169, 172, 175, 178, 181, 483, 629
GsuI	CTGGAG	1 cut(s)	639
HaeIII	GGCC	1 cut(s)	299
HapII	CCGG	1 cut(s)	250
HhaI	GCGC	1 cut(s)	130
Hin1I	GRCGYC	1 cut(s)	191
Hin1II	CATG	4 cut(s)	146, 476, 668, 896
Hin6I	GCGC	1 cut(s)	128
HinP1I	GCGC	1 cut(s)	128
HincII	GTYRAC	1 cut(s)	121
HindII	GTYRAC	1 cut(s)	121
HindIII	AAGCTT	1 cut(s)	452
HinfI	GANTC	6 cut(s)	138, 500, 757, 762, 773, 826
HpaII	CCGG	1 cut(s)	250
HphI	GGTGA	4 cut(s)	299, 782, 862, 971
Hpy166II	GTNNAC	5 cut(s)	27, 121, 340, 523, 967
Hpy188I	TCNGA	9 cut(s)	207, 419, 490, 532, 550, 714, 835, 900, 916
Hpy188III	TCNNGA	5 cut(s)	250, 473, 665, 682, 739
Hpy8I	GTNNAC	5 cut(s)	27, 121, 340, 523, 967
Hpy99I	CGWCG	3 cut(s)	34, 193, 196
HpyAV	CCTTC	4 cut(s)	72, 662, 805, 847
HpyCH4III	ACNGT	3 cut(s)	293, 527, 959
HpyCH4IV	ACGT	2 cut(s)	18, 191
HpyCH4V	TGCA	3 cut(s)	404, 587, 793
HpyF10VI	GCNNNNNNNGC	5 cut(s)	171, 174, 177, 180, 938
HpyF3I	CTNAG	4 cut(s)	360, 699, 899, 950
HpySE526I	ACGT	2 cut(s)	18, 191
Hsp92I	GRCGYC	1 cut(s)	191
Hsp92II	CATG	4 cut(s)	146, 476, 668, 896
HspAI	GCGC	1 cut(s)	128
Kpn2I	TCCGGA	1 cut(s)	249
Kzo9I	GATC	4 cut(s)	322, 545, 651, 885
LmnI	GCTCC	1 cut(s)	620
Lsp1109I	GCAGC	5 cut(s)	177, 180, 183, 494, 615
LweI	GCATC	2 cut(s)	596, 913
MaeI	CTAG	1 cut(s)	608
MaeII	ACGT	2 cut(s)	18, 191
MaeIII	GTNAC	5 cut(s)	12, 287, 347, 505, 953
MalI	GATC	4 cut(s)	324, 547, 653, 887
MboI	GATC	4 cut(s)	322, 545, 651, 885
MboII	GAAGA	8 cut(s)	48, 57, 60, 303, 383, 437, 509, 857
MhlI	GDGCHC	3 cut(s)	205, 712, 736
MluCI	AATT	6 cut(s)	102, 280, 405, 869, 910, 975
MlyI	GAGTC	3 cut(s)	147, 509, 771
MnlI	CCTC	7 cut(s)	64, 289, 336, 581, 841, 894, 910
MroI	TCCGGA	1 cut(s)	249
MseI	TTAA	3 cut(s)	105, 725, 979
MspA1I	CMGCKG	1 cut(s)	98
MspI	CCGG	1 cut(s)	250
MspR9I	CCNGG	3 cut(s)	543, 603, 767
MvaI	CCWGG	3 cut(s)	543, 603, 767
MwoI	GCNNNNNNNGC	5 cut(s)	171, 174, 177, 180, 938
NdeII	GATC	4 cut(s)	322, 545, 651, 885
NlaIII	CATG	4 cut(s)	146, 476, 668, 896
NlaIV	GGNNCC	1 cut(s)	529
NmuCI	GTSAC	4 cut(s)	12, 287, 505, 953
NspV	TTCGAA	1 cut(s)	154
PaeR7I	CTCGAG	1 cut(s)	572
PagI	TCATGA	2 cut(s)	472, 664
PfeI	GAWTC	3 cut(s)	757, 773, 826
PfoI	TCCNGGA	1 cut(s)	601
PkrI	GCNGC	8 cut(s)	167, 170, 173, 176, 179, 182, 484, 630
PleI	GAGTC	3 cut(s)	146, 508, 770
PpsI	GAGTC	3 cut(s)	146, 508, 770
PshAI	GACNNNNGTC	1 cut(s)	137
Psp124BI	GAGCTC	1 cut(s)	712
Psp6I	CCWGG	3 cut(s)	541, 601, 765
PspGI	CCWGG	3 cut(s)	541, 601, 765
PspN4I	GGNNCC	1 cut(s)	529
PspPI	GGNCC	2 cut(s)	298, 439
PspXI	VCTCGAGB	1 cut(s)	572
PstNI	CAGNNNCTG	1 cut(s)	829
RsaI	GTAC	5 cut(s)	26, 40, 341, 568, 704
RsaNI	GTAC	5 cut(s)	25, 39, 340, 567, 703
SacI	GAGCTC	1 cut(s)	712
SaqAI	TTAA	3 cut(s)	105, 725, 979
SatI	GCNGC	8 cut(s)	166, 169, 172, 175, 178, 181, 483, 629
Sau3AI	GATC	4 cut(s)	322, 545, 651, 885
Sau96I	GGNCC	2 cut(s)	298, 439
SchI	GAGTC	3 cut(s)	147, 509, 771
ScrFI	CCNGG	3 cut(s)	543, 603, 767
SduI	GDGCHC	3 cut(s)	205, 712, 736
SfaNI	GCATC	2 cut(s)	596, 913
Sfr274I	CTCGAG	1 cut(s)	572
SfuI	TTCGAA	1 cut(s)	154
SinI	GGWCC	1 cut(s)	439
SlaI	CTCGAG	1 cut(s)	572
SmlI	CTYRAG	3 cut(s)	572, 737, 927
SmoI	CTYRAG	3 cut(s)	572, 737, 927
Sse9I	AATT	6 cut(s)	102, 280, 405, 869, 910, 975
SsiI	CCGC	4 cut(s)	96, 175, 178, 181
SspMI	CTAG	1 cut(s)	608
SstI	GAGCTC	1 cut(s)	712
StyD4I	CCNGG	3 cut(s)	541, 601, 765
TaaI	ACNGT	3 cut(s)	293, 527, 959
TaiI	ACGT	2 cut(s)	21, 194
TaqI	TCGA	4 cut(s)	154, 314, 573, 760
TasI	AATT	6 cut(s)	102, 280, 405, 869, 910, 975
TatI	WGTACW	1 cut(s)	339
TauI	GCSGC	3 cut(s)	177, 180, 183
TfiI	GAWTC	3 cut(s)	757, 773, 826
Tru1I	TTAA	3 cut(s)	105, 725, 979
Tru9I	TTAA	3 cut(s)	105, 725, 979
TscAI	CASTG	1 cut(s)	373
TseFI	GTSAC	4 cut(s)	12, 287, 505, 953
TseI	GCWGC	5 cut(s)	165, 168, 171, 482, 628
Tsp45I	GTSAC	4 cut(s)	12, 287, 505, 953
TspDTI	ATGAA	5 cut(s)	17, 461, 549, 653, 681
TspGWI	ACGGA	1 cut(s)	524
TspRI	CASTG	1 cut(s)	373
VpaK11BI	GGWCC	1 cut(s)	439
XapI	RAATTY	3 cut(s)	280, 869, 910
XhoI	CTCGAG	1 cut(s)	572
XspI	CTAG	1 cut(s)	608
ZraI	GACGTC	1 cut(s)	192

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