Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0005529

Physical Location & Seq

Genomic Coordinates Forward (+)

54543942 .. 54545506

Gene Structure 1565 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00323640.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGAGGTTCTGGGTTTCTTCTGAAATTCTGCTTTCCAATGGTTCAATCCAATTCCATAGCATAAAAGAAGGATTCATATCTGCAGTTATATCAAGTAAAGGTCTTGACTTTACCAAGGACTTGCTGATACAAGAGGCAATTTCTTCTATAATTCCACTTCAATTGCCTCAAATTGAAAAGTCTGTGGAAATCCCTCTTATCGGTCAAGTTGATGTTGCTCTGTCCAATATCACAATATATAGTGTTGATATTGCTTCTTCATATGTGGAGACTGGGGACTCCGGTGGTTGTTTGAAGTTTCGGATAATGGGGCCGCCTTTATTCAGGTTGAAGGATATCTCCATCAAGTTAGACGGTGGAGCATCTTGGCTTTACCAAGGGATAGTGGATGCTTTTGGTGGACAAATAGTTTCTGCAGTTGAAGAAAATATTTCCAAGAAAGTCAAAGAAGGAATAACGAAGCTTGATTTGTCACTTCAATCGCTTCCAAAGCAAATCGAGCTGGATGACATTGCTGCTTTGAATGTCACTTTGGTGGACAATCCTGTGCTGAGTAATTCTTCCATTGAATTTCAGATCAATGGTCAATTCACAGCTCCTATTGATGATTCCATATCCAGCTTAGACCATAAAGGTTCACTAGATCCTCTTCCACGCAGTGCTCCAGCTAAGATGGTTGAGATATCATTGCATGAAGATGTCTTTAACTCGTATCCAAACAAGGATATGGATCTTAATGTTACTGTATCTTCTCAACCGATCATTACAGTTGTGAACAATGGCATTGACATCACTGTTTACTCTGATGTGACAATTGATGTCATAGACAATGAAGTTATACCAGTTGCGTGCATATCAATGCACATTCACGCTTCATGTACTCCAGAGATCCTGAGGAATAAACTAGCTGGTATTGTTAAATTGAATGATTTTACTGCATCTTTGAAGTGGAGCAAAATTGGTGACTACACATGCATCTCGTTCAGGTGA

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

329

Amino Acids

35.82

Weight (kDa)

4.69

Isoelectric Point (pI)

41.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LBP_BPI_CETP	PF01273	34 - 97	7.3e-07	LBP / BPI / CETP family, N-terminal domain
LBP_BPI_CETP_C	PF02886	236 - 326	3.2e-08	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)	314
AclWI	GGATC	3 cut(s)	638, 738, 883
AcsI	RAATTY	2 cut(s)	24, 569
AdeI	CACNNNGTG	1 cut(s)	659
AfaI	GTAC	1 cut(s)	880
AfiI	CCNNNNNNNGG	1 cut(s)	200
AjuI	GAANNNNNNNTTGG	2 cut(s)	515, 547
AleI	CACNNNNGTG	1 cut(s)	533
AluBI	AGCT	6 cut(s)	463, 502, 596, 621, 668, 908
AluI	AGCT	6 cut(s)	463, 502, 596, 621, 668, 908
Alw21I	GWGCWC	1 cut(s)	664
Alw26I	GTCTC	1 cut(s)	263
AlwI	GGATC	3 cut(s)	638, 738, 883
AoxI	GGCC	1 cut(s)	311
ApeKI	GCWGC	1 cut(s)	515
ApoI	RAATTY	2 cut(s)	24, 569
AspS9I	GGNCC	1 cut(s)	311
AsuHPI	GGTGA	1 cut(s)	974
AxyI	CCTNAGG	1 cut(s)	893
Bbv12I	GWGCWC	1 cut(s)	664
BbvI	GCAGC	1 cut(s)	502
BccI	CCATC	2 cut(s)	350, 667
BciVI	GTATCC	1 cut(s)	723
BcoDI	GTCTC	1 cut(s)	263
BfaI	CTAG	2 cut(s)	641, 905
BfmI	CTRYAG	2 cut(s)	81, 414
BfuI	GTATCC	1 cut(s)	723
BisI	GCNGC	2 cut(s)	314, 516
BlsI	GCNGC	2 cut(s)	315, 517
BmgT120I	GGNCC	1 cut(s)	311
BmiI	GGNNCC	1 cut(s)	312
BmrI	ACTGGG	1 cut(s)	282
BmsI	GCATC	4 cut(s)	371, 379, 947, 984
BmuI	ACTGGG	1 cut(s)	282
BpmI	CTGGAG	2 cut(s)	648, 867
BsaBI	GATNNNNATC	2 cut(s)	76, 729
BsaJI	CCNNGG	2 cut(s)	114, 376
BsaWI	WCCGGW	1 cut(s)	281
Bsc4I	CCNNNNNNNGG	1 cut(s)	200
Bse1I	ACTGG	2 cut(s)	277, 842
Bse21I	CCTNAGG	1 cut(s)	893
Bse3DI	GCAATG	2 cut(s)	510, 686
Bse8I	GATNNNNATC	2 cut(s)	76, 729
BseDI	CCNNGG	2 cut(s)	114, 376
BseGI	GGATG	2 cut(s)	394, 511
BseJI	GATNNNNATC	2 cut(s)	76, 729
BseLI	CCNNNNNNNGG	1 cut(s)	200
BseMI	GCAATG	2 cut(s)	510, 686
BseMII	CTCAG	2 cut(s)	542, 884
BseNI	ACTGG	2 cut(s)	277, 842
BseXI	GCAGC	1 cut(s)	502
BshFI	GGCC	1 cut(s)	313
BsiHKAI	GWGCWC	1 cut(s)	664
BsiSI	CCGG	1 cut(s)	282
BslFI	GGGAC	1 cut(s)	290
BslI	CCNNNNNNNGG	1 cut(s)	200
BsmAI	GTCTC	1 cut(s)	263
BsmFI	GGGAC	1 cut(s)	290
BsnI	GGCC	1 cut(s)	313
Bsp1286I	GDGCHC	1 cut(s)	664
Bsp143I	GATC	5 cut(s)	576, 643, 730, 759, 888
BspACI	CCGC	1 cut(s)	314
BspANI	GGCC	1 cut(s)	313
BspCNI	CTCAG	2 cut(s)	543, 885
BspLI	GGNNCC	1 cut(s)	312
BspMAI	CTGCAG	2 cut(s)	85, 418
BspPI	GGATC	3 cut(s)	638, 738, 883
BsrDI	GCAATG	2 cut(s)	510, 686
BsrI	ACTGG	2 cut(s)	277, 842
BssECI	CCNNGG	2 cut(s)	114, 376
BssMI	GATC	5 cut(s)	576, 643, 730, 759, 888
BssT1I	CCWWGG	2 cut(s)	114, 376
Bst4CI	ACNGT	4 cut(s)	356, 745, 769, 796
Bst6I	CTCTTC	1 cut(s)	654
BstC8I	GCNNGC	1 cut(s)	850
BstDEI	CTNAG	4 cut(s)	551, 622, 669, 893
BstF5I	GGATG	2 cut(s)	394, 511
BstKTI	GATC	5 cut(s)	579, 646, 733, 762, 891
BstMAI	GTCTC	1 cut(s)	263
BstMBI	GATC	5 cut(s)	576, 643, 730, 759, 888
BstMWI	GCNNNNNNNGC	2 cut(s)	490, 499
BstNSI	RCATGY	1 cut(s)	975
BstSFI	CTRYAG	2 cut(s)	81, 414
BstV1I	GCAGC	1 cut(s)	502
BstX2I	RGATCY	3 cut(s)	643, 730, 888
BstYI	RGATCY	3 cut(s)	643, 730, 888
Bsu36I	CCTNAGG	1 cut(s)	893
BsuI	GTATCC	1 cut(s)	723
BsuRI	GGCC	1 cut(s)	313
BtsCI	GGATG	2 cut(s)	394, 511
BtsI	GCAGTG	1 cut(s)	664
BtsIMutI	CAGTG	2 cut(s)	664, 792
Cac8I	GCNNGC	1 cut(s)	850
Cfr13I	GGNCC	1 cut(s)	311
Csp6I	GTAC	1 cut(s)	879
CspCI	CAANNNNNGTGG	2 cut(s)	144, 179
CviAII	CATG	3 cut(s)	692, 876, 972
CviJI	RGCY	8 cut(s)	313, 370, 463, 502, 596, 621, 668, 908
CviKI_1	RGCY	8 cut(s)	313, 370, 463, 502, 596, 621, 668, 908
CviQI	GTAC	1 cut(s)	879
DdeI	CTNAG	4 cut(s)	551, 622, 669, 893
DpnI	GATC	5 cut(s)	578, 645, 732, 761, 890
DpnII	GATC	5 cut(s)	576, 643, 730, 759, 888
DraIII	CACNNNGTG	1 cut(s)	659
Eam1104I	CTCTTC	1 cut(s)	654
EarI	CTCTTC	1 cut(s)	654
Eco130I	CCWWGG	2 cut(s)	114, 376
Eco32I	GATATC	2 cut(s)	337, 684
Eco81I	CCTNAGG	1 cut(s)	893
EcoRV	GATATC	2 cut(s)	337, 684
EcoT14I	CCWWGG	2 cut(s)	114, 376
EcoT22I	ATGCAT	1 cut(s)	977
ErhI	CCWWGG	2 cut(s)	114, 376
FaeI	CATG	3 cut(s)	695, 879, 975
FaqI	GGGAC	1 cut(s)	290
FatI	CATG	3 cut(s)	691, 875, 971
FauNDI	CATATG	1 cut(s)	262
Fnu4HI	GCNGC	2 cut(s)	314, 516
FokI	GGATG	2 cut(s)	401, 518
Fsp4HI	GCNGC	2 cut(s)	314, 516
FspBI	CTAG	2 cut(s)	641, 905
GluI	GCNGC	2 cut(s)	314, 516
GsuI	CTGGAG	2 cut(s)	648, 867
HaeIII	GGCC	1 cut(s)	313
HapII	CCGG	1 cut(s)	282
Hin1II	CATG	3 cut(s)	695, 879, 975
HindIII	AAGCTT	1 cut(s)	461
HinfI	GANTC	3 cut(s)	72, 278, 608
HpaII	CCGG	1 cut(s)	282
HphI	GGTGA	1 cut(s)	974
Hpy166II	GTNNAC	5 cut(s)	401, 538, 638, 775, 799
Hpy188I	TCNGA	4 cut(s)	22, 303, 576, 805
Hpy188III	TCNNGA	3 cut(s)	104, 884, 892
Hpy8I	GTNNAC	5 cut(s)	401, 538, 638, 775, 799
HpyAV	CCTTC	3 cut(s)	62, 325, 443
HpyCH4III	ACNGT	4 cut(s)	356, 745, 769, 796
HpyCH4V	TGCA	7 cut(s)	83, 416, 691, 852, 862, 938, 975
HpyF10VI	GCNNNNNNNGC	2 cut(s)	490, 499
HpyF3I	CTNAG	4 cut(s)	551, 622, 669, 893
Hsp92II	CATG	3 cut(s)	695, 879, 975
Kzo9I	GATC	5 cut(s)	576, 643, 730, 759, 888
LmnI	GCTCC	4 cut(s)	359, 601, 667, 951
Lsp1109I	GCAGC	1 cut(s)	502
LweI	GCATC	4 cut(s)	371, 379, 947, 984
MaeI	CTAG	2 cut(s)	641, 905
MaeIII	GTNAC	5 cut(s)	471, 526, 739, 808, 962
MalI	GATC	5 cut(s)	578, 645, 732, 761, 890
MboI	GATC	5 cut(s)	576, 643, 730, 759, 888
MboII	GAAGA	8 cut(s)	9, 135, 249, 434, 552, 641, 707, 741
MfeI	CAATTG	2 cut(s)	161, 813
MflI	RGATCY	3 cut(s)	643, 730, 888
MhlI	GDGCHC	1 cut(s)	664
MlyI	GAGTC	1 cut(s)	272
MnlI	CCTC	5 cut(s)	127, 177, 204, 657, 888
Mph1103I	ATGCAT	1 cut(s)	977
MseI	TTAA	3 cut(s)	705, 735, 918
MslI	CAYNNNNRTG	3 cut(s)	533, 696, 857
MspI	CCGG	1 cut(s)	282
MunI	CAATTG	2 cut(s)	161, 813
MwoI	GCNNNNNNNGC	2 cut(s)	490, 499
NdeI	CATATG	1 cut(s)	262
NdeII	GATC	5 cut(s)	576, 643, 730, 759, 888
NlaIII	CATG	3 cut(s)	695, 879, 975
NlaIV	GGNNCC	1 cut(s)	312
NmuCI	GTSAC	4 cut(s)	471, 526, 808, 962
NsiI	ATGCAT	1 cut(s)	977
NspI	RCATGY	1 cut(s)	975
OliI	CACNNNNGTG	1 cut(s)	533
PfeI	GAWTC	2 cut(s)	72, 608
PkrI	GCNGC	2 cut(s)	315, 517
PleI	GAGTC	1 cut(s)	272
PpsI	GAGTC	1 cut(s)	272
PspN4I	GGNNCC	1 cut(s)	312
PspPI	GGNCC	1 cut(s)	311
PstI	CTGCAG	2 cut(s)	85, 418
PsuI	RGATCY	3 cut(s)	643, 730, 888
RsaI	GTAC	1 cut(s)	880
RsaNI	GTAC	1 cut(s)	879
RseI	CAYNNNNRTG	3 cut(s)	533, 696, 857
SaqAI	TTAA	3 cut(s)	705, 735, 918
SatI	GCNGC	2 cut(s)	314, 516
Sau3AI	GATC	5 cut(s)	576, 643, 730, 759, 888
Sau96I	GGNCC	1 cut(s)	311
SchI	GAGTC	1 cut(s)	272
SduI	GDGCHC	1 cut(s)	664
SfaNI	GCATC	4 cut(s)	371, 379, 947, 984
SfcI	CTRYAG	2 cut(s)	81, 414
SmiMI	CAYNNNNRTG	3 cut(s)	533, 696, 857
SsiI	CCGC	1 cut(s)	314
SspI	AATATT	1 cut(s)	430
SspMI	CTAG	2 cut(s)	641, 905
StyI	CCWWGG	2 cut(s)	114, 376
TaaI	ACNGT	4 cut(s)	356, 745, 769, 796
TaqI	TCGA	1 cut(s)	498
TaqII	GACCGA	1 cut(s)	191
TatI	WGTACW	1 cut(s)	878
TauI	GCSGC	1 cut(s)	316
TfiI	GAWTC	2 cut(s)	72, 608
Tru1I	TTAA	3 cut(s)	705, 735, 918
Tru9I	TTAA	3 cut(s)	705, 735, 918
TscAI	CASTG	2 cut(s)	664, 799
TseFI	GTSAC	4 cut(s)	471, 526, 808, 962
TseI	GCWGC	1 cut(s)	515
Tsp45I	GTSAC	4 cut(s)	471, 526, 808, 962
TspDTI	ATGAA	5 cut(s)	64, 249, 708, 846, 864
TspRI	CASTG	2 cut(s)	664, 799
XapI	RAATTY	2 cut(s)	24, 569
XceI	RCATGY	1 cut(s)	975
XspI	CTAG	2 cut(s)	641, 905
Zsp2I	ATGCAT	1 cut(s)	977

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