Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0003952

Physical Location & Seq

Genomic Coordinates Reverse (-)

3103911 .. 3110441

Gene Structure 6531 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG045200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 987 bp

ATGATGAATTCAATCGTGGAGATTCATCCCAAAGAATTGAAGTTCATAGTTGAGTTGAAGAAGCAAAGCTCATGCTCAATTCGACTTACCAACACGTCCGACCACCATGTTGCTTTTAAGGTTAAAACTACATCCCCCAAGAAATACTGTGTGCGACCAAATGTAGGTGTTATCTTGCCAAAATCAGCTTGTGAATTTTCAGTTACAATGCAAGCTCAAAAGACAGCTCTGCCTGATATGGATTGCAGAGATAAGTTCTTAATCCAAAGCACAATTGTTTCTTCTGGGACAACTGACGCGGGTATTACAGCTAGCATGTTTGCTAAAGATGAGGGCAAATACGTTGAAGAGAAAAAGCTAAGAGTAATCCTTATCAGCCCACCTGATTCGCCAATTCTGTCACCAATCAAGGTAGACTTGAAGCAAGGGCAGGGCAATGAAGCTTCAATACTAAATGATCAAGTATTTGGTGGAGTAGAAACCCTCCCTCAACACAAAATGGTTACAAAGGATGTGAAGTTCAGAGTTGTCAATAGTGAGGAGTCAAAGCCATCAAAGGATACTGAGGTGAAACCAGCCAAGCATGTGGAATTGAAACTAAGAAAAGAAGAGGAGTTGAAACCAGCAAAGGCTGTGGAATTGAAATTACCAAAATATGAGGTAAAAGCAATAAATGCTGTGGAGTCAAGGCCAACATATGCTACGGATGTGGAACCAGCCAGAGATGTGGAGTTAGAACCAGTTGATGTGGTGGAATTGGAACCAGCAAAAGATATGGAGTTGAAACCATCAGAGGATTTGCTTTTGAAACTAGCAAAAGAGCAGGAGGCTGATAAAGCACAGGTTGTGGAAAATTTGAAGTTAGTTAAAGATATTGAGGAGATGAAATCAAAGCTACTTGAACTTGAACTAAAGCTGAGCCAGGTTTGGTCTTTTCTGAATTTTTTTTTCCAAATTTTCAATTGCGTGTACAAACCCCGACTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0005886 GO:0006810 GO:0008150 GO:0012505 GO:0016020 GO:0031984 GO:0042175 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0071944 GO:0098827

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Motile_Sperm

Protein Analysis

328

Amino Acids

37.01

Weight (kDa)

6.98

Isoelectric Point (pI)

37.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Motile_Sperm	PF00635	6 - 111	2.6e-31	MSP (Major sperm protein) domain
Cep192_D6	PF22076	6 - 73	8.6e-06	Cep192 domain 6

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0003952)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g04180 FvH4_6g04180 FvH4_6g04180 FvH4_6g04180 FvH4_6g04180 FvH4_6g04180 FvH4_6g04180
malus_domestica	MD00G1052100.v1.1 MD12G1230200.v1.1
prunus_persica	Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335400_v2.0.a1 Prupe.6G335500_v2.0.a1
pyrus_communis	pycom04g19010 pycom12g21400
rosa_chinensis	RchiOBHm_Chr0c30g0501241 RchiOBHm_Chr0c30g0501251 RchiOBHm_Chr3g0452761 RchiOBHm_Chr3g0452781
rosa_laevigata	RLG00000025570
rosa_multiflora	Rmu_ssc0000156.1_g000002
rosa_roxburghii	Rroxscaffold_6G00429760
rosa_rugosa	Rorug02G0643000
rosa_samantha	Rh3AG045200 Rh3BG047700 Rh3CG046200 Rh3DG046500
rosa_wichuraiana	Rw3G003560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	414
AccII	CGCG	1 cut(s)	299
AciI	CCGC	1 cut(s)	299
AcsI	RAATTY	5 cut(s)	7, 194, 853, 940, 954
AfaI	GTAC	1 cut(s)	971
AfiI	CCNNNNNNNGG	1 cut(s)	164
AflIII	ACRYGT	1 cut(s)	93
AjiI	CACGTC	1 cut(s)	96
AjnI	CCWGG	1 cut(s)	921
AloI	GAACNNNNNNTCC	2 cut(s)	503, 535
AluBI	AGCT	9 cut(s)	69, 188, 215, 227, 311, 358, 443, 895, 916
AluI	AGCT	9 cut(s)	69, 188, 215, 227, 311, 358, 443, 895, 916
AoxI	GGCC	1 cut(s)	689
ApoI	RAATTY	5 cut(s)	7, 194, 853, 940, 954
AsuHPI	GGTGA	2 cut(s)	393, 580
AsuNHI	GCTAGC	1 cut(s)	311
BaeI	ACNNNNGTAYC	2 cut(s)	552, 585
BarI	GAAGNNNNNNTAC	2 cut(s)	432, 464
BccI	CCATC	2 cut(s)	559, 796
BciT130I	CCWGG	1 cut(s)	923
BciVI	GTATCC	1 cut(s)	553
BclI	TGATCA	1 cut(s)	457
BfaI	CTAG	3 cut(s)	312, 812, 985
BfuI	GTATCC	1 cut(s)	553
BlpI	GCTNAGC	1 cut(s)	917
Bme1390I	CCNGG	1 cut(s)	923
BmgBI	CACGTC	1 cut(s)	96
BmiI	GGNNCC	2 cut(s)	714, 762
BmrFI	CCNGG	1 cut(s)	923
BmtI	GCTAGC	1 cut(s)	315
Bpu1102I	GCTNAGC	1 cut(s)	917
Bsc4I	CCNNNNNNNGG	1 cut(s)	164
Bse1I	ACTGG	1 cut(s)	740
Bse3DI	GCAATG	1 cut(s)	442
BseBI	CCWGG	1 cut(s)	923
BseGI	GGATG	4 cut(s)	25, 131, 517, 712
BseLI	CCNNNNNNNGG	1 cut(s)	164
BseMI	GCAATG	1 cut(s)	442
BseMII	CTCAG	2 cut(s)	555, 908
BseNI	ACTGG	1 cut(s)	740
BseRI	GAGGAG	3 cut(s)	554, 626, 893
Bsh1236I	CGCG	1 cut(s)	299
BshFI	GGCC	1 cut(s)	691
BslFI	GGGAC	1 cut(s)	301
BslI	CCNNNNNNNGG	1 cut(s)	164
BsmFI	GGGAC	1 cut(s)	301
BsnI	GGCC	1 cut(s)	691
Bsp1407I	TGTACA	1 cut(s)	969
Bsp143I	GATC	1 cut(s)	457
Bsp1720I	GCTNAGC	1 cut(s)	917
BspACI	CCGC	1 cut(s)	299
BspANI	GGCC	1 cut(s)	691
BspCNI	CTCAG	2 cut(s)	556, 909
BspFNI	CGCG	1 cut(s)	299
BspLI	GGNNCC	2 cut(s)	714, 762
BspOI	GCTAGC	1 cut(s)	315
BsrDI	GCAATG	1 cut(s)	442
BsrGI	TGTACA	1 cut(s)	969
BsrI	ACTGG	1 cut(s)	740
BssMI	GATC	1 cut(s)	457
Bst2UI	CCWGG	1 cut(s)	923
Bst4CI	ACNGT	1 cut(s)	149
Bst6I	CTCTTC	2 cut(s)	342, 603
BstAPI	GCANNNNNTGC	1 cut(s)	674
BstAUI	TGTACA	1 cut(s)	969
BstC8I	GCNNGC	2 cut(s)	213, 313
BstDEI	CTNAG	4 cut(s)	359, 564, 599, 917
BstF5I	GGATG	4 cut(s)	25, 131, 517, 712
BstFNI	CGCG	1 cut(s)	299
BstKTI	GATC	1 cut(s)	460
BstMBI	GATC	1 cut(s)	457
BstMWI	GCNNNNNNNGC	2 cut(s)	674, 836
BstNI	CCWGG	1 cut(s)	923
BstNSI	RCATGY	2 cut(s)	319, 587
BstSCI	CCNGG	1 cut(s)	921
BstUI	CGCG	1 cut(s)	299
BstXI	CCANNNNNNTGG	2 cut(s)	586, 727
BsuI	GTATCC	1 cut(s)	553
BsuRI	GGCC	1 cut(s)	691
BtrI	CACGTC	1 cut(s)	96
BtsCI	GGATG	4 cut(s)	25, 131, 517, 712
Cac8I	GCNNGC	2 cut(s)	213, 313
CseI	GACGC	1 cut(s)	305
Csp6I	GTAC	1 cut(s)	970
CspCI	CAANNNNNGTGG	2 cut(s)	615, 650
CviAII	CATG	4 cut(s)	72, 107, 316, 584
CviQI	GTAC	1 cut(s)	970
DdeI	CTNAG	4 cut(s)	359, 564, 599, 917
DpnI	GATC	1 cut(s)	459
DpnII	GATC	1 cut(s)	457
Eam1104I	CTCTTC	2 cut(s)	342, 603
EarI	CTCTTC	2 cut(s)	342, 603
EcoRI	GAATTC	1 cut(s)	7
EcoRII	CCWGG	1 cut(s)	921
FaeI	CATG	4 cut(s)	75, 110, 319, 587
FalI	AAGNNNNNCTT	2 cut(s)	401, 433
FaqI	GGGAC	1 cut(s)	301
FatI	CATG	4 cut(s)	71, 106, 315, 583
FauI	CCCGC	1 cut(s)	292
FauNDI	CATATG	1 cut(s)	697
FbaI	TGATCA	1 cut(s)	457
FblI	GTMKAC	1 cut(s)	414
FokI	GGATG	4 cut(s)	12, 118, 524, 719
FspBI	CTAG	3 cut(s)	312, 812, 985
HaeIII	GGCC	1 cut(s)	691
HgaI	GACGC	1 cut(s)	305
Hin1II	CATG	4 cut(s)	75, 110, 319, 587
HindIII	AAGCTT	1 cut(s)	441
HinfI	GANTC	5 cut(s)	22, 386, 542, 683, 981
HphI	GGTGA	2 cut(s)	393, 580
Hpy166II	GTNNAC	2 cut(s)	415, 970
Hpy188I	TCNGA	4 cut(s)	100, 524, 793, 939
Hpy8I	GTNNAC	2 cut(s)	415, 970
HpyCH4III	ACNGT	1 cut(s)	149
HpyCH4IV	ACGT	2 cut(s)	95, 342
HpyCH4V	TGCA	2 cut(s)	211, 246
HpyF10VI	GCNNNNNNNGC	2 cut(s)	674, 836
HpyF3I	CTNAG	4 cut(s)	359, 564, 599, 917
HpySE526I	ACGT	2 cut(s)	95, 342
Hsp92II	CATG	4 cut(s)	75, 110, 319, 587
Ksp22I	TGATCA	1 cut(s)	457
Kzo9I	GATC	1 cut(s)	457
MaeI	CTAG	3 cut(s)	312, 812, 985
MaeII	ACGT	2 cut(s)	95, 342
MaeIII	GTNAC	3 cut(s)	202, 399, 502
MalI	GATC	1 cut(s)	459
MboI	GATC	1 cut(s)	457
MboII	GAAGA	4 cut(s)	70, 273, 359, 620
MfeI	CAATTG	2 cut(s)	273, 961
MlyI	GAGTC	3 cut(s)	551, 692, 975
MmeI	TCCRAC	1 cut(s)	123
MseI	TTAA	4 cut(s)	117, 123, 260, 867
MspR9I	CCNGG	1 cut(s)	923
MunI	CAATTG	2 cut(s)	273, 961
MvaI	CCWGG	1 cut(s)	923
MvnI	CGCG	1 cut(s)	299
MwoI	GCNNNNNNNGC	2 cut(s)	674, 836
NdeI	CATATG	1 cut(s)	697
NdeII	GATC	1 cut(s)	457
NheI	GCTAGC	1 cut(s)	311
NlaIII	CATG	4 cut(s)	75, 110, 319, 587
NlaIV	GGNNCC	2 cut(s)	714, 762
NmuCI	GTSAC	1 cut(s)	399
NspI	RCATGY	2 cut(s)	319, 587
PfeI	GAWTC	2 cut(s)	22, 386
PleI	GAGTC	3 cut(s)	550, 691, 975
PpsI	GAGTC	3 cut(s)	550, 691, 975
Psp6I	CCWGG	1 cut(s)	921
PspGI	CCWGG	1 cut(s)	921
PspN4I	GGNNCC	2 cut(s)	714, 762
RsaI	GTAC	1 cut(s)	971
RsaNI	GTAC	1 cut(s)	970
SaqAI	TTAA	4 cut(s)	117, 123, 260, 867
Sau3AI	GATC	1 cut(s)	457
SchI	GAGTC	3 cut(s)	551, 692, 975
ScrFI	CCNGG	1 cut(s)	923
SsiI	CCGC	1 cut(s)	299
SspMI	CTAG	3 cut(s)	312, 812, 985
StyD4I	CCNGG	1 cut(s)	921
TaaI	ACNGT	1 cut(s)	149
TaiI	ACGT	2 cut(s)	98, 345
TaqI	TCGA	1 cut(s)	82
TatI	WGTACW	1 cut(s)	969
TfiI	GAWTC	2 cut(s)	22, 386
Tru1I	TTAA	4 cut(s)	117, 123, 260, 867
Tru9I	TTAA	4 cut(s)	117, 123, 260, 867
TseFI	GTSAC	1 cut(s)	399
Tsp45I	GTSAC	1 cut(s)	399
TspDTI	ATGAA	5 cut(s)	14, 20, 34, 453, 899
TspGWI	ACGGA	1 cut(s)	719
XapI	RAATTY	5 cut(s)	7, 194, 853, 940, 954
XceI	RCATGY	2 cut(s)	319, 587
XmiI	GTMKAC	1 cut(s)	414
XspI	CTAG	3 cut(s)	312, 812, 985

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