Rroxscaffold_4G00320010

lipid metabolic process

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0002557
Physical Location & Seq
Forward (+)
48260122 .. 48270645
10524 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00320010.1

Sequence Viewer

Length: 1005 bp
ATGAAATTTAAAAATGAAGCTTACTCTATCTTTGTTGCTTTTTATACTTACATTCAAAATCAATTTAATTGTTCGATTAAATCTTTGCAAACTGATGGTGGTGGTGAATATGTCAATGGCAATTTACAAAAATTTTTATCTTTAAAAGGTGTTCATCACTGCATTTCTTGCCCTCATCACCCTCAACAAAATGGACTTGCTGAACGCAAACATCGGCATCTTGTTGATATTGCCCTTACCTTGCTTGCTCATGCCTCAATGCCATCCCAATATTGGGTTGAGGCAATTAATACTGCAATTTTTATTGTTAATCGCTTGCCCACAAAAGTCCTACAATTCTCTTCTCCTTATGAAAAATTATTTCGGCATCCTCCTAATTATGACTTCTTTCGTACATTTGGATGTGCTTGCTATCCATGTTTGCGTCCTTATAATACACACAAACTTGCTTTTCGTTCTAAACAATGTGTTTTTCTTGGTTATTCTTTAAATCATAGTGGGTATAGATGTCTAGATCCCGTCACCGGAAGAGTTTATTTGTCTAAAAATGTTATCTTTAATGAAACTTCTTTCCCTTTTCGTGAGAAAAGTACTACTGCTCCTGCACAAGCGTCCTTATCACCATTCCTAGAAATTATTCCACCTACTTTTTCTCCTCCACCGACTACTACATCACATGGCACTACTCTACCGAGTTCTCCTCCACCCAATTCAACCCCACATAACACTCCTTCTCTGCCCAATTCTCATCCACACATTTTAACCCCACATAACACTCCTCCTCTGCCAAATTCTCCTCCACACACTTCAACCCCACATGATACTCCTTTGCCGAATTCATCTCCACCAACTGCTGACCCTACACACTCACCAAATCCAACGTCTCTTCCTTATTCCCCACCTAATCACCCACCTTTGAATGTTGACTCTCTTCCATTCTCAAGTCCATCCACTTCTAACAATGCCCATGACGCTACCCCACCGGTGCCTCCTCCTCCACCGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF4219 RVT_2 Retrotran_gag_2 Retrotran_gag_3 gag_pre-integrs rve zf-CCHC

Protein Analysis

334

Amino Acids

36.92

Weight (kDa)

8.86

Isoelectric Point (pI)

55.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_retrovirus PF25597 135 - 197 1.4e-22 Retroviral polymerase SH3-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 432
AccB1I GGYRCC 1 cut(s) 985
AclWI GGATC 1 cut(s) 509
AcsI RAATTY 4 cut(s) 5, 131, 790, 835
AfaI GTAC 2 cut(s) 394, 592
AfiI CCNNNNNNNGG 3 cut(s) 273, 274, 524
AgeI ACCGGT 1 cut(s) 982
AgsI TTSAA 4 cut(s) 56, 714, 810, 919
AluBI AGCT 1 cut(s) 20
AluI AGCT 1 cut(s) 20
Alw26I GTCTC 1 cut(s) 888
AlwI GGATC 1 cut(s) 509
ApoI RAATTY 4 cut(s) 5, 131, 790, 835
ArsI GACNNNNNNTTYG 2 cut(s) 866, 898
AseI ATTAAT 1 cut(s) 288
AsiGI ACCGGT 1 cut(s) 982
Asp700I GAANNNNTTC 1 cut(s) 636
AsuHPI GGTGA 6 cut(s) 116, 170, 514, 612, 861, 899
BanI GGYRCC 1 cut(s) 985
BccI CCATC 3 cut(s) 89, 271, 955
BcoDI GTCTC 1 cut(s) 888
BfaI CTAG 2 cut(s) 512, 629
BmcAI AGTACT 1 cut(s) 592
BmiI GGNNCC 1 cut(s) 987
BmsI GCATC 2 cut(s) 226, 376
BplI GAGNNNNNCTC 2 cut(s) 685, 717
BpuEI CTTGAG 1 cut(s) 925
BsaWI WCCGGW 2 cut(s) 524, 982
BsaXI ACNNNNNCTCC 4 cut(s) 583, 613, 637, 667
Bsc4I CCNNNNNNNGG 3 cut(s) 273, 274, 524
Bse118I RCCGGY 1 cut(s) 982
BseGI GGATG 5 cut(s) 263, 367, 407, 748, 947
BseLI CCNNNNNNNGG 3 cut(s) 273, 274, 524
BseRI GAGGAG 7 cut(s) 645, 690, 768, 771, 786, 981, 984
BsgI GTGCAG 1 cut(s) 588
BshNI GGYRCC 1 cut(s) 985
BshTI ACCGGT 1 cut(s) 982
BsiSI CCGG 2 cut(s) 525, 983
BslI CCNNNNNNNGG 3 cut(s) 273, 274, 524
BsmAI GTCTC 1 cut(s) 888
BsmBI CGTCTC 1 cut(s) 888
Bsp143I GATC 1 cut(s) 514
BspLI GGNNCC 1 cut(s) 987
BspPI GGATC 1 cut(s) 509
BspT107I GGYRCC 1 cut(s) 985
BsrFI RCCGGY 1 cut(s) 982
BssAI RCCGGY 1 cut(s) 982
BssMI GATC 1 cut(s) 514
Bst4CI ACNGT 1 cut(s) 1002
Bst6I CTCTTC 4 cut(s) 346, 523, 891, 936
BstAPI GCANNNNNTGC 1 cut(s) 168
BstC8I GCNNGC 3 cut(s) 246, 317, 409
BstF5I GGATG 5 cut(s) 263, 367, 407, 748, 947
BstKTI GATC 1 cut(s) 517
BstMAI GTCTC 1 cut(s) 888
BstMBI GATC 1 cut(s) 514
BstMWI GCNNNNNNNGC 2 cut(s) 168, 971
BstX2I RGATCY 1 cut(s) 514
BstYI RGATCY 1 cut(s) 514
BtsCI GGATG 5 cut(s) 263, 367, 407, 748, 947
BtsI GCAGTG 1 cut(s) 157
BtsIMutI CAGTG 1 cut(s) 157
Cac8I GCNNGC 3 cut(s) 246, 317, 409
Cfr10I RCCGGY 1 cut(s) 982
CseI GACGC 3 cut(s) 413, 600, 980
Csp6I GTAC 2 cut(s) 393, 591
CspAI ACCGGT 1 cut(s) 982
CviAII CATG 5 cut(s) 251, 417, 677, 818, 968
CviJI RGCY 1 cut(s) 20
CviKI_1 RGCY 1 cut(s) 20
CviQI GTAC 2 cut(s) 393, 591
DpnI GATC 1 cut(s) 516
DpnII GATC 1 cut(s) 514
DraI TTTAAA 3 cut(s) 10, 144, 489
Eam1104I CTCTTC 4 cut(s) 346, 523, 891, 936
EarI CTCTTC 4 cut(s) 346, 523, 891, 936
EcoRI GAATTC 1 cut(s) 835
Esp3I CGTCTC 1 cut(s) 888
FaeI CATG 5 cut(s) 254, 420, 680, 821, 971
FatI CATG 5 cut(s) 250, 416, 676, 817, 967
FokI GGATG 5 cut(s) 250, 354, 414, 735, 934
FspBI CTAG 2 cut(s) 512, 629
HapII CCGG 2 cut(s) 525, 983
HgaI GACGC 3 cut(s) 413, 600, 980
Hin1II CATG 5 cut(s) 254, 420, 680, 821, 971
HincII GTYRAC 1 cut(s) 925
HindII GTYRAC 1 cut(s) 925
HindIII AAGCTT 1 cut(s) 18
HinfI GANTC 1 cut(s) 926
HpaII CCGG 2 cut(s) 525, 983
HphI GGTGA 6 cut(s) 116, 170, 514, 612, 861, 899
Hpy166II GTNNAC 1 cut(s) 925
Hpy188III TCNNGA 2 cut(s) 512, 581
Hpy8I GTNNAC 1 cut(s) 925
HpyAV CCTTC 1 cut(s) 741
HpyCH4III ACNGT 1 cut(s) 1002
HpyCH4IV ACGT 1 cut(s) 881
HpyCH4V TGCA 4 cut(s) 88, 162, 296, 605
HpyF10VI GCNNNNNNNGC 2 cut(s) 168, 971
HpySE526I ACGT 1 cut(s) 881
Hsp92II CATG 5 cut(s) 254, 420, 680, 821, 971
Kzo9I GATC 1 cut(s) 514
LmnI GCTCC 1 cut(s) 604
LpnPI CCDG 3 cut(s) 538, 615, 996
LweI GCATC 2 cut(s) 226, 376
MaeI CTAG 2 cut(s) 512, 629
MaeII ACGT 1 cut(s) 881
MaeIII GTNAC 1 cut(s) 520
MalI GATC 1 cut(s) 516
MboI GATC 1 cut(s) 514
MboII GAAGA 4 cut(s) 333, 540, 878, 923
MflI RGATCY 1 cut(s) 514
MlyI GAGTC 1 cut(s) 920
MmeI TCCRAC 1 cut(s) 902
MroXI GAANNNNTTC 1 cut(s) 636
MseI TTAA 9 cut(s) 9, 66, 78, 143, 288, 309, 488, 558, 761
MslI CAYNNNNRTG 1 cut(s) 400
MspI CCGG 2 cut(s) 525, 983
MwoI GCNNNNNNNGC 2 cut(s) 168, 971
NdeII GATC 1 cut(s) 514
NlaIII CATG 5 cut(s) 254, 420, 680, 821, 971
NlaIV GGNNCC 1 cut(s) 987
NmuCI GTSAC 1 cut(s) 520
PdmI GAANNNNTTC 1 cut(s) 636
PinAI ACCGGT 1 cut(s) 982
PleI GAGTC 1 cut(s) 920
PpsI GAGTC 1 cut(s) 920
PshBI ATTAAT 1 cut(s) 288
PsiI TTATAA 1 cut(s) 432
PspN4I GGNNCC 1 cut(s) 987
PsuI RGATCY 1 cut(s) 514
RsaI GTAC 2 cut(s) 394, 592
RsaNI GTAC 2 cut(s) 393, 591
RseI CAYNNNNRTG 1 cut(s) 400
SaqAI TTAA 9 cut(s) 9, 66, 78, 143, 288, 309, 488, 558, 761
Sau3AI GATC 1 cut(s) 514
ScaI AGTACT 1 cut(s) 592
SchI GAGTC 1 cut(s) 920
SetI ASST 7 cut(s) 22, 151, 242, 646, 884, 904, 916
SfaNI GCATC 2 cut(s) 226, 376
SgrAI CRCCGGYG 1 cut(s) 982
SmiMI CAYNNNNRTG 1 cut(s) 400
SmlI CTYRAG 1 cut(s) 940
SmoI CTYRAG 1 cut(s) 940
SspI AATATT 1 cut(s) 272
SspMI CTAG 2 cut(s) 512, 629
TaaI ACNGT 1 cut(s) 1002
TaiI ACGT 1 cut(s) 884
TaqI TCGA 1 cut(s) 74
TatI WGTACW 1 cut(s) 590
Tru1I TTAA 9 cut(s) 9, 66, 78, 143, 288, 309, 488, 558, 761
Tru9I TTAA 9 cut(s) 9, 66, 78, 143, 288, 309, 488, 558, 761
TscAI CASTG 1 cut(s) 164
TseFI GTSAC 1 cut(s) 520
Tsp45I GTSAC 1 cut(s) 520
TspDTI ATGAA 6 cut(s) 17, 30, 143, 366, 576, 828
TspRI CASTG 1 cut(s) 164
VspI ATTAAT 1 cut(s) 288
XapI RAATTY 4 cut(s) 5, 131, 790, 835
XbaI TCTAGA 1 cut(s) 511
XcmI CCANNNNNNNNNTGG 1 cut(s) 270
XmnI GAANNNNTTC 1 cut(s) 636
XspI CTAG 2 cut(s) 512, 629
ZrmI AGTACT 1 cut(s) 592
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.