Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0005529

Physical Location & Seq

Genomic Coordinates Reverse (-)

37047800 .. 37052177

Gene Structure 4378 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG293800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1023 bp

ATGGAAGTTGGTGTTACCTTAGCTTTGAAGGACCAACAAGGAAGTCTTAAGCTGTCTGTTTTGGATTGTGGATGCTATGTGAAGGATATCTCCATCAAGTTAGACGGTGGAGCATCTTGGCTTTACCAAGGGATACTGGATGCTTTTGGTGGACAAATAGTTTCTGCAGTTGAAGAAAATATTTCCAAGAAAGTCAAAGAAGGAATAACGAAGCTTGATTCGTCACTTCAATCGCTTCCAAAGCAAATCGAGCTGGATGACATTGCTGCTTTGAATGTCACTTTGGTGGACAATCCTGTGCTGAGTAATTCTTCCATTGAATTTCAGATCAATGGTCTATTCACAGCTCCTATTGATGATTCCATATCCAGCTTAGACCATAAAGGTTCACTAGATCCTCTTCCACGCAGTGCTCCAGCTAAGATGGTTGAGATATCATTGCATGAAGATGTCTTTAACTCGGTGTCCTTGGTCTATTTCAATGCAAACTATATGAACTGGATTATTAACAAAATACCAGATCAATCCCTTTTGAACACTGCTGGATGGAGATACATTATTCCTCGACTGTACAAGCAGTATCCAAACAAGGATATGGATCTTAATGTTACTGTATCTTCTCAACCAATCATTACAGTTGTGAACAATGGCATTGACATCACTGTTTACTCTGATGTGACAATTGATGTCATAGACAATGAAGTTATACCAGTTGCGTGCATATCAATGCACATTCACGCTTCATGTACTCCAGAGATCCTGAGGAATAAACTAGCTGGTATTGTTAAATTGAATGATTTTACTGCATCTTTGAAGTGGAGCAAAATTGGTGACCTACACATGCATCTCGTTCAGGCAGTGTTGTCAACGGTCCTCAAAACTGTTATCATGCCTTATGTGAATTTATGGCTCTGGAAAGGACTACCTTTACCACTTCCGCATGGATTTAAGCTTCAGAATTCTGAAACCTTCTCCACCAATTCAAGGCTTACAATATACAGTGATGTTGAGTTTGTAGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001530 GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0008150 GO:0008152 GO:0008289 GO:0009058 GO:0009987 GO:0010468 GO:0016020 GO:0019222 GO:0031090 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0060255 GO:0065007 GO:0072593 GO:0097367 GO:0098588 GO:0098805 GO:1903409

KEGG Pathways

Metabolic & Signaling

ko04064 ko04620 ko05132 ko05152 map04064 map04620 map05132 map05152

Pfam Domains

Protein Families

LBP_BPI_CETP LBP_BPI_CETP_C

Protein Analysis

340

Amino Acids

37.6

Weight (kDa)

5.08

Isoelectric Point (pI)

44.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LBP_BPI_CETP	PF01273	6 - 71	1.8e-08	LBP / BPI / CETP family, N-terminal domain
LBP_BPI_CETP_C	PF02886	137 - 337	3e-34	LBP / BPI / CETP family, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005529)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g23590 FvH4_3g23590 FvH4_3g23590 FvH4_3g23590
malus_domestica	MD03G1192700.v1.1
prunus_persica	Prupe.4G224100_v2.0.a1 Prupe.4G224100_v2.0.a1 Prupe.4G224100_v2.0.a1 Prupe.4G224100_v2.0.a1 Prupe.4G224100_v2.0.a1
pyrus_communis	pycom03g14500
rosa_chinensis	RchiOBHm_Chr5g0041601
rosa_laevigata	RLG00000034085
rosa_multiflora	Rmu_co8479759.1_g000001 Rmu_sc0000861.1_g000013 Rmu_sc0011648.1_g000006
rosa_roxburghii	Rroxscaffold_1G00029690 Rroxscaffold_1G00038880 Rroxscaffold_2G00117350 Rroxscaffold_2G00128820 Rroxscaffold_4G00323640
rosa_rugosa	Rorug05G0194000 Rorug05G0194000
rosa_samantha	Rh5AG279600 Rh5BG284200 Rh5BG285000 Rh5CG316900 Rh5DG293800
rosa_wichuraiana	Rw5G026330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	938
AclWI	GGATC	3 cut(s)	389, 606, 751
AcsI	RAATTY	3 cut(s)	320, 901, 958
AcuI	CTGAAG	1 cut(s)	938
AdeI	CACNNNGTG	1 cut(s)	410
AfaI	GTAC	2 cut(s)	572, 748
AfiI	CCNNNNNNNGG	1 cut(s)	984
AflII	CTTAAG	1 cut(s)	47
AjuI	GAANNNNNNNTTGG	2 cut(s)	266, 298
AleI	CACNNNNGTG	1 cut(s)	284
AluBI	AGCT	9 cut(s)	23, 52, 214, 253, 347, 372, 419, 776, 952
AluI	AGCT	9 cut(s)	23, 52, 214, 253, 347, 372, 419, 776, 952
Alw21I	GWGCWC	1 cut(s)	415
AlwI	GGATC	3 cut(s)	389, 606, 751
ApeKI	GCWGC	1 cut(s)	266
ApoI	RAATTY	3 cut(s)	320, 901, 958
AspS9I	GGNCC	2 cut(s)	31, 871
AsuHPI	GGTGA	1 cut(s)	842
AvaII	GGWCC	2 cut(s)	31, 871
AxyI	CCTNAGG	1 cut(s)	761
Bbv12I	GWGCWC	1 cut(s)	415
BbvI	GCAGC	1 cut(s)	253
BccI	CCATC	3 cut(s)	101, 418, 540
BciVI	GTATCC	2 cut(s)	126, 591
BfaI	CTAG	2 cut(s)	392, 773
BfmI	CTRYAG	1 cut(s)	165
BfrI	CTTAAG	1 cut(s)	47
BfuI	GTATCC	2 cut(s)	126, 591
BisI	GCNGC	1 cut(s)	267
BlsI	GCNGC	1 cut(s)	268
Bme18I	GGWCC	2 cut(s)	31, 871
BmgT120I	GGNCC	2 cut(s)	31, 871
BmsI	GCATC	5 cut(s)	62, 122, 130, 815, 853
BpmI	CTGGAG	2 cut(s)	399, 735
Bpu10I	CCTNAGC	1 cut(s)	19
BsaBI	GATNNNNATC	1 cut(s)	597
BsaJI	CCNNGG	2 cut(s)	127, 468
Bsc4I	CCNNNNNNNGG	1 cut(s)	984
Bse1I	ACTGG	3 cut(s)	141, 503, 710
Bse21I	CCTNAGG	1 cut(s)	761
Bse3DI	GCAATG	2 cut(s)	261, 437
Bse8I	GATNNNNATC	1 cut(s)	597
BseDI	CCNNGG	2 cut(s)	127, 468
BseGI	GGATG	4 cut(s)	77, 145, 262, 551
BseJI	GATNNNNATC	1 cut(s)	597
BseLI	CCNNNNNNNGG	1 cut(s)	984
BseMI	GCAATG	2 cut(s)	261, 437
BseMII	CTCAG	2 cut(s)	293, 752
BseNI	ACTGG	3 cut(s)	141, 503, 710
BseXI	GCAGC	1 cut(s)	253
BsiHKAI	GWGCWC	1 cut(s)	415
BslI	CCNNNNNNNGG	1 cut(s)	984
Bsp1286I	GDGCHC	1 cut(s)	415
Bsp1407I	TGTACA	1 cut(s)	570
Bsp143I	GATC	5 cut(s)	327, 394, 520, 598, 756
BspACI	CCGC	1 cut(s)	938
BspCNI	CTCAG	2 cut(s)	294, 753
BspMAI	CTGCAG	1 cut(s)	169
BspPI	GGATC	3 cut(s)	389, 606, 751
BspTI	CTTAAG	1 cut(s)	47
BsrDI	GCAATG	2 cut(s)	261, 437
BsrGI	TGTACA	1 cut(s)	570
BsrI	ACTGG	3 cut(s)	141, 503, 710
BssECI	CCNNGG	2 cut(s)	127, 468
BssMI	GATC	5 cut(s)	327, 394, 520, 598, 756
BssT1I	CCWWGG	2 cut(s)	127, 468
Bst4CI	ACNGT	8 cut(s)	107, 570, 613, 637, 664, 871, 883, 1001
Bst6I	CTCTTC	1 cut(s)	405
BstAFI	CTTAAG	1 cut(s)	47
BstAUI	TGTACA	1 cut(s)	570
BstC8I	GCNNGC	1 cut(s)	718
BstDEI	CTNAG	5 cut(s)	19, 302, 373, 420, 761
BstEII	GGTNACC	1 cut(s)	830
BstF5I	GGATG	4 cut(s)	77, 145, 262, 551
BstKTI	GATC	5 cut(s)	330, 397, 523, 601, 759
BstMBI	GATC	5 cut(s)	327, 394, 520, 598, 756
BstMWI	GCNNNNNNNGC	2 cut(s)	241, 250
BstNSI	RCATGY	1 cut(s)	844
BstPI	GGTNACC	1 cut(s)	830
BstSFI	CTRYAG	1 cut(s)	165
BstV1I	GCAGC	1 cut(s)	253
BstX2I	RGATCY	3 cut(s)	394, 598, 756
BstYI	RGATCY	3 cut(s)	394, 598, 756
Bsu36I	CCTNAGG	1 cut(s)	761
BsuI	GTATCC	2 cut(s)	126, 591
BtsCI	GGATG	4 cut(s)	77, 145, 262, 551
BtsI	GCAGTG	3 cut(s)	415, 537, 864
BtsIMutI	CAGTG	5 cut(s)	415, 537, 660, 864, 1006
Cac8I	GCNNGC	1 cut(s)	718
Cfr13I	GGNCC	2 cut(s)	31, 871
Csp6I	GTAC	2 cut(s)	571, 747
CviAII	CATG	5 cut(s)	443, 744, 841, 889, 941
CviQI	GTAC	2 cut(s)	571, 747
DdeI	CTNAG	5 cut(s)	19, 302, 373, 420, 761
DpnI	GATC	5 cut(s)	329, 396, 522, 600, 758
DpnII	GATC	5 cut(s)	327, 394, 520, 598, 756
DraIII	CACNNNGTG	1 cut(s)	410
Eam1104I	CTCTTC	1 cut(s)	405
EarI	CTCTTC	1 cut(s)	405
Eco130I	CCWWGG	2 cut(s)	127, 468
Eco32I	GATATC	2 cut(s)	88, 435
Eco47I	GGWCC	2 cut(s)	31, 871
Eco57I	CTGAAG	1 cut(s)	938
Eco81I	CCTNAGG	1 cut(s)	761
Eco91I	GGTNACC	1 cut(s)	830
EcoO65I	GGTNACC	1 cut(s)	830
EcoRI	GAATTC	1 cut(s)	958
EcoRV	GATATC	2 cut(s)	88, 435
EcoT14I	CCWWGG	2 cut(s)	127, 468
EcoT22I	ATGCAT	1 cut(s)	846
ErhI	CCWWGG	2 cut(s)	127, 468
FaeI	CATG	5 cut(s)	446, 747, 844, 892, 944
FalI	AAGNNNNNCTT	2 cut(s)	30, 62
FatI	CATG	5 cut(s)	442, 743, 840, 888, 940
Fnu4HI	GCNGC	1 cut(s)	267
FokI	GGATG	4 cut(s)	84, 152, 269, 558
Fsp4HI	GCNGC	1 cut(s)	267
FspBI	CTAG	2 cut(s)	392, 773
GluI	GCNGC	1 cut(s)	267
GsuI	CTGGAG	2 cut(s)	399, 735
Hin1II	CATG	5 cut(s)	446, 747, 844, 892, 944
HincII	GTYRAC	1 cut(s)	867
HindII	GTYRAC	1 cut(s)	867
HindIII	AAGCTT	2 cut(s)	212, 950
HinfI	GANTC	2 cut(s)	218, 359
HphI	GGTGA	1 cut(s)	842
Hpy166II	GTNNAC	6 cut(s)	152, 289, 389, 643, 667, 867
Hpy188I	TCNGA	4 cut(s)	327, 673, 957, 964
Hpy188III	TCNNGA	3 cut(s)	752, 760, 913
Hpy8I	GTNNAC	6 cut(s)	152, 289, 389, 643, 667, 867
HpyAV	CCTTC	4 cut(s)	22, 76, 194, 979
HpyCH4III	ACNGT	8 cut(s)	107, 570, 613, 637, 664, 871, 883, 1001
HpyCH4V	TGCA	7 cut(s)	167, 442, 485, 720, 730, 806, 844
HpyF10VI	GCNNNNNNNGC	2 cut(s)	241, 250
HpyF3I	CTNAG	5 cut(s)	19, 302, 373, 420, 761
Hsp92II	CATG	5 cut(s)	446, 747, 844, 892, 944
Kzo9I	GATC	5 cut(s)	327, 394, 520, 598, 756
LmnI	GCTCC	4 cut(s)	110, 352, 418, 819
Lsp1109I	GCAGC	1 cut(s)	253
LweI	GCATC	5 cut(s)	62, 122, 130, 815, 853
MaeI	CTAG	2 cut(s)	392, 773
MaeIII	GTNAC	6 cut(s)	13, 222, 277, 607, 676, 830
MalI	GATC	5 cut(s)	329, 396, 522, 600, 758
MboI	GATC	5 cut(s)	327, 394, 520, 598, 756
MboII	GAAGA	5 cut(s)	185, 303, 392, 458, 609
MfeI	CAATTG	1 cut(s)	681
MflI	RGATCY	3 cut(s)	394, 598, 756
MhlI	GDGCHC	1 cut(s)	415
MluCI	AATT	8 cut(s)	307, 320, 681, 788, 825, 901, 958, 979
MnlI	CCTC	4 cut(s)	408, 573, 756, 884
Mph1103I	ATGCAT	1 cut(s)	846
MseI	TTAA	6 cut(s)	48, 456, 507, 603, 786, 948
MslI	CAYNNNNRTG	3 cut(s)	284, 447, 725
MspCI	CTTAAG	1 cut(s)	47
MunI	CAATTG	1 cut(s)	681
MwoI	GCNNNNNNNGC	2 cut(s)	241, 250
NdeII	GATC	5 cut(s)	327, 394, 520, 598, 756
NlaIII	CATG	5 cut(s)	446, 747, 844, 892, 944
NmuCI	GTSAC	4 cut(s)	222, 277, 676, 830
NsiI	ATGCAT	1 cut(s)	846
NspI	RCATGY	1 cut(s)	844
OliI	CACNNNNGTG	1 cut(s)	284
PfeI	GAWTC	2 cut(s)	218, 359
PkrI	GCNGC	1 cut(s)	268
PspEI	GGTNACC	1 cut(s)	830
PspPI	GGNCC	2 cut(s)	31, 871
PstI	CTGCAG	1 cut(s)	169
PsuI	RGATCY	3 cut(s)	394, 598, 756
RsaI	GTAC	2 cut(s)	572, 748
RsaNI	GTAC	2 cut(s)	571, 747
RseI	CAYNNNNRTG	3 cut(s)	284, 447, 725
SaqAI	TTAA	6 cut(s)	48, 456, 507, 603, 786, 948
SatI	GCNGC	1 cut(s)	267
Sau3AI	GATC	5 cut(s)	327, 394, 520, 598, 756
Sau96I	GGNCC	2 cut(s)	31, 871
SduI	GDGCHC	1 cut(s)	415
SfaNI	GCATC	5 cut(s)	62, 122, 130, 815, 853
SfcI	CTRYAG	1 cut(s)	165
SinI	GGWCC	2 cut(s)	31, 871
SmiMI	CAYNNNNRTG	3 cut(s)	284, 447, 725
SmlI	CTYRAG	1 cut(s)	47
SmoI	CTYRAG	1 cut(s)	47
Sse9I	AATT	8 cut(s)	307, 320, 681, 788, 825, 901, 958, 979
SsiI	CCGC	1 cut(s)	938
SspI	AATATT	1 cut(s)	181
SspMI	CTAG	2 cut(s)	392, 773
StyI	CCWWGG	2 cut(s)	127, 468
TaaI	ACNGT	8 cut(s)	107, 570, 613, 637, 664, 871, 883, 1001
TaqI	TCGA	2 cut(s)	249, 565
TasI	AATT	8 cut(s)	307, 320, 681, 788, 825, 901, 958, 979
TatI	WGTACW	2 cut(s)	570, 746
TfiI	GAWTC	2 cut(s)	218, 359
Tru1I	TTAA	6 cut(s)	48, 456, 507, 603, 786, 948
Tru9I	TTAA	6 cut(s)	48, 456, 507, 603, 786, 948
TscAI	CASTG	5 cut(s)	415, 544, 667, 864, 1006
TseFI	GTSAC	4 cut(s)	222, 277, 676, 830
TseI	GCWGC	1 cut(s)	266
Tsp45I	GTSAC	4 cut(s)	222, 277, 676, 830
TspDTI	ATGAA	4 cut(s)	459, 509, 714, 732
TspRI	CASTG	5 cut(s)	415, 544, 667, 864, 1006
Vha464I	CTTAAG	1 cut(s)	47
VpaK11BI	GGWCC	2 cut(s)	31, 871
XapI	RAATTY	3 cut(s)	320, 901, 958
XceI	RCATGY	1 cut(s)	844
XspI	CTAG	2 cut(s)	392, 773
Zsp2I	ATGCAT	1 cut(s)	846

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