Rh6AG472000

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000703
Physical Location & Seq
Reverse (-)
65450788 .. 65451207
420 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG472000.1

Sequence Viewer

Length: 420 bp
ATGGGTAGCATAACTGATCGTGCAGCTGGTTCAACAAGTCATCCTCCTTATCTTGATGAAAAAGTCAACTATGCAACATGGAAGGCCAAGATGAAGGCATTCTTGTGGGCAGTGGATGTTAATGTATGGGCTATTGTTGAGAGTGGTTGGGAATATCCAACAAAAGCAGACAAAGTAGCGAAATCTAGTGAGGATGCCTCAACTACTGGTGGTAGAGTGCAGAAGCCTATGAGTGAATGGACTTCAGATGAAAACATTAAGAGTACAAATAATCAGAGGGCTATAAATGCATTTTACACTGCTTTGTCCCCTGAAAAATTTCAGTTGATATCTCATTGTACCTCAGCGAAGCAAATTTGGGAGGTTCTTAAAGTCACTAATGAAGGAACCTCAACAGTTAGAGAGTCCAAACTCCATTAG
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

139

Amino Acids

15.51

Weight (kDa)

7.83

Isoelectric Point (pI)

26.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 50 - 136 9.6e-07 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 317, 354
AcuI CTGAAG 1 cut(s) 228
AfaI GTAC 2 cut(s) 265, 340
AgsI TTSAA 1 cut(s) 33
AluBI AGCT 1 cut(s) 26
AluI AGCT 1 cut(s) 26
AoxI GGCC 1 cut(s) 84
ApeKI GCWGC 1 cut(s) 23
ApoI RAATTY 2 cut(s) 317, 354
Asp700I GAANNNNTTC 2 cut(s) 98, 318
BbvCI CCTCAGC 1 cut(s) 343
BbvI GCAGC 1 cut(s) 35
BfaI CTAG 1 cut(s) 186
BisI GCNGC 1 cut(s) 24
BlsI GCNGC 1 cut(s) 25
BmiI GGNNCC 1 cut(s) 388
BmsI GCATC 1 cut(s) 184
BplI GAGNNNNNCTC 2 cut(s) 182, 214
Bpu10I CCTNAGC 1 cut(s) 343
Bse1I ACTGG 1 cut(s) 211
BseGI GGATG 3 cut(s) 40, 121, 199
BseMII CTCAG 1 cut(s) 357
BseNI ACTGG 1 cut(s) 211
BseXI GCAGC 1 cut(s) 35
BsgI GTGCAG 2 cut(s) 42, 239
BshFI GGCC 1 cut(s) 86
BslFI GGGAC 1 cut(s) 292
BsmFI GGGAC 1 cut(s) 292
BsmI GAATGC 1 cut(s) 98
BsnI GGCC 1 cut(s) 86
Bsp143I GATC 1 cut(s) 16
BspANI GGCC 1 cut(s) 86
BspCNI CTCAG 1 cut(s) 356
BspLI GGNNCC 1 cut(s) 388
BsrI ACTGG 1 cut(s) 211
BssMI GATC 1 cut(s) 16
Bst4CI ACNGT 1 cut(s) 397
BstDEI CTNAG 1 cut(s) 343
BstF5I GGATG 3 cut(s) 40, 121, 199
BstKTI GATC 1 cut(s) 19
BstMBI GATC 1 cut(s) 16
BstMWI GCNNNNNNNGC 1 cut(s) 287
BstV1I GCAGC 1 cut(s) 35
BsuRI GGCC 1 cut(s) 86
BtsCI GGATG 3 cut(s) 40, 121, 199
BtsI GCAGTG 2 cut(s) 117, 297
BtsIMutI CAGTG 2 cut(s) 117, 297
Csp6I GTAC 2 cut(s) 264, 339
CviAII CATG 1 cut(s) 78
CviJI RGCY 5 cut(s) 26, 86, 131, 226, 281
CviKI_1 RGCY 5 cut(s) 26, 86, 131, 226, 281
CviQI GTAC 2 cut(s) 264, 339
DdeI CTNAG 1 cut(s) 343
DpnI GATC 1 cut(s) 18
DpnII GATC 1 cut(s) 16
Eco32I GATATC 1 cut(s) 330
Eco57I CTGAAG 1 cut(s) 228
EcoRV GATATC 1 cut(s) 330
EcoT22I ATGCAT 1 cut(s) 292
FaeI CATG 1 cut(s) 81
FaiI YATR 6 cut(s) 11, 72, 79, 127, 230, 284
FalI AAGNNNNNCTT 2 cut(s) 86, 118
FaqI GGGAC 1 cut(s) 292
FatI CATG 1 cut(s) 77
Fnu4HI GCNGC 1 cut(s) 24
FokI GGATG 3 cut(s) 27, 128, 206
Fsp4HI GCNGC 1 cut(s) 24
FspBI CTAG 1 cut(s) 186
GluI GCNGC 1 cut(s) 24
HaeIII GGCC 1 cut(s) 86
Hin1II CATG 1 cut(s) 81
HincII GTYRAC 1 cut(s) 67
HindII GTYRAC 1 cut(s) 67
HinfI GANTC 1 cut(s) 404
Hpy166II GTNNAC 1 cut(s) 67
Hpy188I TCNGA 2 cut(s) 247, 276
Hpy188III TCNNGA 1 cut(s) 53
Hpy8I GTNNAC 1 cut(s) 67
HpyAV CCTTC 3 cut(s) 76, 88, 377
HpyCH4III ACNGT 1 cut(s) 397
HpyCH4V TGCA 4 cut(s) 23, 74, 220, 290
HpyF10VI GCNNNNNNNGC 1 cut(s) 287
HpyF3I CTNAG 1 cut(s) 343
Hsp92II CATG 1 cut(s) 81
Kzo9I GATC 1 cut(s) 16
LpnPI CCDG 3 cut(s) 12, 192, 324
Lsp1109I GCAGC 1 cut(s) 35
LweI GCATC 1 cut(s) 184
MaeI CTAG 1 cut(s) 186
MaeIII GTNAC 1 cut(s) 373
MalI GATC 1 cut(s) 18
MboI GATC 1 cut(s) 16
MluCI AATT 2 cut(s) 317, 354
MlyI GAGTC 1 cut(s) 413
MmeI TCCRAC 1 cut(s) 182
MnlI CCTC 7 cut(s) 54, 184, 208, 270, 352, 355, 400
Mph1103I ATGCAT 1 cut(s) 292
MroXI GAANNNNTTC 2 cut(s) 98, 318
MseI TTAA 3 cut(s) 120, 258, 369
MslI CAYNNNNRTG 1 cut(s) 103
MspA1I CMGCKG 1 cut(s) 26
Mva1269I GAATGC 1 cut(s) 98
MwoI GCNNNNNNNGC 1 cut(s) 287
NdeII GATC 1 cut(s) 16
NlaIII CATG 1 cut(s) 81
NlaIV GGNNCC 1 cut(s) 388
NmuCI GTSAC 1 cut(s) 373
NsiI ATGCAT 1 cut(s) 292
PctI GAATGC 1 cut(s) 98
PdmI GAANNNNTTC 2 cut(s) 98, 318
PkrI GCNGC 1 cut(s) 25
PleI GAGTC 1 cut(s) 412
PpsI GAGTC 1 cut(s) 412
PspN4I GGNNCC 1 cut(s) 388
PvuII CAGCTG 1 cut(s) 26
RsaI GTAC 2 cut(s) 265, 340
RsaNI GTAC 2 cut(s) 264, 339
RseI CAYNNNNRTG 1 cut(s) 103
SaqAI TTAA 3 cut(s) 120, 258, 369
SatI GCNGC 1 cut(s) 24
Sau3AI GATC 1 cut(s) 16
SchI GAGTC 1 cut(s) 413
SetI ASST 4 cut(s) 28, 344, 366, 392
SfaNI GCATC 1 cut(s) 184
SmiMI CAYNNNNRTG 1 cut(s) 103
Sse9I AATT 2 cut(s) 317, 354
SspMI CTAG 1 cut(s) 186
TaaI ACNGT 1 cut(s) 397
TasI AATT 2 cut(s) 317, 354
TatI WGTACW 1 cut(s) 263
Tru1I TTAA 3 cut(s) 120, 258, 369
Tru9I TTAA 3 cut(s) 120, 258, 369
TscAI CASTG 2 cut(s) 117, 304
TseFI GTSAC 1 cut(s) 373
TseI GCWGC 1 cut(s) 23
Tsp45I GTSAC 1 cut(s) 373
TspDTI ATGAA 4 cut(s) 72, 107, 264, 396
TspRI CASTG 2 cut(s) 117, 304
XapI RAATTY 2 cut(s) 317, 354
XmnI GAANNNNTTC 2 cut(s) 98, 318
XspI CTAG 1 cut(s) 186
Zsp2I ATGCAT 1 cut(s) 292
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.