Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0000889

Physical Location & Seq

Genomic Coordinates Reverse (-)

4240574 .. 4241779

Gene Structure 1206 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G002370.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGAACAATGAAACTCAAGCACTGCATCACACCAAAACTTGGACTCTTGTGCCACCCCACCCTTCTCAAAATCTTGTTGGATGCAAATGGGTTTTCCGAGTGAAACACAAACAAGATGGCTCCATAGAGCGATTCAAAGCTCGACTTGTTGCAAAAGGTTTCCACCAGCAACAAGGCCTTGACTACACCGAAACATTCAGCCCTTTGAGTACCAAATTTTCCATGAAAGATCTTGGTCCACTCAACTTCTTCCTTGGTATTGAAGTCACAAGAACACCATCTGCACTTTACCTTTCGCAAGCCAAATATGTTCATGATTTGCTTGACCAAACAAACATGTTGGAATCCAAAGCTTGCCCTTCTCCAACCACTACCTTCAAGCTCGATCACACATCTGGTGCTCTTCTTCAAGATCCCACCACCTACCGATCCATCGTAAGAGCCATTCAATACCTCACATGGACAAGACCAGACATTTCTTATTCTGTCAACAAAGTTTGTCAATTTATGCACTTTCCTAGATCCACACACCTTGCTACAGTAAAAAGGATTTTGAGATATCTCAAGGATACTCCTGATAAAGGTCTTCAAATTACAAAAGGGGTTCCCGCCCTAACGACTTTTATTGATGCAGATTGGGGAGGTTGTCCAATTGATAGACGCTCCACAACAGGTTATTGTATATTCTTGGGCAACAATCTTCTCTCTTGGAGTGCAAAGAAGCAGCCCACAGTTGCTAGATCTTCAACGGAAGCCGAGTACCGTGCATTGGCATACTCACTTGCTGAAACCATTTGGTTATGCTCTCTTCTCAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004672 GO:0004674 GO:0004675 GO:0004888 GO:0005575 GO:0005623 GO:0005886 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0007154 GO:0007165 GO:0007166 GO:0007167 GO:0007178 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019199 GO:0019538 GO:0023052 GO:0036211 GO:0038023 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0060089 GO:0065007 GO:0071704 GO:0071944 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko04010 ko04064 ko04620 ko04621 ko04624 ko04722 ko05133 ko05140 ko05142 ko05145 ko05152 ko05162 ko05164 map04010 map04064 map04620 map04621 map04624 map04722 map05133 map05140 map05142 map05145 map05152 map05162 map05164

Pfam Domains

Protein Families

Pkinase Pkinase_Tyr

Protein Analysis

272

Amino Acids

30.85

Weight (kDa)

9.46

Isoelectric Point (pI)

38.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	12 - 69	9.9e-11	Reverse transcriptase (RNA-dependent DNA polymerase)
RVT_2	PF07727	69 - 123	1.2e-07	Reverse transcriptase (RNA-dependent DNA polymerase)

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)

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Publication-ready

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Orthologous Genes (Group: OG0000889)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG00820
fragaria_vesca	FvH4_2g11011 FvH4_2g23061 FvH4_3g33302 FvH4_4g01631 FvH4_5g39270 FvH4_6g33903
malus_domestica	MD00G1024600.v1.1 MD00G1084700.v1.1 MD02G1303700.v1.1 MD03G1056000.v1.1 MD04G1231400.v1.1 MD05G1050400.v1.1 MD09G1100700.v1.1 MD09G1214100.v1.1 MD11G1146000.v1.1 MD11G1197500.v1.1 MD12G1020900.v1.1 MD12G1052500.v1.1 MD12G1175300.v1.1 MD12G1185900.v1.1 MD13G1050200.v1.1 MD13G1157100.v1.1 MD14G1109000.v1.1 MD14G1189500.v1.1 MD14G1225200.v1.1 MD16G1247000.v1.1 MD16G1278000.v1.1 MD17G1115400.v1.1 MD17G1248200.v1.1
pyrus_communis	pycom02g18580 pycom03g02970 pycom03g07840 pycom05g12390 pycom05g14310 pycom07g14010 pycom07g17390 pycom08g03700 pycom08g03730 pycom12g14660 pycom14g19040 pycom15g04630 pycom15g35310 pycom17g24840 pycom520g01050
rosa_chinensis	RchiOBHm_Chr2g0093581 RchiOBHm_Chr2g0139021 RchiOBHm_Chr2g0153961 RchiOBHm_Chr3g0454851 RchiOBHm_Chr3g0479941 RchiOBHm_Chr5g0074721 RchiOBHm_Chr7g0182831 RchiOBHm_Chr7g0210861 RchiOBHm_Chr7g0238261
rosa_roxburghii	Rroxscaffold_1G00010990 Rroxscaffold_1G00042070 Rroxscaffold_2G00082160 Rroxscaffold_3G00266700
rosa_wichuraiana	Rw1G002370 Rw2G026000 Rw3G024450 Rw4G009390 Rw5G000900 Rw5G015970 Rw6G031570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	39
AciI	CCGC	1 cut(s)	609
AclWI	GGATC	3 cut(s)	407, 423, 516
AcsI	RAATTY	1 cut(s)	215
AfaI	GTAC	2 cut(s)	211, 761
AfiI	CCNNNNNNNGG	3 cut(s)	39, 581, 769
AflIII	ACRYGT	1 cut(s)	336
AgsI	TTSAA	7 cut(s)	136, 263, 379, 410, 449, 590, 747
AluBI	AGCT	3 cut(s)	140, 353, 382
AluI	AGCT	3 cut(s)	140, 353, 382
Alw21I	GWGCWC	1 cut(s)	403
AlwI	GGATC	3 cut(s)	407, 423, 516
AoxI	GGCC	1 cut(s)	175
ApeKI	GCWGC	1 cut(s)	724
ApoI	RAATTY	1 cut(s)	215
AspS9I	GGNCC	1 cut(s)	236
AvaII	GGWCC	1 cut(s)	236
BbsI	GAAGAC	1 cut(s)	578
Bbv12I	GWGCWC	1 cut(s)	403
BbvI	GCAGC	1 cut(s)	736
BccI	CCATC	3 cut(s)	110, 286, 440
BcgI	CGANNNNNNTGC	2 cut(s)	746, 780
BciVI	GTATCC	1 cut(s)	562
BfaI	CTAG	2 cut(s)	519, 738
BfmI	CTRYAG	1 cut(s)	537
BfuI	GTATCC	1 cut(s)	562
BglII	AGATCT	2 cut(s)	229, 740
BisI	GCNGC	1 cut(s)	725
BlsI	GCNGC	1 cut(s)	726
Bme18I	GGWCC	1 cut(s)	236
BmgT120I	GGNCC	1 cut(s)	236
BmiI	GGNNCC	2 cut(s)	121, 606
BmsI	GCATC	3 cut(s)	34, 71, 619
BpiI	GAAGAC	1 cut(s)	578
BpuEI	CTTGAG	1 cut(s)	548
BsaJI	CCNNGG	1 cut(s)	253
Bsc4I	CCNNNNNNNGG	3 cut(s)	39, 581, 769
BseDI	CCNNGG	1 cut(s)	253
BseGI	GGATG	1 cut(s)	86
BseLI	CCNNNNNNNGG	3 cut(s)	39, 581, 769
BseXI	GCAGC	1 cut(s)	736
BsgI	GTGCAG	1 cut(s)	267
BshFI	GGCC	1 cut(s)	177
BsiHKAI	GWGCWC	1 cut(s)	403
BslI	CCNNNNNNNGG	3 cut(s)	39, 581, 769
BsnI	GGCC	1 cut(s)	177
Bsp1286I	GDGCHC	1 cut(s)	403
Bsp143I	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
BspACI	CCGC	1 cut(s)	609
BspANI	GGCC	1 cut(s)	177
BspHI	TCATGA	1 cut(s)	313
BspLI	GGNNCC	2 cut(s)	121, 606
BspPI	GGATC	3 cut(s)	407, 423, 516
BspQI	GCTCTTC	1 cut(s)	408
BssECI	CCNNGG	1 cut(s)	253
BssMI	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
BssT1I	CCWWGG	1 cut(s)	253
Bst4CI	ACNGT	3 cut(s)	541, 733, 764
Bst6I	CTCTTC	2 cut(s)	408, 813
BstC8I	GCNNGC	2 cut(s)	300, 355
BstENI	CCTNNNNNAGG	1 cut(s)	579
BstF5I	GGATG	1 cut(s)	86
BstKTI	GATC	6 cut(s)	232, 388, 415, 431, 524, 743
BstMBI	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
BstNSI	RCATGY	1 cut(s)	340
BstSFI	CTRYAG	1 cut(s)	537
BstV1I	GCAGC	1 cut(s)	736
BstV2I	GAAGAC	1 cut(s)	578
BstX2I	RGATCY	4 cut(s)	229, 412, 521, 740
BstYI	RGATCY	4 cut(s)	229, 412, 521, 740
BsuI	GTATCC	1 cut(s)	562
BsuRI	GGCC	1 cut(s)	177
BtsCI	GGATG	1 cut(s)	86
BtsI	GCAGTG	1 cut(s)	20
BtsIMutI	CAGTG	1 cut(s)	20
Cac8I	GCNNGC	2 cut(s)	300, 355
CciI	TCATGA	1 cut(s)	313
Cfr13I	GGNCC	1 cut(s)	236
CseI	GACGC	1 cut(s)	669
Csp6I	GTAC	2 cut(s)	210, 760
CspCI	CAANNNNNGTGG	2 cut(s)	514, 549
CviAII	CATG	4 cut(s)	223, 314, 337, 459
CviQI	GTAC	2 cut(s)	210, 760
DpnI	GATC	6 cut(s)	231, 387, 414, 430, 523, 742
DpnII	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
Eam1104I	CTCTTC	2 cut(s)	408, 813
EarI	CTCTTC	2 cut(s)	408, 813
Eco130I	CCWWGG	1 cut(s)	253
Eco147I	AGGCCT	1 cut(s)	177
Eco32I	GATATC	1 cut(s)	560
Eco47I	GGWCC	1 cut(s)	236
EcoNI	CCTNNNNNAGG	1 cut(s)	579
EcoRV	GATATC	1 cut(s)	560
EcoT14I	CCWWGG	1 cut(s)	253
ErhI	CCWWGG	1 cut(s)	253
FaeI	CATG	4 cut(s)	226, 317, 340, 462
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FatI	CATG	4 cut(s)	222, 313, 336, 458
FauI	CCCGC	1 cut(s)	616
Fnu4HI	GCNGC	1 cut(s)	725
FokI	GGATG	1 cut(s)	93
Fsp4HI	GCNGC	1 cut(s)	725
FspBI	CTAG	2 cut(s)	519, 738
GluI	GCNGC	1 cut(s)	725
HaeIII	GGCC	1 cut(s)	177
HgaI	GACGC	1 cut(s)	669
Hin1II	CATG	4 cut(s)	226, 317, 340, 462
HincII	GTYRAC	1 cut(s)	490
HindII	GTYRAC	1 cut(s)	490
HindIII	AAGCTT	1 cut(s)	351
HinfI	GANTC	3 cut(s)	43, 132, 344
Hpy166II	GTNNAC	2 cut(s)	239, 490
Hpy188I	TCNGA	1 cut(s)	98
Hpy188III	TCNNGA	3 cut(s)	314, 410, 575
Hpy8I	GTNNAC	2 cut(s)	239, 490
HpyAV	CCTTC	3 cut(s)	72, 369, 385
HpyCH4III	ACNGT	3 cut(s)	541, 733, 764
HpyCH4V	TGCA	8 cut(s)	25, 84, 152, 284, 511, 632, 716, 767
Hsp92II	CATG	4 cut(s)	226, 317, 340, 462
Kzo9I	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
LguI	GCTCTTC	1 cut(s)	408
LmnI	GCTCC	2 cut(s)	125, 668
LpnPI	CCDG	5 cut(s)	179, 381, 483, 588, 657
Lsp1109I	GCAGC	1 cut(s)	736
LweI	GCATC	3 cut(s)	34, 71, 619
MaeI	CTAG	2 cut(s)	519, 738
MaeIII	GTNAC	1 cut(s)	265
MalI	GATC	6 cut(s)	231, 387, 414, 430, 523, 742
MboI	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
MboII	GAAGA	7 cut(s)	241, 395, 398, 578, 692, 735, 800
MfeI	CAATTG	1 cut(s)	651
MflI	RGATCY	4 cut(s)	229, 412, 521, 740
MhlI	GDGCHC	1 cut(s)	403
MluCI	AATT	4 cut(s)	215, 503, 591, 651
MlyI	GAGTC	1 cut(s)	37
MmeI	TCCRAC	3 cut(s)	58, 321, 389
MnlI	CCTC	2 cut(s)	464, 635
MunI	CAATTG	1 cut(s)	651
NdeII	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
NlaIII	CATG	4 cut(s)	226, 317, 340, 462
NlaIV	GGNNCC	2 cut(s)	121, 606
NmeAIII	GCCGAG	1 cut(s)	781
NmuCI	GTSAC	1 cut(s)	265
NspI	RCATGY	1 cut(s)	340
PagI	TCATGA	1 cut(s)	313
PceI	AGGCCT	1 cut(s)	177
PciI	ACATGT	1 cut(s)	336
PciSI	GCTCTTC	1 cut(s)	408
PfeI	GAWTC	2 cut(s)	132, 344
PflMI	CCANNNNNTGG	1 cut(s)	39
PkrI	GCNGC	1 cut(s)	726
PleI	GAGTC	1 cut(s)	37
PpsI	GAGTC	1 cut(s)	37
PscI	ACATGT	1 cut(s)	336
PspN4I	GGNNCC	2 cut(s)	121, 606
PspPI	GGNCC	1 cut(s)	236
PsuI	RGATCY	4 cut(s)	229, 412, 521, 740
RsaI	GTAC	2 cut(s)	211, 761
RsaNI	GTAC	2 cut(s)	210, 760
SapI	GCTCTTC	1 cut(s)	408
SatI	GCNGC	1 cut(s)	725
Sau3AI	GATC	6 cut(s)	229, 385, 412, 428, 521, 740
Sau96I	GGNCC	1 cut(s)	236
SchI	GAGTC	1 cut(s)	37
SduI	GDGCHC	1 cut(s)	403
SfaNI	GCATC	3 cut(s)	34, 71, 619
SfcI	CTRYAG	1 cut(s)	537
SinI	GGWCC	1 cut(s)	236
SmlI	CTYRAG	2 cut(s)	15, 563
SmoI	CTYRAG	2 cut(s)	15, 563
Sse9I	AATT	4 cut(s)	215, 503, 591, 651
SseBI	AGGCCT	1 cut(s)	177
SsiI	CCGC	1 cut(s)	609
SspMI	CTAG	2 cut(s)	519, 738
StuI	AGGCCT	1 cut(s)	177
StyI	CCWWGG	1 cut(s)	253
TaaI	ACNGT	3 cut(s)	541, 733, 764
TaqI	TCGA	2 cut(s)	142, 384
TasI	AATT	4 cut(s)	215, 503, 591, 651
TfiI	GAWTC	2 cut(s)	132, 344
TscAI	CASTG	1 cut(s)	27
TseFI	GTSAC	1 cut(s)	265
TseI	GCWGC	1 cut(s)	724
Tsp45I	GTSAC	1 cut(s)	265
TspDTI	ATGAA	4 cut(s)	17, 24, 239, 302
TspGWI	ACGGA	1 cut(s)	764
TspRI	CASTG	1 cut(s)	27
Van91I	CCANNNNNTGG	1 cut(s)	39
VpaK11BI	GGWCC	1 cut(s)	236
XagI	CCTNNNNNAGG	1 cut(s)	579
XapI	RAATTY	1 cut(s)	215
XceI	RCATGY	1 cut(s)	340
XspI	CTAG	2 cut(s)	519, 738

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