Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0008297

Physical Location & Seq

Genomic Coordinates Forward (+)

21234194 .. 21237512

Gene Structure 3319 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG220700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGGAGCTGATTAAAGATGCATTTGATCGTGTTACAAAGAAACAAAAGCTATCATGCTCCAAAACTCAAGAAGTTCTTGATCTGATAGACCAAGAAATCAAGCAGACATTACAGAAAATACAGTCATCTAATGAGTGTGAATCTCAGGTTGATTTGAAATCTACCATTGCTGAACTCAAAAACAAGTTAAAAGACATTGCACCACACAGTCAGACAGAAAGCACCCAGAAGGAACTGAATCTGGCATTGAGCAAGTATCCAAAGCTTCTCGAGAAAACCTTCAATCCTGATATAGCCAAGGCTTATAGAAACATTGAGTTTGATGCTCACACAGTTAATGAGATAATAGGCAGTCATTTCTATAGGCAGGGCCTTTTCGAACTTGGAGACTGTTTCTTAAGGGAGGCTGAAGAACCAGAATCTGCAGCTGCTATGAAATCTCAGTTTCAGGAGATGTTTCAGATAGTTGAAGCAATGAAATGTCAGAACTTAGAGCCAGCACTGAAGTGGGCCATCGGTAACTCTGATAAACTCAAACCAAATGGATCAGACCTACTGCTGAAACTTCACAGTCTACAGTTTGTGGGTATATTGCAGAAGGGAGACAGAGATGGAGCTCTTCATTATGCCAGAACTTTCCTTGCTCCTTTTGCTTCTGACCATATGGCTGAAATTCAGAAGCTTATGGTATGTCTTCTATGGACTGGAAAGCTTGATAACTTACCATACTCTCACCTATTATCCAAGGCCAATTGGGACAAAGTGGCTGAGGAGCTAACCAGGCAATTCTGCAATATTCTTGGTCAGTCTTACGAGAGCCCATTGAGCATGACTATAGCTGCTGGGTTCCAGGGGTTGCCACCTCTTCTCAAGTTTATGAATGTAATGGTAGGGAAGAGAAATGAATGGCAAACTATGAAGCAGTTGCCTGTGCCAGTGGAGTTAGACCGTGAGTTTCAGTTCCATTCTATTTTCGTTTGTCCAGTCTCCAAGGAACAAGCAACCGATGAAAATCCACCTATGTTGATGTCATGTGGACATGTGCTTTGCAAGCAGTCTATTACAAAGATGTCAAAGAACAGCACAAAAACCTTCAAATGCCCTTACTGTCCTTCAGATATCGATTCAGCACAGTGTAGGCAGCTCCATTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010498 GO:0019538 GO:0019941 GO:0030163 GO:0032991 GO:0034657 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044464 GO:0051603 GO:0071704 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CLTH zf-RING_UBOX

Protein Analysis

384

Amino Acids

43.69

Weight (kDa)

6.57

Isoelectric Point (pI)

45.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CTLH	PF10607	148 - 287	8.5e-36	CTLH/CRA C-terminal to LisH motif domain
zf-RING_UBOX	PF13445	327 - 368	2.3e-10	RING-type zinc-finger

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: OG0008297)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G22690 AT2G22690 AT4G37880
fragaria_vesca	FvH4_1g18890 FvH4_1g18890 FvH4_1g18890
malus_domestica	MD01G1046000.v1.1 MD01G1046100.v1.1 MD15G1305600.v1.1
prunus_persica	Prupe.6G210700_v2.0.a1
pyrus_communis	pycom01g07220 pycom15g26920 pycom15g26940
rosa_laevigata	RLG00000017766
rosa_multiflora	Rmu_sc0008299.1_g000002
rosa_roxburghii	Rroxscaffold_2G00133920
rosa_rugosa	Rorug02G0163000 Rorug02G0163100
rosa_samantha	Rh2AG215200 Rh2BG225300 Rh2CG217100 Rh2DG220700
rosa_wichuraiana	Rw2G016620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	574
AclWI	GGATC	1 cut(s)	553
AcsI	RAATTY	1 cut(s)	672
AcuI	CTGAAG	3 cut(s)	429, 524, 1098
AflII	CTTAAG	1 cut(s)	397
AflIII	ACRYGT	1 cut(s)	1039
AgsI	TTSAA	4 cut(s)	157, 283, 470, 1096
AjnI	CCWGG	2 cut(s)	779, 849
AleI	CACNNNNGTG	1 cut(s)	505
Alw21I	GWGCWC	1 cut(s)	619
Alw26I	GTCTC	3 cut(s)	381, 597, 991
AlwI	GGATC	1 cut(s)	553
AlwNI	CAGNNNCTG	1 cut(s)	422
Ama87I	CYCGRG	1 cut(s)	269
AoxI	GGCC	3 cut(s)	370, 510, 747
ApeKI	GCWGC	4 cut(s)	425, 428, 839, 1141
ApoI	RAATTY	1 cut(s)	672
ArsI	GACNNNNNNTTYG	2 cut(s)	1029, 1061
Asp700I	GAANNNNTTC	1 cut(s)	278
AspS9I	GGNCC	2 cut(s)	370, 510
AsuHPI	GGTGA	1 cut(s)	725
AsuII	TTCGAA	1 cut(s)	378
AvaI	CYCGRG	1 cut(s)	269
BanII	GRGCYC	2 cut(s)	619, 821
BbsI	GAAGAC	1 cut(s)	686
Bbv12I	GWGCWC	1 cut(s)	619
BbvCI	CCTCAGC	1 cut(s)	768
BbvI	GCAGC	3 cut(s)	415, 437, 826
BccI	CCATC	2 cut(s)	521, 605
BciT130I	CCWGG	2 cut(s)	781, 851
BciVI	GTATCC	1 cut(s)	267
BcoDI	GTCTC	3 cut(s)	381, 597, 991
BfmI	CTRYAG	4 cut(s)	361, 423, 575, 834
BfrI	CTTAAG	1 cut(s)	397
BfuI	GTATCC	1 cut(s)	267
BisI	GCNGC	4 cut(s)	426, 429, 840, 1142
BlsI	GCNGC	4 cut(s)	427, 430, 841, 1143
Bme1390I	CCNGG	2 cut(s)	781, 851
BmeT110I	CYCGRG	1 cut(s)	269
BmgT120I	GGNCC	2 cut(s)	370, 510
BmiI	GGNNCC	1 cut(s)	848
BmrFI	CCNGG	2 cut(s)	781, 851
BmsI	GCATC	2 cut(s)	7, 313
BpiI	GAAGAC	1 cut(s)	686
Bpu10I	CCTNAGC	1 cut(s)	768
Bpu14I	TTCGAA	1 cut(s)	378
BpuEI	CTTGAG	2 cut(s)	51, 854
Bsa29I	ATCGAT	1 cut(s)	1122
BsaBI	GATNNNNATC	1 cut(s)	1011
BsaJI	CCNNGG	4 cut(s)	297, 744, 850, 990
Bse1I	ACTGG	3 cut(s)	709, 935, 983
Bse3DI	GCAATG	3 cut(s)	165, 195, 480
Bse8I	GATNNNNATC	1 cut(s)	1011
BseBI	CCWGG	2 cut(s)	781, 851
BseCI	ATCGAT	1 cut(s)	1122
BseDI	CCNNGG	4 cut(s)	297, 744, 850, 990
BseJI	GATNNNNATC	1 cut(s)	1011
BseMI	GCAATG	3 cut(s)	165, 195, 480
BseMII	CTCAG	3 cut(s)	158, 455, 759
BseNI	ACTGG	3 cut(s)	709, 935, 983
BseRI	GAGGAG	1 cut(s)	785
BseXI	GCAGC	3 cut(s)	415, 437, 826
BseYI	CCCAGC	1 cut(s)	842
BshFI	GGCC	3 cut(s)	372, 512, 749
BshVI	ATCGAT	1 cut(s)	1122
BsiHKAI	GWGCWC	1 cut(s)	619
BsiHKCI	CYCGRG	1 cut(s)	269
BslFI	GGGAC	1 cut(s)	770
BsmAI	GTCTC	3 cut(s)	381, 597, 991
BsmFI	GGGAC	1 cut(s)	770
BsnI	GGCC	3 cut(s)	372, 512, 749
BsoBI	CYCGRG	1 cut(s)	269
Bsp119I	TTCGAA	1 cut(s)	378
Bsp1286I	GDGCHC	2 cut(s)	619, 821
Bsp143I	GATC	3 cut(s)	25, 79, 545
BspANI	GGCC	3 cut(s)	372, 512, 749
BspCNI	CTCAG	3 cut(s)	157, 454, 760
BspDI	ATCGAT	1 cut(s)	1122
BspLI	GGNNCC	1 cut(s)	848
BspMAI	CTGCAG	1 cut(s)	427
BspPI	GGATC	1 cut(s)	553
BspQI	GCTCTTC	1 cut(s)	624
BspT104I	TTCGAA	1 cut(s)	378
BspTI	CTTAAG	1 cut(s)	397
BsrDI	GCAATG	3 cut(s)	165, 195, 480
BsrI	ACTGG	3 cut(s)	709, 935, 983
BssECI	CCNNGG	4 cut(s)	297, 744, 850, 990
BssMI	GATC	3 cut(s)	25, 79, 545
BssT1I	CCWWGG	3 cut(s)	297, 744, 990
Bst2UI	CCWGG	2 cut(s)	781, 851
Bst4CI	ACNGT	9 cut(s)	123, 209, 334, 392, 572, 579, 950, 1109, 1134
Bst6I	CTCTTC	3 cut(s)	624, 870, 890
BstAFI	CTTAAG	1 cut(s)	397
BstBI	TTCGAA	1 cut(s)	378
BstC8I	GCNNGC	2 cut(s)	498, 1052
BstDEI	CTNAG	4 cut(s)	144, 441, 490, 768
BstKTI	GATC	3 cut(s)	28, 82, 548
BstMAI	GTCTC	3 cut(s)	381, 597, 991
BstMBI	GATC	3 cut(s)	25, 79, 545
BstMWI	GCNNNNNNNGC	4 cut(s)	650, 781, 825, 1051
BstNI	CCWGG	2 cut(s)	781, 851
BstNSI	RCATGY	1 cut(s)	1043
BstSCI	CCNGG	2 cut(s)	779, 849
BstSFI	CTRYAG	4 cut(s)	361, 423, 575, 834
BstV1I	GCAGC	3 cut(s)	415, 437, 826
BstV2I	GAAGAC	1 cut(s)	686
Bsu15I	ATCGAT	1 cut(s)	1122
BsuI	GTATCC	1 cut(s)	267
BsuRI	GGCC	3 cut(s)	372, 512, 749
BsuTUI	ATCGAT	1 cut(s)	1122
BtsIMutI	CAGTG	3 cut(s)	500, 942, 1139
Cac8I	GCNNGC	2 cut(s)	498, 1052
CaiI	CAGNNNCTG	1 cut(s)	422
Cfr13I	GGNCC	2 cut(s)	370, 510
ClaI	ATCGAT	1 cut(s)	1122
CspCI	CAANNNNNGTGG	2 cut(s)	1005, 1040
CviAII	CATG	4 cut(s)	54, 829, 1032, 1040
DdeI	CTNAG	4 cut(s)	144, 441, 490, 768
DpnI	GATC	3 cut(s)	27, 81, 547
DpnII	GATC	3 cut(s)	25, 79, 545
Eam1104I	CTCTTC	3 cut(s)	624, 870, 890
EarI	CTCTTC	3 cut(s)	624, 870, 890
Ecl136II	GAGCTC	1 cut(s)	617
Eco130I	CCWWGG	3 cut(s)	297, 744, 990
Eco24I	GRGCYC	2 cut(s)	619, 821
Eco32I	GATATC	1 cut(s)	1120
Eco53kI	GAGCTC	1 cut(s)	617
Eco57I	CTGAAG	3 cut(s)	429, 524, 1098
Eco88I	CYCGRG	1 cut(s)	269
EcoICRI	GAGCTC	1 cut(s)	617
EcoO109I	RGGNCCY	1 cut(s)	370
EcoRII	CCWGG	2 cut(s)	779, 849
EcoRV	GATATC	1 cut(s)	1120
EcoT14I	CCWWGG	3 cut(s)	297, 744, 990
EcoT22I	ATGCAT	1 cut(s)	22
EcoT38I	GRGCYC	2 cut(s)	619, 821
ErhI	CCWWGG	3 cut(s)	297, 744, 990
FaeI	CATG	4 cut(s)	57, 832, 1035, 1043
FalI	AAGNNNNNCTT	2 cut(s)	60, 92
FaqI	GGGAC	1 cut(s)	770
FatI	CATG	4 cut(s)	53, 828, 1031, 1039
FauNDI	CATATG	1 cut(s)	663
FblI	GTMKAC	1 cut(s)	574
Fnu4HI	GCNGC	4 cut(s)	426, 429, 840, 1142
FriOI	GRGCYC	2 cut(s)	619, 821
Fsp4HI	GCNGC	4 cut(s)	426, 429, 840, 1142
GluI	GCNGC	4 cut(s)	426, 429, 840, 1142
GsaI	CCCAGC	1 cut(s)	846
HaeIII	GGCC	3 cut(s)	372, 512, 749
Hin1II	CATG	4 cut(s)	57, 832, 1035, 1043
HindIII	AAGCTT	3 cut(s)	263, 680, 710
HinfI	GANTC	4 cut(s)	140, 238, 419, 1124
HphI	GGTGA	1 cut(s)	725
Hpy166II	GTNNAC	2 cut(s)	575, 1037
Hpy188III	TCNNGA	6 cut(s)	68, 77, 269, 271, 287, 449
Hpy8I	GTNNAC	2 cut(s)	575, 1037
HpyAV	CCTTC	5 cut(s)	223, 289, 592, 1102, 1122
HpyCH4III	ACNGT	9 cut(s)	123, 209, 334, 392, 572, 579, 950, 1109, 1134
HpyCH4V	TGCA	6 cut(s)	20, 200, 425, 595, 792, 1050
HpyF10VI	GCNNNNNNNGC	4 cut(s)	650, 781, 825, 1051
HpyF3I	CTNAG	4 cut(s)	144, 441, 490, 768
Hsp92II	CATG	4 cut(s)	57, 832, 1035, 1043
Kzo9I	GATC	3 cut(s)	25, 79, 545
LguI	GCTCTTC	1 cut(s)	624
LmnI	GCTCC	6 cut(s)	4, 62, 614, 649, 772, 1149
Lsp1109I	GCAGC	3 cut(s)	415, 437, 826
LweI	GCATC	2 cut(s)	7, 313
MaeIII	GTNAC	2 cut(s)	31, 518
MalI	GATC	3 cut(s)	27, 81, 547
MboI	GATC	3 cut(s)	25, 79, 545
MboII	GAAGA	5 cut(s)	422, 611, 686, 857, 907
MfeI	CAATTG	1 cut(s)	751
MhlI	GDGCHC	2 cut(s)	619, 821
MluCI	AATT	3 cut(s)	672, 751, 785
MnlI	CCTC	3 cut(s)	397, 763, 873
Mph1103I	ATGCAT	1 cut(s)	22
MroXI	GAANNNNTTC	1 cut(s)	278
MseI	TTAA	4 cut(s)	12, 188, 336, 398
MslI	CAYNNNNRTG	1 cut(s)	505
MspA1I	CMGCKG	1 cut(s)	428
MspCI	CTTAAG	1 cut(s)	397
MspR9I	CCNGG	2 cut(s)	781, 851
MunI	CAATTG	1 cut(s)	751
MvaI	CCWGG	2 cut(s)	781, 851
MwoI	GCNNNNNNNGC	4 cut(s)	650, 781, 825, 1051
NdeI	CATATG	1 cut(s)	663
NdeII	GATC	3 cut(s)	25, 79, 545
NlaIII	CATG	4 cut(s)	57, 832, 1035, 1043
NlaIV	GGNNCC	1 cut(s)	848
NsiI	ATGCAT	1 cut(s)	22
NspI	RCATGY	1 cut(s)	1043
NspV	TTCGAA	1 cut(s)	378
OliI	CACNNNNGTG	1 cut(s)	505
PaeR7I	CTCGAG	1 cut(s)	269
PciI	ACATGT	1 cut(s)	1039
PciSI	GCTCTTC	1 cut(s)	624
PdmI	GAANNNNTTC	1 cut(s)	278
PfeI	GAWTC	4 cut(s)	140, 238, 419, 1124
PkrI	GCNGC	4 cut(s)	427, 430, 841, 1143
PscI	ACATGT	1 cut(s)	1039
Psp124BI	GAGCTC	1 cut(s)	619
Psp6I	CCWGG	2 cut(s)	779, 849
PspFI	CCCAGC	1 cut(s)	842
PspGI	CCWGG	2 cut(s)	779, 849
PspN4I	GGNNCC	1 cut(s)	848
PspPI	GGNCC	2 cut(s)	370, 510
PstI	CTGCAG	1 cut(s)	427
PstNI	CAGNNNCTG	1 cut(s)	422
PvuII	CAGCTG	1 cut(s)	428
RseI	CAYNNNNRTG	1 cut(s)	505
SacI	GAGCTC	1 cut(s)	619
SapI	GCTCTTC	1 cut(s)	624
SaqAI	TTAA	4 cut(s)	12, 188, 336, 398
SatI	GCNGC	4 cut(s)	426, 429, 840, 1142
Sau3AI	GATC	3 cut(s)	25, 79, 545
Sau96I	GGNCC	2 cut(s)	370, 510
ScrFI	CCNGG	2 cut(s)	781, 851
SduI	GDGCHC	2 cut(s)	619, 821
SfaNI	GCATC	2 cut(s)	7, 313
SfcI	CTRYAG	4 cut(s)	361, 423, 575, 834
Sfr274I	CTCGAG	1 cut(s)	269
SfuI	TTCGAA	1 cut(s)	378
SlaI	CTCGAG	1 cut(s)	269
SmiMI	CAYNNNNRTG	1 cut(s)	505
SmlI	CTYRAG	4 cut(s)	66, 269, 397, 869
SmoI	CTYRAG	4 cut(s)	66, 269, 397, 869
Sse9I	AATT	3 cut(s)	672, 751, 785
SspI	AATATT	1 cut(s)	796
SstI	GAGCTC	1 cut(s)	619
StyD4I	CCNGG	2 cut(s)	779, 849
StyI	CCWWGG	3 cut(s)	297, 744, 990
TaaI	ACNGT	9 cut(s)	123, 209, 334, 392, 572, 579, 950, 1109, 1134
TaqI	TCGA	3 cut(s)	270, 378, 1122
TasI	AATT	3 cut(s)	672, 751, 785
TfiI	GAWTC	4 cut(s)	140, 238, 419, 1124
Tru1I	TTAA	4 cut(s)	12, 188, 336, 398
Tru9I	TTAA	4 cut(s)	12, 188, 336, 398
TscAI	CASTG	3 cut(s)	507, 942, 1139
TseI	GCWGC	4 cut(s)	425, 428, 839, 1141
TspDTI	ATGAA	7 cut(s)	449, 491, 611, 893, 918, 932, 1023
TspRI	CASTG	3 cut(s)	507, 942, 1139
Vha464I	CTTAAG	1 cut(s)	397
XapI	RAATTY	1 cut(s)	672
XceI	RCATGY	1 cut(s)	1043
XcmI	CCANNNNNNNNNTGG	1 cut(s)	504
XhoI	CTCGAG	1 cut(s)	269
XmiI	GTMKAC	1 cut(s)	574
XmnI	GAANNNNTTC	1 cut(s)	278
Zsp2I	ATGCAT	1 cut(s)	22

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