Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0014681

Physical Location & Seq

Genomic Coordinates Reverse (-)

384825 .. 385996

Gene Structure 1172 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG006000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1050 bp

ATGGCTAGTGATCATGATGTTAAACAAGCCTTGCTTTCTGAGAAGAACGATCGTTCTCAACTTAGTAACGAAAAGAATGTAGTCGTCAAGAGAAGAAAAAACCGCCAAGATAAAAACCACCTCAACCAAAATGAAGTAGTAATACAGACTCCTGCAGATTGTGAGCCAATGTATGTGAAACCACAGTTTAGTTTAAAGCAAGTGGTCTTGATGTTGATTTCATACATAGGTGGAGGCACCTTCTGTTTTTTCCTGGTCAGGAATCAGATTAAAGGCGAAAAAACAAATCCAATTCTTGATTCCATGTACTTGTGTGTAGTCACAATGAGCACTGTAGGATATGGAGACCTTGTTCCCAATAGCCCAATGGCAAAGCTACTTGCGTGTATTTTTGTGTTCTCTGGAATGGCTCTTGTTGGTTTGATTCTTGGCAAGGCAGCAGATTACATTGTAGAGAAGCAGGAAGTGCTTTTGGTCAGGGCCATACACTTCCACGAAAAAGTTGTCCCTGCCGAGCTTCTTAAGGAGGTTGAATTAGACAAAGTCAAGTTCAAATGTATTACTGCAGGAATCCTTCTTGTGTTACTTTTTGTAATTGGAACTGTGTTCTTGTGTGTGGTTGAGGAACTGGAAGTTTTGGATGCTATCTATTGCGTTTGTTCCACCATTACTACTCTCGGTTACGGGGATAAGAGCTTCTCAACTGCAGCTGGTCGAAGTTTTGCTGTGTTGTGGATAATTTCAAGTACAGTTTGCTTAGCACAATTCTATCTCTACCTTGCTGAACTCTACACTGAAAGAAGGCAGAGATCACTCGTCAGGTGGGTGCTTACTCGAAGATTGACGCCCTCCGATCTTGAAGAAGCAGATCTTGATCACGATAAAGTCGTCAGTGCTTCCGAGTTTGTGATATATAAGTTGAAGGAAATGGGGAAGATCAGCCAGGAGGATGTTTCACTTGTCATGGAAACTTTCAAGAAGCTTGACATTGATCACTCAGGAACTTTGACAGCATCTGATCTATCACCGCCAACACCCCGTCAAGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0003674 GO:0005215 GO:0005216 GO:0005242 GO:0005244 GO:0005249 GO:0005261 GO:0005267 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005886 GO:0005887 GO:0006810 GO:0006811 GO:0006812 GO:0006813 GO:0006873 GO:0006875 GO:0008150 GO:0008324 GO:0009705 GO:0009987 GO:0010029 GO:0010119 GO:0015075 GO:0015077 GO:0015079 GO:0015267 GO:0015276 GO:0015318 GO:0015672 GO:0016020 GO:0016021 GO:0016043 GO:0019725 GO:0022607 GO:0022803 GO:0022832 GO:0022834 GO:0022836 GO:0022838 GO:0022839 GO:0022840 GO:0022841 GO:0022842 GO:0022843 GO:0022857 GO:0022890 GO:0030001 GO:0030003 GO:0030004 GO:0030007 GO:0030322 GO:0031004 GO:0031090 GO:0031224 GO:0031226 GO:0032991 GO:0034220 GO:0042391 GO:0042592 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044425 GO:0044437 GO:0044444 GO:0044446 GO:0044459 GO:0044464 GO:0046873 GO:0048580 GO:0048878 GO:0050789 GO:0050793 GO:0050794 GO:0050801 GO:0051179 GO:0051234 GO:0051239 GO:0051259 GO:0051260 GO:0055065 GO:0055067 GO:0055075 GO:0055080 GO:0055082 GO:0055085 GO:0065003 GO:0065007 GO:0065008 GO:0071804 GO:0071805 GO:0071840 GO:0071944 GO:0090533 GO:0098533 GO:0098588 GO:0098655 GO:0098660 GO:0098662 GO:0098771 GO:0098796 GO:0098805 GO:0099094 GO:1900140 GO:1902494 GO:1902495 GO:1904949 GO:1990351 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ion_trans_2

Protein Analysis

349

Amino Acids

39.12

Weight (kDa)

6.34

Isoelectric Point (pI)

37.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ion_trans_2	PF07885	71 - 151	4e-16	Ion channel
Ion_trans	PF00520	88 - 154	3.2e-06	Ion transport protein
Ion_trans_2	PF07885	191 - 265	2.5e-13	Ion channel

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

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Orthologous Genes (Group: OG0014681)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g00500 FvH4_3g00500
malus_domestica	MD00G1057000.v1.1 MD10G1337300.v1.1
prunus_persica	Prupe.4G005900_v2.0.a1 Prupe.4G005900_v2.0.a1 Prupe.4G005900_v2.0.a1
pyrus_communis	pycom10g28670
rosa_chinensis	RchiOBHm_Chr5g0000671
rosa_laevigata	RLG00000030886
rosa_multiflora	Rmu_sc0011992.1_g000010
rosa_rugosa	Rorug04G0385500
rosa_samantha	Rh5AG005600 Rh5BG007200 Rh5CG006000 Rh5DG006000
rosa_wichuraiana	Rw5G000570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	236
AciI	CCGC	2 cut(s)	103, 1028
AcyI	GRCGYC	1 cut(s)	845
AfaI	GTAC	2 cut(s)	308, 748
AflII	CTTAAG	1 cut(s)	521
AgsI	TTSAA	6 cut(s)	533, 553, 744, 860, 922, 976
AjnI	CCWGG	2 cut(s)	252, 942
AjuI	GAANNNNNNNTTGG	2 cut(s)	283, 315
AloI	GAACNNNNNNTCC	2 cut(s)	336, 368
AluBI	AGCT	6 cut(s)	376, 517, 696, 710, 982, 1046
AluI	AGCT	6 cut(s)	376, 517, 696, 710, 982, 1046
Alw21I	GWGCWC	1 cut(s)	332
Alw26I	GTCTC	1 cut(s)	339
AlwNI	CAGNNNCTG	1 cut(s)	1016
AoxI	GGCC	1 cut(s)	480
ApeKI	GCWGC	2 cut(s)	437, 707
ArsI	GACNNNNNNTTYG	2 cut(s)	489, 521
AspS9I	GGNCC	1 cut(s)	480
AsuHPI	GGTGA	1 cut(s)	1017
BanI	GGYRCC	1 cut(s)	236
BarI	GAAGNNNNNNTAC	2 cut(s)	126, 158
Bbv12I	GWGCWC	1 cut(s)	332
BbvI	GCAGC	2 cut(s)	449, 719
BciT130I	CCWGG	2 cut(s)	254, 944
BclI	TGATCA	3 cut(s)	10, 874, 991
BcoDI	GTCTC	1 cut(s)	339
BfaI	CTAG	1 cut(s)	6
BfmI	CTRYAG	4 cut(s)	153, 333, 564, 705
BfrI	CTTAAG	1 cut(s)	521
BglII	AGATCT	1 cut(s)	868
BisI	GCNGC	2 cut(s)	438, 708
BlpI	GCTNAGC	1 cut(s)	757
BlsI	GCNGC	2 cut(s)	439, 709
Bme1390I	CCNGG	2 cut(s)	254, 944
BmgT120I	GGNCC	1 cut(s)	480
BmiI	GGNNCC	1 cut(s)	238
BmrFI	CCNGG	2 cut(s)	254, 944
BmsI	GCATC	2 cut(s)	631, 1022
Bpu1102I	GCTNAGC	1 cut(s)	757
BsaBI	GATNNNNATC	1 cut(s)	873
BsaHI	GRCGYC	1 cut(s)	845
BsaI	GGTCTC	1 cut(s)	339
BsaXI	ACNNNNNCTCC	2 cut(s)	336, 366
Bse1I	ACTGG	1 cut(s)	633
Bse8I	GATNNNNATC	1 cut(s)	873
BseBI	CCWGG	2 cut(s)	254, 944
BseGI	GGATG	2 cut(s)	646, 955
BseJI	GATNNNNATC	1 cut(s)	873
BseMII	CTCAG	2 cut(s)	30, 1011
BseNI	ACTGG	1 cut(s)	633
BseXI	GCAGC	2 cut(s)	449, 719
Bsh1285I	CGRYCG	1 cut(s)	52
BshFI	GGCC	1 cut(s)	482
BshNI	GGYRCC	1 cut(s)	236
BsiEI	CGRYCG	1 cut(s)	52
BsiHKAI	GWGCWC	1 cut(s)	332
BslFI	GGGAC	1 cut(s)	491
BsmAI	GTCTC	1 cut(s)	339
BsmFI	GGGAC	1 cut(s)	491
BsnI	GGCC	1 cut(s)	482
Bso31I	GGTCTC	1 cut(s)	339
Bsp1286I	GDGCHC	1 cut(s)	332
Bsp143I	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
Bsp1720I	GCTNAGC	1 cut(s)	757
BspACI	CCGC	2 cut(s)	103, 1028
BspANI	GGCC	1 cut(s)	482
BspCNI	CTCAG	2 cut(s)	31, 1010
BspHI	TCATGA	1 cut(s)	13
BspLI	GGNNCC	1 cut(s)	238
BspMAI	CTGCAG	3 cut(s)	157, 568, 709
BspT107I	GGYRCC	1 cut(s)	236
BspTI	CTTAAG	1 cut(s)	521
BspTNI	GGTCTC	1 cut(s)	339
BsrI	ACTGG	1 cut(s)	633
BssMI	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
BssNI	GRCGYC	1 cut(s)	845
Bst2UI	CCWGG	2 cut(s)	254, 944
Bst4CI	ACNGT	4 cut(s)	186, 334, 604, 751
BstACI	GRCGYC	1 cut(s)	845
BstAFI	CTTAAG	1 cut(s)	521
BstAPI	GCANNNNNTGC	1 cut(s)	466
BstDEI	CTNAG	5 cut(s)	39, 62, 757, 997, 1047
BstF5I	GGATG	2 cut(s)	646, 955
BstKTI	GATC	9 cut(s)	13, 52, 812, 856, 871, 877, 939, 994, 1021
BstMAI	GTCTC	1 cut(s)	339
BstMBI	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
BstMCI	CGRYCG	1 cut(s)	52
BstMWI	GCNNNNNNNGC	1 cut(s)	466
BstNI	CCWGG	2 cut(s)	254, 944
BstSCI	CCNGG	2 cut(s)	252, 942
BstSFI	CTRYAG	4 cut(s)	153, 333, 564, 705
BstV1I	GCAGC	2 cut(s)	449, 719
BstX2I	RGATCY	1 cut(s)	868
BstYI	RGATCY	1 cut(s)	868
BsuRI	GGCC	1 cut(s)	482
BtsCI	GGATG	2 cut(s)	646, 955
BtsIMutI	CAGTG	3 cut(s)	330, 792, 898
CaiI	CAGNNNCTG	1 cut(s)	1016
CciI	TCATGA	1 cut(s)	13
Cfr13I	GGNCC	1 cut(s)	480
CseI	GACGC	1 cut(s)	853
Csp6I	GTAC	2 cut(s)	307, 747
CviAII	CATG	3 cut(s)	14, 304, 964
CviQI	GTAC	2 cut(s)	307, 747
DdeI	CTNAG	5 cut(s)	39, 62, 757, 997, 1047
DpnI	GATC	9 cut(s)	12, 51, 811, 855, 870, 876, 938, 993, 1020
DpnII	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
DraI	TTTAAA	1 cut(s)	195
Eco31I	GGTCTC	1 cut(s)	339
EcoRII	CCWGG	2 cut(s)	252, 942
FaeI	CATG	3 cut(s)	17, 307, 967
FalI	AAGNNNNNCTT	4 cut(s)	18, 50, 855, 887
FaqI	GGGAC	1 cut(s)	491
FatI	CATG	3 cut(s)	13, 303, 963
FbaI	TGATCA	3 cut(s)	10, 874, 991
Fnu4HI	GCNGC	2 cut(s)	438, 708
FokI	GGATG	2 cut(s)	653, 962
Fsp4HI	GCNGC	2 cut(s)	438, 708
FspBI	CTAG	1 cut(s)	6
GluI	GCNGC	2 cut(s)	438, 708
HaeIII	GGCC	1 cut(s)	482
HgaI	GACGC	1 cut(s)	853
Hin1I	GRCGYC	1 cut(s)	845
Hin1II	CATG	3 cut(s)	17, 307, 967
HindIII	AAGCTT	2 cut(s)	980, 1044
HinfI	GANTC	5 cut(s)	148, 262, 299, 424, 570
HphI	GGTGA	1 cut(s)	1017
Hpy188I	TCNGA	5 cut(s)	40, 267, 853, 901, 1018
HpyAV	CCTTC	4 cut(s)	250, 584, 795, 916
HpyCH4III	ACNGT	4 cut(s)	186, 334, 604, 751
HpyCH4V	TGCA	3 cut(s)	155, 566, 707
HpyF10VI	GCNNNNNNNGC	1 cut(s)	466
HpyF3I	CTNAG	5 cut(s)	39, 62, 757, 997, 1047
Hsp92I	GRCGYC	1 cut(s)	845
Hsp92II	CATG	3 cut(s)	17, 307, 967
Ksp22I	TGATCA	3 cut(s)	10, 874, 991
Kzo9I	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
Lsp1109I	GCAGC	2 cut(s)	449, 719
LweI	GCATC	2 cut(s)	631, 1022
MaeI	CTAG	1 cut(s)	6
MaeIII	GTNAC	4 cut(s)	65, 319, 582, 680
MalI	GATC	9 cut(s)	12, 51, 811, 855, 870, 876, 938, 993, 1020
MboI	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
MboII	GAAGA	5 cut(s)	55, 105, 849, 872, 946
MflI	RGATCY	1 cut(s)	868
MhlI	GDGCHC	1 cut(s)	332
MluCI	AATT	5 cut(s)	291, 533, 594, 738, 764
MlyI	GAGTC	1 cut(s)	142
MnlI	CCTC	6 cut(s)	131, 227, 520, 616, 859, 940
MseI	TTAA	4 cut(s)	21, 194, 270, 522
MspA1I	CMGCKG	1 cut(s)	710
MspCI	CTTAAG	1 cut(s)	521
MspR9I	CCNGG	2 cut(s)	254, 944
MvaI	CCWGG	2 cut(s)	254, 944
MwoI	GCNNNNNNNGC	1 cut(s)	466
NdeII	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
NlaIII	CATG	3 cut(s)	17, 307, 967
NlaIV	GGNNCC	1 cut(s)	238
NmeAIII	GCCGAG	1 cut(s)	538
NmuCI	GTSAC	1 cut(s)	319
PagI	TCATGA	1 cut(s)	13
PcsI	WCGNNNNNNNCGW	1 cut(s)	885
PfeI	GAWTC	4 cut(s)	262, 299, 424, 570
PflFI	GACNNNGTC	1 cut(s)	542
PkrI	GCNGC	2 cut(s)	439, 709
Ple19I	CGATCG	1 cut(s)	52
PleI	GAGTC	1 cut(s)	142
PpsI	GAGTC	1 cut(s)	142
Psp6I	CCWGG	2 cut(s)	252, 942
PspGI	CCWGG	2 cut(s)	252, 942
PspN4I	GGNNCC	1 cut(s)	238
PspPI	GGNCC	1 cut(s)	480
PstI	CTGCAG	3 cut(s)	157, 568, 709
PstNI	CAGNNNCTG	1 cut(s)	1016
PsuI	RGATCY	1 cut(s)	868
PsyI	GACNNNGTC	1 cut(s)	542
PvuI	CGATCG	1 cut(s)	52
PvuII	CAGCTG	1 cut(s)	710
RsaI	GTAC	2 cut(s)	308, 748
RsaNI	GTAC	2 cut(s)	307, 747
SaqAI	TTAA	4 cut(s)	21, 194, 270, 522
SatI	GCNGC	2 cut(s)	438, 708
Sau3AI	GATC	9 cut(s)	10, 49, 809, 853, 868, 874, 936, 991, 1018
Sau96I	GGNCC	1 cut(s)	480
SchI	GAGTC	1 cut(s)	142
ScrFI	CCNGG	2 cut(s)	254, 944
SduI	GDGCHC	1 cut(s)	332
SfaNI	GCATC	2 cut(s)	631, 1022
SfcI	CTRYAG	4 cut(s)	153, 333, 564, 705
SmlI	CTYRAG	1 cut(s)	521
SmoI	CTYRAG	1 cut(s)	521
Sse9I	AATT	5 cut(s)	291, 533, 594, 738, 764
SsiI	CCGC	2 cut(s)	103, 1028
SspMI	CTAG	1 cut(s)	6
StyD4I	CCNGG	2 cut(s)	252, 942
TaaI	ACNGT	4 cut(s)	186, 334, 604, 751
TaqI	TCGA	2 cut(s)	715, 835
TasI	AATT	5 cut(s)	291, 533, 594, 738, 764
TatI	WGTACW	2 cut(s)	306, 746
TfiI	GAWTC	4 cut(s)	262, 299, 424, 570
Tru1I	TTAA	4 cut(s)	21, 194, 270, 522
Tru9I	TTAA	4 cut(s)	21, 194, 270, 522
TscAI	CASTG	3 cut(s)	337, 799, 898
TseFI	GTSAC	1 cut(s)	319
TseI	GCWGC	2 cut(s)	437, 707
Tsp45I	GTSAC	1 cut(s)	319
TspDTI	ATGAA	2 cut(s)	147, 210
TspRI	CASTG	3 cut(s)	337, 799, 898
Tth111I	GACNNNGTC	1 cut(s)	542
Vha464I	CTTAAG	1 cut(s)	521
XcmI	CCANNNNNNNNNTGG	1 cut(s)	364
XspI	CTAG	1 cut(s)	6

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