Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001261

Physical Location & Seq

Genomic Coordinates Forward (+)

5726030 .. 5728446

Gene Structure 2417 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG028300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGATTGAAGAATATGACAATTATCTCGGACCTGGGAGTGTCGTGGAGATATTGTCAGATGTACCGTTAGATGACAGAAATAAGGCAAGAAAAGGTGCCGGTCAAGCCAAACTAAAACATGTGCAGGTTTCACATAGGATTGGAAACCCAATGAACTTTGACACTTTACAAGAAACCATAAGCAATATCCAACATTCTTTGAAGAATGAAGATATTCCCTTATCCATTGTTGTAATATCCGATAGAGAATGGCTTCTTGGAGATCCAAACAGGGCAGACAAGCAATCCGCCTATTCCCTTCTTCTTGCTGAAAATATTTGCAACAAACTTGGCGTAAAGGTGCAGAATCTAGTTGCGGAAATCGTGGACTCGAAATTGGGGAAACAAATCACAAGAATAAAGCCATCCCTGACTTATATTGCCGCGGAGGAAGTAATGAGCCTCGTAACAGCTCAAGTTGCTGAGGACAGTGAACTAAATGAGGTGTGGAAAGACATTCTGGATGCAGACGGTGATGAAATATATGTGAAGGATATCAAACTCTATATGAAAGAAGGAGAGACTCCATCCTTCACGGAGCTTGCTGAAAGAGCTCACTTACGGAAGGAAGTTGCCATAGGTTATGTGAAAAACAATAAGAAGGTTGTTAATCCAGTTCCCAAGTCAGAACCCCTCTCCCTTGAGTTGACAGATTCGTTAATAGTTATATCTGAACTTGAAGGAGAACAACCGGTCATTATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Castor_Poll_mid

Protein Analysis

247

Amino Acids

27.55

Weight (kDa)

4.85

Isoelectric Point (pI)

37.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Castor_Poll_mid	PF06241	143 - 241	3.3e-06	Castor and Pollux, part of voltage-gated ion channel

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0001261)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G02940 AT5G02940 AT5G43745
fragaria_vesca	FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230 FvH4_4g02230
malus_domestica	MD11G1069300.v1.1 MD13G1204000.v1.1 MD16G1206000.v1.1
prunus_persica	Prupe.1G027100_v2.0.a1 Prupe.1G027100_v2.0.a1 Prupe.1G027100_v2.0.a1
pyrus_communis	pycom11g05780 pycom13g17720
rosa_chinensis	RchiOBHm_Chr4g0389551 RchiOBHm_Chr4g0389561 RchiOBHm_Chr4g0389571 RchiOBHm_Chr4g0389581
rosa_laevigata	RLG00000009970 RLG00000009971 RLG00000009972
rosa_multiflora	Rmu_co8238337.1_g000001 Rmu_co8398985.1_g000001 Rmu_sc0010540.1_g000001 Rmu_ssc0000478.1_g000001 Rmu_ssc0000478.1_g000002 Rmu_ssc0000478.1_g000006
rosa_roxburghii	Rroxscaffold_5G00335510 Rroxscaffold_5G00335520 Rroxscaffold_5G00335530
rosa_rugosa	Rorug03G0324000
rosa_samantha	Rh2BG306500 Rh2CG284600 Rh4AG028300 Rh4AG028400 Rh4AG028500 Rh4BG021500 Rh4BG021600 Rh4BG021700 Rh4CG030500 Rh4CG030700 Rh4DG022100 Rh4DG022200 Rh4DG022300
rosa_wichuraiana	Rw4G002110 Rw4G002120 Rw4G002130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	115
AccB1I	GGYRCC	1 cut(s)	95
AccII	CGCG	1 cut(s)	425
AciI	CCGC	4 cut(s)	288, 356, 423, 425
AclWI	GGATC	1 cut(s)	257
AfaI	GTAC	1 cut(s)	63
AflIII	ACRYGT	1 cut(s)	118
AgeI	ACCGGT	1 cut(s)	730
AgsI	TTSAA	3 cut(s)	8, 202, 719
AjnI	CCWGG	1 cut(s)	31
AjuI	GAANNNNNNNTTGG	2 cut(s)	240, 272
AluBI	AGCT	3 cut(s)	452, 580, 593
AluI	AGCT	3 cut(s)	452, 580, 593
Alw21I	GWGCWC	1 cut(s)	595
Alw26I	GTCTC	1 cut(s)	554
AlwI	GGATC	1 cut(s)	257
AsiGI	ACCGGT	1 cut(s)	730
Asp700I	GAANNNNTTC	2 cut(s)	213, 252
AspS9I	GGNCC	1 cut(s)	29
AsuHPI	GGTGA	1 cut(s)	524
AvaII	GGWCC	1 cut(s)	29
BanI	GGYRCC	1 cut(s)	95
BanII	GRGCYC	1 cut(s)	595
Bbv12I	GWGCWC	1 cut(s)	595
BbvCI	CCTCAGC	1 cut(s)	462
BccI	CCATC	2 cut(s)	412, 574
BciT130I	CCWGG	1 cut(s)	33
BcoDI	GTCTC	1 cut(s)	554
BfaI	CTAG	1 cut(s)	350
BfuAI	ACCTGC	1 cut(s)	115
BisI	GCNGC	1 cut(s)	423
BlsI	GCNGC	1 cut(s)	424
Bme1390I	CCNGG	1 cut(s)	33
Bme18I	GGWCC	1 cut(s)	29
BmgT120I	GGNCC	1 cut(s)	29
BmiI	GGNNCC	1 cut(s)	97
BmrFI	CCNGG	1 cut(s)	33
BmsI	GCATC	1 cut(s)	493
Bpu10I	CCTNAGC	1 cut(s)	462
BpuEI	CTTGAG	2 cut(s)	438, 701
BsaJI	CCNNGG	2 cut(s)	32, 423
BsaWI	WCCGGW	1 cut(s)	730
BsaXI	ACNNNNNCTCC	2 cut(s)	38, 68
Bse118I	RCCGGY	2 cut(s)	98, 730
Bse1I	ACTGG	1 cut(s)	653
BseBI	CCWGG	1 cut(s)	33
BseDI	CCNNGG	2 cut(s)	32, 423
BseGI	GGATG	3 cut(s)	404, 508, 566
BseMII	CTCAG	1 cut(s)	453
BseNI	ACTGG	1 cut(s)	653
BsgI	GTGCAG	2 cut(s)	143, 362
Bsh1236I	CGCG	1 cut(s)	425
BshNI	GGYRCC	1 cut(s)	95
BshTI	ACCGGT	1 cut(s)	730
BsiHKAI	GWGCWC	1 cut(s)	595
BsiSI	CCGG	2 cut(s)	99, 731
BsmAI	GTCTC	1 cut(s)	554
Bsp1286I	GDGCHC	1 cut(s)	595
Bsp143I	GATC	1 cut(s)	262
BspACI	CCGC	4 cut(s)	288, 356, 423, 425
BspCNI	CTCAG	1 cut(s)	454
BspFNI	CGCG	1 cut(s)	425
BspLI	GGNNCC	1 cut(s)	97
BspMI	ACCTGC	1 cut(s)	115
BspPI	GGATC	1 cut(s)	257
BspT107I	GGYRCC	1 cut(s)	95
BsrFI	RCCGGY	2 cut(s)	98, 730
BsrI	ACTGG	1 cut(s)	653
BssAI	RCCGGY	2 cut(s)	98, 730
BssECI	CCNNGG	2 cut(s)	32, 423
BssMI	GATC	1 cut(s)	262
Bst2UI	CCWGG	1 cut(s)	33
Bst4CI	ACNGT	3 cut(s)	66, 470, 512
BstC8I	GCNNGC	1 cut(s)	582
BstDEI	CTNAG	1 cut(s)	462
BstDSI	CCRYGG	1 cut(s)	423
BstF5I	GGATG	3 cut(s)	404, 508, 566
BstFNI	CGCG	1 cut(s)	425
BstKTI	GATC	1 cut(s)	265
BstMAI	GTCTC	1 cut(s)	554
BstMBI	GATC	1 cut(s)	262
BstMWI	GCNNNNNNNGC	3 cut(s)	104, 458, 590
BstNI	CCWGG	1 cut(s)	33
BstNSI	RCATGY	1 cut(s)	122
BstSCI	CCNGG	1 cut(s)	31
BstUI	CGCG	1 cut(s)	425
BstX2I	RGATCY	1 cut(s)	262
BstYI	RGATCY	1 cut(s)	262
BtgI	CCRYGG	1 cut(s)	423
BtsCI	GGATG	3 cut(s)	404, 508, 566
BtsIMutI	CAGTG	1 cut(s)	475
BveI	ACCTGC	1 cut(s)	115
Cac8I	GCNNGC	1 cut(s)	582
Cfr10I	RCCGGY	2 cut(s)	98, 730
Cfr13I	GGNCC	1 cut(s)	29
Cfr42I	CCGCGG	1 cut(s)	426
Csp6I	GTAC	1 cut(s)	62
CspAI	ACCGGT	1 cut(s)	730
CviAII	CATG	1 cut(s)	119
CviJI	RGCY	7 cut(s)	107, 253, 403, 441, 452, 580, 593
CviKI_1	RGCY	7 cut(s)	107, 253, 403, 441, 452, 580, 593
CviQI	GTAC	1 cut(s)	62
DdeI	CTNAG	1 cut(s)	462
DpnI	GATC	1 cut(s)	264
DpnII	GATC	1 cut(s)	262
EciI	GGCGGA	1 cut(s)	277
Ecl136II	GAGCTC	1 cut(s)	593
Eco24I	GRGCYC	1 cut(s)	595
Eco32I	GATATC	1 cut(s)	535
Eco47I	GGWCC	1 cut(s)	29
Eco53kI	GAGCTC	1 cut(s)	593
EcoICRI	GAGCTC	1 cut(s)	593
EcoRII	CCWGG	1 cut(s)	31
EcoRV	GATATC	1 cut(s)	535
EcoT38I	GRGCYC	1 cut(s)	595
FaeI	CATG	1 cut(s)	122
FatI	CATG	1 cut(s)	118
Fnu4HI	GCNGC	1 cut(s)	423
FokI	GGATG	3 cut(s)	391, 515, 553
FriOI	GRGCYC	1 cut(s)	595
Fsp4HI	GCNGC	1 cut(s)	423
FspBI	CTAG	1 cut(s)	350
GluI	GCNGC	1 cut(s)	423
HapII	CCGG	2 cut(s)	99, 731
Hin1II	CATG	1 cut(s)	122
HincII	GTYRAC	1 cut(s)	687
HindII	GTYRAC	1 cut(s)	687
HinfI	GANTC	4 cut(s)	346, 368, 562, 692
HpaII	CCGG	2 cut(s)	99, 731
HphI	GGTGA	1 cut(s)	524
Hpy166II	GTNNAC	3 cut(s)	367, 473, 687
Hpy188I	TCNGA	5 cut(s)	29, 58, 241, 667, 712
Hpy188III	TCNNGA	1 cut(s)	500
Hpy8I	GTNNAC	3 cut(s)	367, 473, 687
HpyAV	CCTTC	7 cut(s)	308, 523, 548, 580, 598, 634, 713
HpyCH4III	ACNGT	3 cut(s)	66, 470, 512
HpyCH4V	TGCA	4 cut(s)	124, 321, 343, 506
HpyF10VI	GCNNNNNNNGC	3 cut(s)	104, 458, 590
HpyF3I	CTNAG	1 cut(s)	462
Hsp92II	CATG	1 cut(s)	122
KspI	CCGCGG	1 cut(s)	426
Kzo9I	GATC	1 cut(s)	262
LmnI	GCTCC	1 cut(s)	577
LpnPI	CCDG	8 cut(s)	18, 45, 110, 112, 256, 422, 485, 666
LweI	GCATC	1 cut(s)	493
MaeI	CTAG	1 cut(s)	350
MaeIII	GTNAC	1 cut(s)	445
MalI	GATC	1 cut(s)	264
MboI	GATC	1 cut(s)	262
MboII	GAAGA	4 cut(s)	20, 214, 221, 293
MflI	RGATCY	1 cut(s)	262
MhlI	GDGCHC	1 cut(s)	595
MluCI	AATT	2 cut(s)	19, 374
MlyI	GAGTC	2 cut(s)	362, 556
MmeI	TCCRAC	1 cut(s)	214
MnlI	CCTC	5 cut(s)	421, 452, 457, 475, 683
MroXI	GAANNNNTTC	2 cut(s)	213, 252
MseI	TTAA	2 cut(s)	648, 698
MspA1I	CMGCKG	1 cut(s)	425
MspI	CCGG	2 cut(s)	99, 731
MspR9I	CCNGG	1 cut(s)	33
MvaI	CCWGG	1 cut(s)	33
MvnI	CGCG	1 cut(s)	425
MwoI	GCNNNNNNNGC	3 cut(s)	104, 458, 590
NdeII	GATC	1 cut(s)	262
NlaIII	CATG	1 cut(s)	122
NlaIV	GGNNCC	1 cut(s)	97
NspI	RCATGY	1 cut(s)	122
PciI	ACATGT	1 cut(s)	118
PdmI	GAANNNNTTC	2 cut(s)	213, 252
PfeI	GAWTC	2 cut(s)	346, 692
PinAI	ACCGGT	1 cut(s)	730
PkrI	GCNGC	1 cut(s)	424
PleI	GAGTC	2 cut(s)	362, 556
PpsI	GAGTC	2 cut(s)	362, 556
PscI	ACATGT	1 cut(s)	118
Psp124BI	GAGCTC	1 cut(s)	595
Psp6I	CCWGG	1 cut(s)	31
PspGI	CCWGG	1 cut(s)	31
PspN4I	GGNNCC	1 cut(s)	97
PspPI	GGNCC	1 cut(s)	29
PsuI	RGATCY	1 cut(s)	262
RsaI	GTAC	1 cut(s)	63
RsaNI	GTAC	1 cut(s)	62
SacI	GAGCTC	1 cut(s)	595
SacII	CCGCGG	1 cut(s)	426
SaqAI	TTAA	2 cut(s)	648, 698
SatI	GCNGC	1 cut(s)	423
Sau3AI	GATC	1 cut(s)	262
Sau96I	GGNCC	1 cut(s)	29
SchI	GAGTC	2 cut(s)	362, 556
ScrFI	CCNGG	1 cut(s)	33
SduI	GDGCHC	1 cut(s)	595
SfaNI	GCATC	1 cut(s)	493
Sfr303I	CCGCGG	1 cut(s)	426
SgrBI	CCGCGG	1 cut(s)	426
SinI	GGWCC	1 cut(s)	29
SmlI	CTYRAG	2 cut(s)	453, 680
SmoI	CTYRAG	2 cut(s)	453, 680
Sse9I	AATT	2 cut(s)	19, 374
SsiI	CCGC	4 cut(s)	288, 356, 423, 425
SspI	AATATT	1 cut(s)	316
SspMI	CTAG	1 cut(s)	350
SstI	GAGCTC	1 cut(s)	595
StyD4I	CCNGG	1 cut(s)	31
TaaI	ACNGT	3 cut(s)	66, 470, 512
TaqI	TCGA	1 cut(s)	371
TasI	AATT	2 cut(s)	19, 374
TauI	GCSGC	1 cut(s)	425
TfiI	GAWTC	2 cut(s)	346, 692
Tru1I	TTAA	2 cut(s)	648, 698
Tru9I	TTAA	2 cut(s)	648, 698
TscAI	CASTG	1 cut(s)	475
TspDTI	ATGAA	4 cut(s)	167, 222, 531, 563
TspGWI	ACGGA	2 cut(s)	590, 616
TspRI	CASTG	1 cut(s)	475
VpaK11BI	GGWCC	1 cut(s)	29
XceI	RCATGY	1 cut(s)	122
XmnI	GAANNNNTTC	2 cut(s)	213, 252
XspI	CTAG	1 cut(s)	350

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