Rh4AG082900

Uncharacterized protein K02A2.6-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0000250
Physical Location & Seq
Forward (+)
17294337 .. 17300253
5917 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG082900.1

Sequence Viewer

Length: 372 bp
ATGAAAGCGCCAATCCCTGGTGTCCATCTTAAGCTGTACCTAGCTGCAACTGACACTGCAGTGGGGGCTTTACTTGCCCAAGATGATGAAAATGGAGAAGAATGCGCCGTGTACTATGTGAGTTGCTTGTTAGGAGAAGCTGAAGCACGCTATCCCAAGGTTGATAGGAACTGCCTCGCACTTATCTATGCAGCACAAAGATTGCGCCACTATTTCTTGGCGCACAAGCTCCATCTTATGGTAAAGACTGATCCAATTGAAGTCCCTTTTACCCCCCTCAAGGTGGAGGAGAGACTCAGGAGTTACGGGTTCCACAGCCAAACCTTCGAATCTCTCCCATACAAATACTTGAAGGAAGAAACTAGATACTAG
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
RVT_1 RVT_3 Retrotrans_gag rve

Protein Analysis

123

Amino Acids

14.12

Weight (kDa)

6.51

Isoelectric Point (pI)

45.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RT_RNaseH_2 PF17919 3 - 78 1.5e-14 RNase H-like domain found in reverse transcriptase
RT_RNaseH PF17917 10 - 99 1.2e-16 RNase H-like domain found in reverse transcriptase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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

Orthologous Genes (Group: OG0000250)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g22373 FvH4_1g22374 FvH4_1g25831 FvH4_1g28031 FvH4_2g11354 FvH4_3g11301 FvH4_3g11302 FvH4_3g14364 FvH4_3g20862 FvH4_4g15482 FvH4_4g15483 FvH4_4g15484 FvH4_5g25502 FvH4_5g37242 FvH4_6g18432 FvH4_6g18433 FvH4_6g20952 FvH4_7g02201 FvH4_7g10991
prunus_persica Prupe.6G166700_v2.0.a1
pyrus_communis pycom01g03860 pycom02g16130 pycom05g08340 pycom07g08280 pycom16g20980 pycom16g25810
rosa_chinensis RchiOBHm_Chr5g0018261
rosa_laevigata RLG00000022447
rosa_multiflora Rmu_co7963284.1_g000001 Rmu_co7968088.1_g000001 Rmu_co8036800.1_g000001 Rmu_co8110294.1_g000001 Rmu_co8291955.1_g000001 Rmu_co8396209.1_g000002 Rmu_co8413879.1_g000001 Rmu_co8464165.1_g000001 Rmu_co8469565.1_g000001 Rmu_co8485695.1_g000003 Rmu_co8486821.1_g000003 Rmu_co8515379.1_g000001 Rmu_sc0000239.1_g000074 Rmu_sc0000327.1_g000028 Rmu_sc0000509.1_g000002 Rmu_sc0000677.1_g000042 Rmu_sc0000756.1_g000032 Rmu_sc0000782.1_g000013 Rmu_sc0001144.1_g000044 Rmu_sc0001861.1_g000003 Rmu_sc0002371.1_g000016 Rmu_sc0002451.1_g000061 Rmu_sc0002764.1_g000053 Rmu_sc0002868.1_g000041 Rmu_sc0003735.1_g000026 Rmu_sc0004654.1_g000006 Rmu_sc0005038.1_g000020 Rmu_sc0005236.1_g000001 Rmu_sc0006725.1_g000004 Rmu_sc0010685.1_g000001 Rmu_sc0011973.1_g000010 Rmu_sc0012722.1_g000001 Rmu_sc0015925.1_g000002 Rmu_sc0017188.1_g000001 Rmu_sc0021806.1_g000001 Rmu_sc0033125.1_g000001 Rmu_sc0038204.1_g000001 Rmu_ssc0000215.1_g000038
rosa_roxburghii Rroxscaffold_1G00001020 Rroxscaffold_1G00027520 Rroxscaffold_3G00228140 Rroxscaffold_4G00320850 Rroxscaffold_4G00321830 Rroxscaffold_4G00321840 Rroxscaffold_4G00332450 Rroxscaffold_5G00344360 Rroxscaffold_5G00365190 Rroxscaffold_5G00377320 Rroxscaffold_5G00377330 Rroxscaffold_7G00183080 Rroxscaffold_7G00184560 Rroxscaffold_7G00216010
rosa_rugosa Rorug02G0381000
rosa_samantha Rh1AG155000 Rh1AG167000 Rh2AG095000 Rh3BG335500 Rh4AG082900 Rh4CG090200 Rh5CG445500 Rh7DG403200
rosa_wichuraiana Rw0G001000 Rw0G014090 Rw0G019800 Rw0G020130 Rw0G020350 Rw1G002560 Rw1G013310 Rw1G014300 Rw1G014670 Rw1G016610 Rw1G021110 Rw1G024950 Rw1G028180 Rw2G020910 Rw2G024170 Rw2G024770 Rw2G029990 Rw2G031960 Rw2G034100 Rw3G013950 Rw3G028980 Rw3G029200 Rw4G004150 Rw4G008130 Rw4G012200 Rw4G018750 Rw4G019330 Rw4G021010 Rw4G022120 Rw4G030810 Rw5G015840 Rw5G015850 Rw5G022430 Rw5G022480 Rw5G026870 Rw5G033550 Rw6G009170 Rw6G010190 Rw6G011570 Rw6G018280 Rw6G023730 Rw7G025660 Rw7G029890 Rw7G031130 Rw7G042550

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 17, 238
AclWI GGATC 1 cut(s) 245
AcuI CTGAAG 1 cut(s) 162
AfaI GTAC 2 cut(s) 38, 113
AfiI CCNNNNNNNGG 4 cut(s) 17, 238, 280, 283
AflII CTTAAG 1 cut(s) 29
AgsI TTSAA 2 cut(s) 260, 352
AjnI CCWGG 1 cut(s) 16
AleI CACNNNNGTG 1 cut(s) 59
AluBI AGCT 4 cut(s) 34, 44, 140, 229
AluI AGCT 4 cut(s) 34, 44, 140, 229
Alw26I GTCTC 1 cut(s) 286
AlwI GGATC 1 cut(s) 245
ApeKI GCWGC 2 cut(s) 44, 191
AspLEI GCGC 4 cut(s) 10, 107, 207, 223
AsuII TTCGAA 1 cut(s) 327
BbvI GCAGC 2 cut(s) 31, 203
BccI CCATC 2 cut(s) 33, 240
BceAI ACGGC 1 cut(s) 92
BciT130I CCWGG 1 cut(s) 18
BcoDI GTCTC 1 cut(s) 286
BfaI CTAG 3 cut(s) 41, 363, 370
BfmI CTRYAG 1 cut(s) 57
BfoI RGCGCY 1 cut(s) 11
BfrI CTTAAG 1 cut(s) 29
BisI GCNGC 2 cut(s) 45, 192
BlsI GCNGC 2 cut(s) 46, 193
Bme1390I CCNGG 1 cut(s) 18
BmiI GGNNCC 1 cut(s) 311
BmrFI CCNGG 1 cut(s) 18
Bpu14I TTCGAA 1 cut(s) 327
BpuEI CTTGAG 1 cut(s) 263
BsaJI CCNNGG 2 cut(s) 16, 156
Bsc4I CCNNNNNNNGG 4 cut(s) 17, 238, 280, 283
BseBI CCWGG 1 cut(s) 18
BseDI CCNNGG 2 cut(s) 16, 156
BseLI CCNNNNNNNGG 4 cut(s) 17, 238, 280, 283
BseMII CTCAG 1 cut(s) 310
BseRI GAGGAG 1 cut(s) 302
BseXI GCAGC 2 cut(s) 31, 203
BslFI GGGAC 1 cut(s) 248
BslI CCNNNNNNNGG 4 cut(s) 17, 238, 280, 283
BsmAI GTCTC 1 cut(s) 286
BsmFI GGGAC 1 cut(s) 248
BsmI GAATGC 1 cut(s) 107
Bsp119I TTCGAA 1 cut(s) 327
Bsp143I GATC 1 cut(s) 250
BspCNI CTCAG 1 cut(s) 309
BspLI GGNNCC 1 cut(s) 311
BspMAI CTGCAG 1 cut(s) 61
BspPI GGATC 1 cut(s) 245
BspT104I TTCGAA 1 cut(s) 327
BspTI CTTAAG 1 cut(s) 29
BssECI CCNNGG 2 cut(s) 16, 156
BssMI GATC 1 cut(s) 250
BssT1I CCWWGG 1 cut(s) 156
Bst2UI CCWGG 1 cut(s) 18
BstAFI CTTAAG 1 cut(s) 29
BstBI TTCGAA 1 cut(s) 327
BstC8I GCNNGC 1 cut(s) 148
BstDEI CTNAG 1 cut(s) 296
BstH2I RGCGCY 1 cut(s) 11
BstHHI GCGC 4 cut(s) 10, 107, 207, 223
BstKTI GATC 1 cut(s) 253
BstMAI GTCTC 1 cut(s) 286
BstMBI GATC 1 cut(s) 250
BstMWI GCNNNNNNNGC 2 cut(s) 65, 74
BstNI CCWGG 1 cut(s) 18
BstSCI CCNGG 1 cut(s) 16
BstSFI CTRYAG 1 cut(s) 57
BstV1I GCAGC 2 cut(s) 31, 203
BtsI GCAGTG 2 cut(s) 54, 66
BtsIMutI CAGTG 2 cut(s) 54, 66
Cac8I GCNNGC 1 cut(s) 148
CfoI GCGC 4 cut(s) 10, 107, 207, 223
Csp6I GTAC 2 cut(s) 37, 112
CviJI RGCY 6 cut(s) 34, 44, 68, 140, 229, 318
CviKI_1 RGCY 6 cut(s) 34, 44, 68, 140, 229, 318
CviQI GTAC 2 cut(s) 37, 112
DdeI CTNAG 1 cut(s) 296
DpnI GATC 1 cut(s) 252
DpnII GATC 1 cut(s) 250
Eco130I CCWWGG 1 cut(s) 156
Eco57I CTGAAG 1 cut(s) 162
EcoRII CCWGG 1 cut(s) 16
EcoT14I CCWWGG 1 cut(s) 156
ErhI CCWWGG 1 cut(s) 156
FaiI YATR 4 cut(s) 117, 189, 239, 340
FaqI GGGAC 1 cut(s) 248
Fnu4HI GCNGC 2 cut(s) 45, 192
Fsp4HI GCNGC 2 cut(s) 45, 192
FspBI CTAG 3 cut(s) 41, 363, 370
GlaI GCGC 4 cut(s) 9, 106, 206, 222
GluI GCNGC 2 cut(s) 45, 192
HaeII RGCGCY 1 cut(s) 11
HhaI GCGC 4 cut(s) 10, 107, 207, 223
Hin6I GCGC 4 cut(s) 8, 105, 205, 221
HinP1I GCGC 4 cut(s) 8, 105, 205, 221
HinfI GANTC 2 cut(s) 294, 329
Hpy166II GTNNAC 1 cut(s) 112
Hpy188III TCNNGA 1 cut(s) 298
Hpy8I GTNNAC 1 cut(s) 112
HpyAV CCTTC 2 cut(s) 334, 346
HpyCH4V TGCA 3 cut(s) 47, 59, 191
HpyF10VI GCNNNNNNNGC 2 cut(s) 65, 74
HpyF3I CTNAG 1 cut(s) 296
HspAI GCGC 4 cut(s) 8, 105, 205, 221
Kzo9I GATC 1 cut(s) 250
LmnI GCTCC 1 cut(s) 234
LpnPI CCDG 3 cut(s) 3, 30, 283
Lsp1109I GCAGC 2 cut(s) 31, 203
MaeI CTAG 3 cut(s) 41, 363, 370
MaeIII GTNAC 1 cut(s) 302
MalI GATC 1 cut(s) 252
MboI GATC 1 cut(s) 250
MboII GAAGA 2 cut(s) 110, 368
MfeI CAATTG 1 cut(s) 255
MluCI AATT 1 cut(s) 255
MlyI GAGTC 1 cut(s) 288
MnlI CCTC 3 cut(s) 185, 280, 287
MseI TTAA 1 cut(s) 30
MslI CAYNNNNRTG 1 cut(s) 59
MspCI CTTAAG 1 cut(s) 29
MspR9I CCNGG 1 cut(s) 18
MunI CAATTG 1 cut(s) 255
Mva1269I GAATGC 1 cut(s) 107
MvaI CCWGG 1 cut(s) 18
MwoI GCNNNNNNNGC 2 cut(s) 65, 74
NdeII GATC 1 cut(s) 250
NlaIV GGNNCC 1 cut(s) 311
NspV TTCGAA 1 cut(s) 327
OliI CACNNNNGTG 1 cut(s) 59
PctI GAATGC 1 cut(s) 107
PfeI GAWTC 1 cut(s) 329
PflMI CCANNNNNTGG 2 cut(s) 17, 238
PkrI GCNGC 2 cut(s) 46, 193
PleI GAGTC 1 cut(s) 288
PpsI GAGTC 1 cut(s) 288
Psp6I CCWGG 1 cut(s) 16
PspGI CCWGG 1 cut(s) 16
PspN4I GGNNCC 1 cut(s) 311
PstI CTGCAG 1 cut(s) 61
RsaI GTAC 2 cut(s) 38, 113
RsaNI GTAC 2 cut(s) 37, 112
RseI CAYNNNNRTG 1 cut(s) 59
SaqAI TTAA 1 cut(s) 30
SatI GCNGC 2 cut(s) 45, 192
Sau3AI GATC 1 cut(s) 250
SchI GAGTC 1 cut(s) 288
ScrFI CCNGG 1 cut(s) 18
SetI ASST 8 cut(s) 36, 42, 46, 142, 162, 231, 285, 326
SfcI CTRYAG 1 cut(s) 57
SfuI TTCGAA 1 cut(s) 327
SmiMI CAYNNNNRTG 1 cut(s) 59
SmlI CTYRAG 2 cut(s) 29, 278
SmoI CTYRAG 2 cut(s) 29, 278
Sse9I AATT 1 cut(s) 255
SspMI CTAG 3 cut(s) 41, 363, 370
StyD4I CCNGG 1 cut(s) 16
StyI CCWWGG 1 cut(s) 156
TaqI TCGA 1 cut(s) 327
TasI AATT 1 cut(s) 255
TatI WGTACW 1 cut(s) 111
TfiI GAWTC 1 cut(s) 329
Tru1I TTAA 1 cut(s) 30
Tru9I TTAA 1 cut(s) 30
TscAI CASTG 2 cut(s) 61, 66
TseI GCWGC 2 cut(s) 44, 191
TspDTI ATGAA 2 cut(s) 17, 102
TspRI CASTG 2 cut(s) 61, 66
Van91I CCANNNNNTGG 2 cut(s) 17, 238
Vha464I CTTAAG 1 cut(s) 29
XspI CTAG 3 cut(s) 41, 363, 370
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.