Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002979

Physical Location & Seq

Genomic Coordinates Forward (+)

6093545 .. 6101515

Gene Structure 7971 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG059300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGAAGTAGAGGTCGACGAGAAGGAGCTCAAAGCCGCCGGAGCCGAGTTGTTCTCCGACGGACGCCGCGGCCTTCGAATCCACGGCTGGGAAATCGAGACTCGCAACCGCTCCATTCTCAACTCCTCCACCCACGAACTGTGGGAGAAAAAGCTTGAGACTTGTCACATGCCGGAGATGATATTTGGTGACAGTTGTTTGGTTCTGAAGCATGTGAAAAGTGGCACCACTATTCACTTCAATGCTTTTGATGCTCTGATTGGGTGGAAGAAGGAAGCTTTGCCTCCAGTTGAAGTACCAGCTGCTGCTCAGTGGAAGTTCAGATGTAAACCCTCTGAGCAAGTGATACTGGATTATGACTATACATTCACAACACCGTACGGAGGAAGTGAAACTATTACCTTGGATGCAGACAAGCACGAAGGAGGAGAGGTATCTAAGGAGATCTGCAATCTCCACTGGGAGGACTGCAAAGAAAAAATTGATGTGGTTGCATTGGCATCTAAAGAGCCTATTCTCTTTTATGATGAGGTGAGAATCCTGATAATAACTAGAAGCACTCAAATACTAATGTGCCTATGCCAAAATATGTATCTTTGTAGGATATGTACACTTGCCATGATCAAGATACTCCTTGTAATTGAACAGGTAGTCTTGTATGAAGATGAATTGGCGGATAATGGTGTGTCTCTTCTAACTGTAAAAGTGAGAGTCATGCCGAGCGGTTGGTTTCTTCTCTTGCGTTTTTGGCTTAGAGTCGATGGAGTGCTTATGAGATTAAGGGATACCCGTATGCACTGTGTTTTTGGAGATAATGTAAATCCCATTATTCTTCGAGAGAGCTGCTGGAGAGAAGCTACATTTCAAGCTTTGGCTGCAGTAAGTTCAAGTTCTATGCTCACTGTCAAACAAGCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko04138 map04138

Pfam Domains

Protein Families

TIP41

Protein Analysis

305

Amino Acids

34.83

Weight (kDa)

5.58

Isoelectric Point (pI)

51.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TIP41	PF04176	60 - 179	3.3e-21	TIP41-like family
TIP41	PF04176	211 - 291	1.3e-28	TIP41-like family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002979)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G34270
fragaria_vesca	FvH4_2g04780 FvH4_2g04780
malus_domestica	MD00G1108700.v1.1 MD10G1100100.v1.1
prunus_persica	Prupe.8G137600_v2.0.a1 Prupe.8G137600_v2.0.a1 Prupe.8G137600_v2.0.a1
pyrus_communis	pycom10g08600
rosa_chinensis	RchiOBHm_Chr6g0254491 RchiOBHm_Chr6g0257511
rosa_laevigata	RLG00000014907 RLG00000014910
rosa_multiflora	Rmu_co8254825.1_g000001 Rmu_sc0002113.1_g000001 Rmu_sc0004702.1_g000006 Rmu_sc0004702.1_g000007 Rmu_sc0009578.1_g000010 Rmu_sc0023759.1_g000001 Rmu_ssc0000481.1_g000008
rosa_roxburghii	Rroxscaffold_7G00210720 Rroxscaffold_7G00210760
rosa_rugosa	Rorug05G0552600 Rorug05G0552700 Rorug05G0552700 Rorug05G0552800
rosa_samantha	Rh6AG069900 Rh6AG088000 Rh6BG062400 Rh6BG080800 Rh6CG062200 Rh6CG062300 Rh6CG077000 Rh6DG059200 Rh6DG059300 Rh6DG073100
rosa_wichuraiana	Rw6G006120 Rw6G007800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	224
AccBSI	CCGCTC	2 cut(s)	111, 723
AccI	GTMKAC	1 cut(s)	15
AccII	CGCG	1 cut(s)	69
AciI	CCGC	6 cut(s)	36, 67, 69, 109, 674, 723
AcuI	CTGAAG	1 cut(s)	227
AcyI	GRCGYC	1 cut(s)	64
AfaI	GTAC	3 cut(s)	297, 380, 610
AfiI	CCNNNNNNNGG	3 cut(s)	88, 383, 463
AgsI	TTSAA	5 cut(s)	241, 293, 644, 866, 888
AluBI	AGCT	7 cut(s)	28, 154, 278, 302, 843, 857, 869
AluI	AGCT	7 cut(s)	28, 154, 278, 302, 843, 857, 869
Alw21I	GWGCWC	1 cut(s)	30
Alw26I	GTCTC	3 cut(s)	92, 152, 693
AlwNI	CAGNNNCTG	1 cut(s)	305
AoxI	GGCC	1 cut(s)	70
ApeKI	GCWGC	4 cut(s)	302, 305, 843, 875
AsuHPI	GGTGA	2 cut(s)	200, 544
AsuII	TTCGAA	1 cut(s)	76
BanI	GGYRCC	1 cut(s)	224
BanII	GRGCYC	1 cut(s)	30
Bbv12I	GWGCWC	1 cut(s)	30
BbvI	GCAGC	4 cut(s)	289, 292, 830, 862
BccI	CCATC	1 cut(s)	755
BceAI	ACGGC	1 cut(s)	100
BcgI	CGANNNNNNTGC	2 cut(s)	825, 859
BciVI	GTATCC	1 cut(s)	778
BclI	TGATCA	1 cut(s)	621
BcoDI	GTCTC	3 cut(s)	92, 152, 693
BfaI	CTAG	1 cut(s)	552
BfmI	CTRYAG	1 cut(s)	876
BfuI	GTATCC	1 cut(s)	778
BglII	AGATCT	1 cut(s)	444
BisI	GCNGC	7 cut(s)	36, 67, 70, 303, 306, 844, 876
BlsI	GCNGC	7 cut(s)	37, 68, 71, 304, 307, 845, 877
BmiI	GGNNCC	2 cut(s)	43, 226
BmrI	ACTGGG	1 cut(s)	469
BmsI	GCATC	3 cut(s)	241, 397, 509
BmuI	ACTGGG	1 cut(s)	469
BplI	GAGNNNNNCTC	2 cut(s)	38, 70
BpmI	CTGGAG	2 cut(s)	270, 868
Bpu14I	TTCGAA	1 cut(s)	76
BpuEI	CTTGAG	1 cut(s)	176
BsaHI	GRCGYC	1 cut(s)	64
BsaJI	CCNNGG	3 cut(s)	67, 82, 402
BsaXI	ACNNNNNCTCC	4 cut(s)	417, 447, 801, 831
Bsc4I	CCNNNNNNNGG	3 cut(s)	88, 383, 463
Bse1I	ACTGG	3 cut(s)	287, 354, 464
BseDI	CCNNGG	3 cut(s)	67, 82, 402
BseGI	GGATG	1 cut(s)	412
BseLI	CCNNNNNNNGG	3 cut(s)	88, 383, 463
BseMII	CTCAG	2 cut(s)	323, 327
BseNI	ACTGG	3 cut(s)	287, 354, 464
BseRI	GAGGAG	2 cut(s)	115, 441
BseXI	GCAGC	4 cut(s)	289, 292, 830, 862
BseYI	CCCAGC	1 cut(s)	87
Bsh1236I	CGCG	1 cut(s)	69
BshFI	GGCC	1 cut(s)	72
BshNI	GGYRCC	1 cut(s)	224
BsiHKAI	GWGCWC	1 cut(s)	30
BsiSI	CCGG	2 cut(s)	39, 173
BsiWI	CGTACG	1 cut(s)	378
BslI	CCNNNNNNNGG	3 cut(s)	88, 383, 463
BsmAI	GTCTC	3 cut(s)	92, 152, 693
BsnI	GGCC	1 cut(s)	72
Bsp119I	TTCGAA	1 cut(s)	76
Bsp1286I	GDGCHC	1 cut(s)	30
Bsp1407I	TGTACA	1 cut(s)	608
Bsp143I	GATC	2 cut(s)	444, 621
BspACI	CCGC	6 cut(s)	36, 67, 69, 109, 674, 723
BspANI	GGCC	1 cut(s)	72
BspCNI	CTCAG	2 cut(s)	322, 328
BspFNI	CGCG	1 cut(s)	69
BspLI	GGNNCC	2 cut(s)	43, 226
BspMAI	CTGCAG	1 cut(s)	880
BspT104I	TTCGAA	1 cut(s)	76
BspT107I	GGYRCC	1 cut(s)	224
BsrBI	CCGCTC	2 cut(s)	111, 723
BsrGI	TGTACA	1 cut(s)	608
BsrI	ACTGG	3 cut(s)	287, 354, 464
BssECI	CCNNGG	3 cut(s)	67, 82, 402
BssMI	GATC	2 cut(s)	444, 621
BssNI	GRCGYC	1 cut(s)	64
BssT1I	CCWWGG	1 cut(s)	402
Bst4CI	ACNGT	6 cut(s)	141, 194, 378, 700, 800, 904
Bst6I	CTCTTC	1 cut(s)	696
BstACI	GRCGYC	1 cut(s)	64
BstAUI	TGTACA	1 cut(s)	608
BstBI	TTCGAA	1 cut(s)	76
BstDEI	CTNAG	4 cut(s)	309, 336, 438, 752
BstDSI	CCRYGG	2 cut(s)	67, 82
BstF5I	GGATG	1 cut(s)	412
BstFNI	CGCG	1 cut(s)	69
BstKTI	GATC	2 cut(s)	447, 624
BstMAI	GTCTC	3 cut(s)	92, 152, 693
BstMBI	GATC	2 cut(s)	444, 621
BstMWI	GCNNNNNNNGC	4 cut(s)	41, 251, 748, 875
BstNSI	RCATGY	2 cut(s)	172, 215
BstSFI	CTRYAG	1 cut(s)	876
BstUI	CGCG	1 cut(s)	69
BstV1I	GCAGC	4 cut(s)	289, 292, 830, 862
BstX2I	RGATCY	1 cut(s)	444
BstYI	RGATCY	1 cut(s)	444
BsuI	GTATCC	1 cut(s)	778
BsuRI	GGCC	1 cut(s)	72
BtgI	CCRYGG	2 cut(s)	67, 82
BtsCI	GGATG	1 cut(s)	412
BtsIMutI	CAGTG	4 cut(s)	317, 457, 796, 900
CaiI	CAGNNNCTG	1 cut(s)	305
Cfr42I	CCGCGG	1 cut(s)	70
CseI	GACGC	1 cut(s)	72
Csp6I	GTAC	3 cut(s)	296, 379, 609
CviAII	CATG	4 cut(s)	169, 212, 619, 715
CviQI	GTAC	3 cut(s)	296, 379, 609
DdeI	CTNAG	4 cut(s)	309, 336, 438, 752
DpnI	GATC	2 cut(s)	446, 623
DpnII	GATC	2 cut(s)	444, 621
Eam1104I	CTCTTC	1 cut(s)	696
EarI	CTCTTC	1 cut(s)	696
EciI	GGCGGA	1 cut(s)	689
Ecl136II	GAGCTC	1 cut(s)	28
Eco130I	CCWWGG	1 cut(s)	402
Eco24I	GRGCYC	1 cut(s)	30
Eco53kI	GAGCTC	1 cut(s)	28
Eco57I	CTGAAG	1 cut(s)	227
EcoICRI	GAGCTC	1 cut(s)	28
EcoT14I	CCWWGG	1 cut(s)	402
EcoT38I	GRGCYC	1 cut(s)	30
ErhI	CCWWGG	1 cut(s)	402
FaeI	CATG	4 cut(s)	172, 215, 622, 718
FatI	CATG	4 cut(s)	168, 211, 618, 714
FbaI	TGATCA	1 cut(s)	621
FblI	GTMKAC	1 cut(s)	15
Fnu4HI	GCNGC	7 cut(s)	36, 67, 70, 303, 306, 844, 876
FokI	GGATG	1 cut(s)	419
FriOI	GRGCYC	1 cut(s)	30
Fsp4HI	GCNGC	7 cut(s)	36, 67, 70, 303, 306, 844, 876
FspBI	CTAG	1 cut(s)	552
GluI	GCNGC	7 cut(s)	36, 67, 70, 303, 306, 844, 876
GsaI	CCCAGC	1 cut(s)	91
GsuI	CTGGAG	2 cut(s)	270, 868
HaeIII	GGCC	1 cut(s)	72
HapII	CCGG	2 cut(s)	39, 173
HgaI	GACGC	1 cut(s)	72
Hin1I	GRCGYC	1 cut(s)	64
Hin1II	CATG	4 cut(s)	172, 215, 622, 718
HincII	GTYRAC	1 cut(s)	16
HindII	GTYRAC	1 cut(s)	16
HindIII	AAGCTT	3 cut(s)	152, 276, 867
HinfI	GANTC	5 cut(s)	78, 100, 537, 711, 756
HpaII	CCGG	2 cut(s)	39, 173
HphI	GGTGA	2 cut(s)	200, 544
Hpy166II	GTNNAC	3 cut(s)	16, 329, 611
Hpy188I	TCNGA	5 cut(s)	58, 207, 258, 323, 337
Hpy188III	TCNNGA	4 cut(s)	97, 541, 625, 836
Hpy8I	GTNNAC	3 cut(s)	16, 329, 611
Hpy99I	CGWCG	2 cut(s)	20, 62
HpyAV	CCTTC	4 cut(s)	16, 83, 265, 416
HpyCH4III	ACNGT	6 cut(s)	141, 194, 378, 700, 800, 904
HpyCH4V	TGCA	6 cut(s)	410, 450, 471, 494, 796, 878
HpyF10VI	GCNNNNNNNGC	4 cut(s)	41, 251, 748, 875
HpyF3I	CTNAG	4 cut(s)	309, 336, 438, 752
Hsp92I	GRCGYC	1 cut(s)	64
Hsp92II	CATG	4 cut(s)	172, 215, 622, 718
Ksp22I	TGATCA	1 cut(s)	621
KspI	CCGCGG	1 cut(s)	70
Kzo9I	GATC	2 cut(s)	444, 621
LmnI	GCTCC	3 cut(s)	25, 41, 116
Lsp1109I	GCAGC	4 cut(s)	289, 292, 830, 862
LweI	GCATC	3 cut(s)	241, 397, 509
MaeI	CTAG	1 cut(s)	552
MaeIII	GTNAC	2 cut(s)	164, 188
MalI	GATC	2 cut(s)	446, 623
MbiI	CCGCTC	2 cut(s)	111, 723
MboI	GATC	2 cut(s)	444, 621
MboII	GAAGA	5 cut(s)	280, 674, 683, 725, 824
MflI	RGATCY	1 cut(s)	444
MhlI	GDGCHC	1 cut(s)	30
MluCI	AATT	3 cut(s)	480, 639, 668
MlyI	GAGTC	3 cut(s)	94, 720, 765
MmeI	TCCRAC	1 cut(s)	81
MnlI	CCTC	9 cut(s)	4, 136, 294, 343, 377, 419, 424, 457, 523
MseI	TTAA	1 cut(s)	779
MslI	CAYNNNNRTG	1 cut(s)	240
MspA1I	CMGCKG	2 cut(s)	69, 302
MspI	CCGG	2 cut(s)	39, 173
MvnI	CGCG	1 cut(s)	69
MwoI	GCNNNNNNNGC	4 cut(s)	41, 251, 748, 875
NdeII	GATC	2 cut(s)	444, 621
NlaIII	CATG	4 cut(s)	172, 215, 622, 718
NlaIV	GGNNCC	2 cut(s)	43, 226
NmeAIII	GCCGAG	2 cut(s)	70, 744
NmuCI	GTSAC	2 cut(s)	164, 188
NspI	RCATGY	2 cut(s)	172, 215
NspV	TTCGAA	1 cut(s)	76
PfeI	GAWTC	2 cut(s)	78, 537
Pfl23II	CGTACG	1 cut(s)	378
PkrI	GCNGC	7 cut(s)	37, 68, 71, 304, 307, 845, 877
PleI	GAGTC	3 cut(s)	94, 719, 764
PpsI	GAGTC	3 cut(s)	94, 719, 764
Psp124BI	GAGCTC	1 cut(s)	30
PspFI	CCCAGC	1 cut(s)	87
PspLI	CGTACG	1 cut(s)	378
PspN4I	GGNNCC	2 cut(s)	43, 226
PstI	CTGCAG	1 cut(s)	880
PstNI	CAGNNNCTG	1 cut(s)	305
PsuI	RGATCY	1 cut(s)	444
PvuII	CAGCTG	1 cut(s)	302
RsaI	GTAC	3 cut(s)	297, 380, 610
RsaNI	GTAC	3 cut(s)	296, 379, 609
RseI	CAYNNNNRTG	1 cut(s)	240
SacI	GAGCTC	1 cut(s)	30
SacII	CCGCGG	1 cut(s)	70
SalI	GTCGAC	1 cut(s)	14
SaqAI	TTAA	1 cut(s)	779
SatI	GCNGC	7 cut(s)	36, 67, 70, 303, 306, 844, 876
Sau3AI	GATC	2 cut(s)	444, 621
SchI	GAGTC	3 cut(s)	94, 720, 765
SduI	GDGCHC	1 cut(s)	30
SfaNI	GCATC	3 cut(s)	241, 397, 509
SfcI	CTRYAG	1 cut(s)	876
Sfr303I	CCGCGG	1 cut(s)	70
SfuI	TTCGAA	1 cut(s)	76
SgrBI	CCGCGG	1 cut(s)	70
SmiMI	CAYNNNNRTG	1 cut(s)	240
SmlI	CTYRAG	1 cut(s)	155
SmoI	CTYRAG	1 cut(s)	155
Sse9I	AATT	3 cut(s)	480, 639, 668
SsiI	CCGC	6 cut(s)	36, 67, 69, 109, 674, 723
SspMI	CTAG	1 cut(s)	552
SstI	GAGCTC	1 cut(s)	30
StyI	CCWWGG	1 cut(s)	402
TaaI	ACNGT	6 cut(s)	141, 194, 378, 700, 800, 904
TaqI	TCGA	5 cut(s)	15, 76, 96, 759, 835
TasI	AATT	3 cut(s)	480, 639, 668
TatI	WGTACW	1 cut(s)	608
TauI	GCSGC	3 cut(s)	38, 69, 72
TfiI	GAWTC	2 cut(s)	78, 537
Tru1I	TTAA	1 cut(s)	779
Tru9I	TTAA	1 cut(s)	779
TscAI	CASTG	4 cut(s)	317, 464, 803, 907
TseFI	GTSAC	2 cut(s)	164, 188
TseI	GCWGC	4 cut(s)	302, 305, 843, 875
Tsp45I	GTSAC	2 cut(s)	164, 188
TspDTI	ATGAA	2 cut(s)	675, 681
TspGWI	ACGGA	2 cut(s)	75, 396
TspRI	CASTG	4 cut(s)	317, 464, 803, 907
XceI	RCATGY	2 cut(s)	172, 215
XmiI	GTMKAC	1 cut(s)	15
XspI	CTAG	1 cut(s)	552

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