Rw4G023970

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0000128
Physical Location & Seq
Reverse (-)
49783895 .. 49784971
1077 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G023970.1

Sequence Viewer

Length: 759 bp
ATGCCTTATGGGTACCAGCCGCCCAAGTTTCAGCAATTCGAGGGGAAGGGCAATCCAAAACAACATATTGCTCATTTCGTCGAGACTTGCAACAATGCAGGAACGGAGGGAGATCATCTTGTTAAGCAGTTTGTACGTTCATTAAAAGGCAACGCCTTCGAATGGTACACTGATCTGGAACCTGAATCAATCGACAGTTGGGATCAGATGGAGCGTGAGTTCCTGAATCGTTTCTATAGCACTAGACGTACAAAACCTACAAAAGAATCAATGGCTGTCAACATTGCCCCCGTCAAAATCTCTACACGAGATAAGGAGGTTATGAAAGCAGAGCCAACTCGCACCTACGACAGAACAAAGCGTTCGTTGAAAGAATGGCAACAAAAGACATATCCTTTCCCAGATTCTGACGTGGCAGGCATGTTGGAAGATCTACTTGAGAAGAAGGTGATAGAGCTCCCAGAATGCAAGCGGCCCGAAGAAATGCATCGTGTTAAGGATCCGAAATACTGCAAGTACCATCGGCTCGTTAGTCACCCAGTGGAGAAATGCTTTGTTCTGAAAGATTTAATAATGAATCTCGCTAAGCAAGGAAGGATCGAGCTGGATGTTGACGATGTTGCTGAGGTAAACTGCACTACCATCTTGTTTGGGTCATTCGAGCCTGCCCCATTGCCTTCTCTTCCAATGAAAGCACCATATCAGCTCTCGAGGAAGCCATGTACGAAGTCAAAGTTAGAGAAAGTCAAGCCAATCTAG
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
Retrotrans_gag

Protein Analysis

252

Amino Acids

29.34

Weight (kDa)

8.74

Isoelectric Point (pI)

53.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 44 - 89 3.6e-07 Retrotransposon gag protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000128)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g28082 FvH4_2g15191 FvH4_2g31621 FvH4_3g07261 FvH4_3g22806 FvH4_3g26703 FvH4_3g26704 FvH4_3g31360 FvH4_4g01161 FvH4_4g22271 FvH4_4g25732 FvH4_5g00242 FvH4_5g28911 FvH4_5g32461 FvH4_6g13112 FvH4_6g53790 FvH4_6g53791 FvH4_7g03661 FvH4_7g04125 FvH4_7g04126
pyrus_communis pycom01g01950 pycom01g01960 pycom01g03260 pycom01g07760 pycom01g11430 pycom01g23980 pycom02g15030 pycom02g18630 pycom03g12320 pycom03g18810 pycom03g19250 pycom04g05010 pycom04g06520 pycom04g06680 pycom04g09630 pycom04g09640 pycom05g06850 pycom05g07540 pycom05g08940 pycom06g04300 pycom06g05750 pycom06g06960 pycom06g19690 pycom07g08750 pycom07g10700 pycom07g10910 pycom07g27480 pycom07g27790 pycom07g27800 pycom08g13620 pycom09g03540 pycom09g03550 pycom09g09870 pycom09g13480 pycom09g14360 pycom09g14890 pycom09g14930 pycom09g15760 pycom10g02190 pycom10g05270 pycom10g06810 pycom10g06830 pycom10g08060 pycom10g08520 pycom11g02350 pycom11g14170 pycom11g15050 pycom11g19270 pycom11g20160 pycom11g22420 pycom12g08620 pycom12g08630 pycom12g10440 pycom12g16590 pycom133g00190 pycom13g20730 pycom13g22230 pycom13g22670 pycom13g23230 pycom13g23250 pycom13g24880 pycom13g25300 pycom13g28040 pycom13g29010 pycom14g07570 pycom14g18650 pycom15g04500 pycom15g09310 pycom15g27210 pycom15g30810 pycom15g34920 pycom16g16040 pycom16g17260 pycom16g17940 pycom16g20990 pycom16g23470 pycom16g24160 pycom16g24720 pycom16g25910 pycom16g25920 pycom16g26370 pycom17g03310 pycom17g12670 pycom17g17530 pycom17g25090 pycom17g27300 pycom17g27310 pycom420g00140 pycom420g00160 pycom420g00320 pycom505g00220 pycom520g00740 pycom520g01010 pycom520g01020 pycom576g00060 pycom675g00040
rosa_laevigata RLG00000022630
rosa_multiflora Rmu_co7993280.1_g000001 Rmu_co8054704.1_g000001 Rmu_co8148394.1_g000001 Rmu_co8243015.1_g000001 Rmu_co8272095.1_g000001 Rmu_co8282359.1_g000001 Rmu_co8334783.1_g000001 Rmu_co8404405.1_g000001 Rmu_sc0000161.1_g000030 Rmu_sc0000418.1_g000026 Rmu_sc0000488.1_g000015 Rmu_sc0000706.1_g000041 Rmu_sc0000720.1_g000013 Rmu_sc0000776.1_g000022 Rmu_sc0000948.1_g000017 Rmu_sc0001167.1_g000045 Rmu_sc0001167.1_g000047 Rmu_sc0001211.1_g000054 Rmu_sc0001241.1_g000019 Rmu_sc0001307.1_g000021 Rmu_sc0001438.1_g000043 Rmu_sc0001468.1_g000032 Rmu_sc0001851.1_g000020 Rmu_sc0002026.1_g000023 Rmu_sc0002811.1_g000016 Rmu_sc0002958.1_g000002 Rmu_sc0002958.1_g000003 Rmu_sc0003745.1_g000010 Rmu_sc0004234.1_g000006 Rmu_sc0004234.1_g000008 Rmu_sc0005035.1_g000001 Rmu_sc0005320.1_g000010 Rmu_sc0005866.1_g000006 Rmu_sc0006139.1_g000009 Rmu_sc0006504.1_g000008 Rmu_sc0006695.1_g000049 Rmu_sc0006695.1_g000050 Rmu_sc0006981.1_g000001 Rmu_sc0007108.1_g000012 Rmu_sc0007355.1_g000001 Rmu_sc0007873.1_g000015 Rmu_sc0007961.1_g000003 Rmu_sc0008991.1_g000005 Rmu_sc0009528.1_g000009 Rmu_sc0013299.1_g000003 Rmu_sc0013532.1_g000015 Rmu_sc0015524.1_g000001 Rmu_sc0015793.1_g000001 Rmu_sc0015817.1_g000006 Rmu_sc0015930.1_g000003 Rmu_sc0015930.1_g000006 Rmu_sc0016952.1_g000002 Rmu_sc0016952.1_g000003 Rmu_sc0018715.1_g000003 Rmu_sc0018715.1_g000005 Rmu_sc0023934.1_g000003 Rmu_sc0023989.1_g000002 Rmu_sc0023989.1_g000003 Rmu_sc0028612.1_g000001 Rmu_sc0029049.1_g000001 Rmu_sc0029639.1_g000001 Rmu_sc0035263.1_g000001 Rmu_sc0037892.1_g000001 Rmu_ssc0000170.1_g000024 Rmu_ssc0000233.1_g000057 Rmu_ssc0000259.1_g000055 Rmu_ssc0000259.1_g000057
rosa_roxburghii Rroxscaffold_4G00287780 Rroxscaffold_4G00325290 Rroxscaffold_5G00333910 Rroxscaffold_7G00211350
rosa_rugosa Rorug01G0056300 Rorug04G0149000 Rorug07G0222000
rosa_samantha Rh1AG072900 Rh1CG072000
rosa_wichuraiana Rw0G003630 Rw0G005250 Rw0G020770 Rw0G023770 Rw1G005460 Rw1G005980 Rw1G007190 Rw1G011350 Rw1G022520 Rw1G028660 Rw2G018620 Rw2G019490 Rw4G006910 Rw4G013020 Rw4G023970 Rw5G044650 Rw6G006590 Rw6G012210 Rw6G023750 Rw7G027370 Rw7G027460 Rw7G035570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 12
AccB1I GGYRCC 1 cut(s) 12
AciI CCGC 2 cut(s) 20, 472
AclWI GGATC 4 cut(s) 210, 494, 507, 605
AdeI CACNNNGTG 1 cut(s) 541
AfaI GTAC 6 cut(s) 14, 135, 167, 250, 518, 724
AfiI CCNNNNNNNGG 1 cut(s) 162
AgsI TTSAA 1 cut(s) 370
AjiI CACGTC 1 cut(s) 412
AloI GAACNNNNNNTCC 2 cut(s) 203, 235
AluBI AGCT 3 cut(s) 457, 604, 706
AluI AGCT 3 cut(s) 457, 604, 706
Alw21I GWGCWC 1 cut(s) 459
Alw26I GTCTC 1 cut(s) 77
AlwI GGATC 4 cut(s) 210, 494, 507, 605
AlwNI CAGNNNCTG 1 cut(s) 407
Ama87I CYCGRG 1 cut(s) 709
AoxI GGCC 1 cut(s) 473
Asp700I GAANNNNTTC 1 cut(s) 230
Asp718I GGTACC 1 cut(s) 12
AspS9I GGNCC 1 cut(s) 474
AsuHPI GGTGA 2 cut(s) 460, 527
AsuII TTCGAA 1 cut(s) 159
AvaI CYCGRG 1 cut(s) 709
BamHI GGATCC 1 cut(s) 499
BanI GGYRCC 1 cut(s) 12
BanII GRGCYC 1 cut(s) 459
BauI CACGAG 1 cut(s) 306
Bbv12I GWGCWC 1 cut(s) 459
BbvCI CCTCAGC 1 cut(s) 624
BccI CCATC 3 cut(s) 202, 528, 650
BcgI CGANNNNNNTGC 2 cut(s) 139, 173
BcoDI GTCTC 1 cut(s) 77
BfaI CTAG 2 cut(s) 243, 757
BfmI CTRYAG 1 cut(s) 235
BglII AGATCT 1 cut(s) 430
BisI GCNGC 2 cut(s) 20, 473
BlpI GCTNAGC 1 cut(s) 585
BlsI GCNGC 2 cut(s) 21, 474
BmeT110I CYCGRG 1 cut(s) 709
BmgBI CACGTC 1 cut(s) 412
BmgT120I GGNCC 1 cut(s) 474
BmiI GGNNCC 3 cut(s) 14, 180, 501
BmrI ACTGGG 1 cut(s) 533
BmsI GCATC 1 cut(s) 496
BmuI ACTGGG 1 cut(s) 533
Bpu10I CCTNAGC 1 cut(s) 624
Bpu1102I GCTNAGC 1 cut(s) 585
Bpu14I TTCGAA 1 cut(s) 159
BpuEI CTTGAG 1 cut(s) 458
BsaXI ACNNNNNCTCC 2 cut(s) 203, 233
Bsc4I CCNNNNNNNGG 1 cut(s) 162
Bse1I ACTGG 1 cut(s) 539
Bse3DI GCAATG 2 cut(s) 282, 671
BseGI GGATG 1 cut(s) 613
BseLI CCNNNNNNNGG 1 cut(s) 162
BseMI GCAATG 2 cut(s) 282, 671
BseMII CTCAG 1 cut(s) 615
BseNI ACTGG 1 cut(s) 539
BsgI GTGCAG 1 cut(s) 619
BshFI GGCC 1 cut(s) 475
BshNI GGYRCC 1 cut(s) 12
BsiHKAI GWGCWC 1 cut(s) 459
BsiHKCI CYCGRG 1 cut(s) 709
BslI CCNNNNNNNGG 1 cut(s) 162
BsmAI GTCTC 1 cut(s) 77
BsmI GAATGC 1 cut(s) 470
BsnI GGCC 1 cut(s) 475
BsoBI CYCGRG 1 cut(s) 709
Bsp119I TTCGAA 1 cut(s) 159
Bsp1286I GDGCHC 1 cut(s) 459
Bsp143I GATC 6 cut(s) 112, 172, 202, 430, 499, 597
Bsp1720I GCTNAGC 1 cut(s) 585
BspACI CCGC 2 cut(s) 20, 472
BspANI GGCC 1 cut(s) 475
BspCNI CTCAG 1 cut(s) 616
BspLI GGNNCC 3 cut(s) 14, 180, 501
BspPI GGATC 4 cut(s) 210, 494, 507, 605
BspT104I TTCGAA 1 cut(s) 159
BspT107I GGYRCC 1 cut(s) 12
BsrDI GCAATG 2 cut(s) 282, 671
BsrI ACTGG 1 cut(s) 539
BssMI GATC 6 cut(s) 112, 172, 202, 430, 499, 597
BssSI CACGAG 1 cut(s) 306
Bst2BI CACGAG 1 cut(s) 306
Bst4CI ACNGT 1 cut(s) 197
Bst6I CTCTTC 1 cut(s) 687
BstBI TTCGAA 1 cut(s) 159
BstC8I GCNNGC 3 cut(s) 418, 470, 666
BstDEI CTNAG 2 cut(s) 585, 624
BstF5I GGATG 1 cut(s) 613
BstKTI GATC 6 cut(s) 115, 175, 205, 433, 502, 600
BstMAI GTCTC 1 cut(s) 77
BstMBI GATC 6 cut(s) 112, 172, 202, 430, 499, 597
BstNSI RCATGY 1 cut(s) 424
BstSFI CTRYAG 1 cut(s) 235
BstX2I RGATCY 2 cut(s) 430, 499
BstYI RGATCY 2 cut(s) 430, 499
BsuRI GGCC 1 cut(s) 475
BtrI CACGTC 1 cut(s) 412
BtsCI GGATG 1 cut(s) 613
BtsIMutI CAGTG 2 cut(s) 168, 546
Cac8I GCNNGC 3 cut(s) 418, 470, 666
CaiI CAGNNNCTG 1 cut(s) 407
Cfr13I GGNCC 1 cut(s) 474
Csp6I GTAC 6 cut(s) 13, 134, 166, 249, 517, 723
CviAII CATG 2 cut(s) 421, 720
CviQI GTAC 6 cut(s) 13, 134, 166, 249, 517, 723
DdeI CTNAG 2 cut(s) 585, 624
DpnI GATC 6 cut(s) 114, 174, 204, 432, 501, 599
DpnII GATC 6 cut(s) 112, 172, 202, 430, 499, 597
DraIII CACNNNGTG 1 cut(s) 541
Eam1104I CTCTTC 1 cut(s) 687
EarI CTCTTC 1 cut(s) 687
Ecl136II GAGCTC 1 cut(s) 457
Eco24I GRGCYC 1 cut(s) 459
Eco53kI GAGCTC 1 cut(s) 457
Eco88I CYCGRG 1 cut(s) 709
EcoICRI GAGCTC 1 cut(s) 457
EcoT22I ATGCAT 1 cut(s) 489
EcoT38I GRGCYC 1 cut(s) 459
FaeI CATG 2 cut(s) 424, 723
FaiI YATR 8 cut(s) 9, 66, 237, 323, 391, 422, 700, 721
FalI AAGNNNNNCTT 2 cut(s) 420, 452
FatI CATG 2 cut(s) 420, 719
Fnu4HI GCNGC 2 cut(s) 20, 473
FokI GGATG 1 cut(s) 620
FriOI GRGCYC 1 cut(s) 459
Fsp4HI GCNGC 2 cut(s) 20, 473
FspBI CTAG 2 cut(s) 243, 757
GluI GCNGC 2 cut(s) 20, 473
HaeIII GGCC 1 cut(s) 475
Hin1II CATG 2 cut(s) 424, 723
HincII GTYRAC 2 cut(s) 280, 613
HindII GTYRAC 2 cut(s) 280, 613
HinfI GANTC 5 cut(s) 185, 226, 266, 404, 577
HphI GGTGA 2 cut(s) 460, 527
Hpy166II GTNNAC 4 cut(s) 168, 280, 613, 631
Hpy188I TCNGA 4 cut(s) 207, 409, 504, 561
Hpy188III TCNNGA 4 cut(s) 82, 176, 223, 709
Hpy8I GTNNAC 4 cut(s) 168, 280, 613, 631
Hpy99I CGWCG 1 cut(s) 83
HpyAV CCTTC 5 cut(s) 40, 166, 439, 588, 687
HpyCH4III ACNGT 1 cut(s) 197
HpyCH4IV ACGT 3 cut(s) 136, 247, 411
HpyCH4V TGCA 6 cut(s) 90, 98, 468, 487, 513, 636
HpyF3I CTNAG 2 cut(s) 585, 624
HpySE526I ACGT 3 cut(s) 136, 247, 411
Hsp92II CATG 2 cut(s) 424, 723
KpnI GGTACC 1 cut(s) 16
Kzo9I GATC 6 cut(s) 112, 172, 202, 430, 499, 597
LmnI GCTCC 2 cut(s) 211, 462
LweI GCATC 1 cut(s) 496
MaeI CTAG 2 cut(s) 243, 757
MaeII ACGT 3 cut(s) 136, 247, 411
MaeIII GTNAC 1 cut(s) 533
MalI GATC 6 cut(s) 114, 174, 204, 432, 501, 599
MboI GATC 6 cut(s) 112, 172, 202, 430, 499, 597
MboII GAAGA 4 cut(s) 440, 454, 491, 674
MflI RGATCY 2 cut(s) 430, 499
MhlI GDGCHC 1 cut(s) 459
MluCI AATT 1 cut(s) 35
MmeI TCCRAC 1 cut(s) 405
MnlI CCTC 5 cut(s) 34, 100, 310, 619, 705
Mph1103I ATGCAT 1 cut(s) 489
MroXI GAANNNNTTC 1 cut(s) 230
MseI TTAA 4 cut(s) 123, 143, 495, 569
Mva1269I GAATGC 1 cut(s) 470
NdeII GATC 6 cut(s) 112, 172, 202, 430, 499, 597
NlaIII CATG 2 cut(s) 424, 723
NlaIV GGNNCC 3 cut(s) 14, 180, 501
NmuCI GTSAC 1 cut(s) 533
NsiI ATGCAT 1 cut(s) 489
NspI RCATGY 1 cut(s) 424
NspV TTCGAA 1 cut(s) 159
PaeR7I CTCGAG 1 cut(s) 709
PctI GAATGC 1 cut(s) 470
PdmI GAANNNNTTC 1 cut(s) 230
PfeI GAWTC 5 cut(s) 185, 226, 266, 404, 577
PkrI GCNGC 2 cut(s) 21, 474
Psp124BI GAGCTC 1 cut(s) 459
PspN4I GGNNCC 3 cut(s) 14, 180, 501
PspPI GGNCC 1 cut(s) 474
PstNI CAGNNNCTG 1 cut(s) 407
PsuI RGATCY 2 cut(s) 430, 499
RsaI GTAC 6 cut(s) 14, 135, 167, 250, 518, 724
RsaNI GTAC 6 cut(s) 13, 134, 166, 249, 517, 723
SacI GAGCTC 1 cut(s) 459
SaqAI TTAA 4 cut(s) 123, 143, 495, 569
SatI GCNGC 2 cut(s) 20, 473
Sau3AI GATC 6 cut(s) 112, 172, 202, 430, 499, 597
Sau96I GGNCC 1 cut(s) 474
SduI GDGCHC 1 cut(s) 459
SfaNI GCATC 1 cut(s) 496
SfcI CTRYAG 1 cut(s) 235
Sfr274I CTCGAG 1 cut(s) 709
SfuI TTCGAA 1 cut(s) 159
SlaI CTCGAG 1 cut(s) 709
SmlI CTYRAG 2 cut(s) 437, 709
SmoI CTYRAG 2 cut(s) 437, 709
Sse9I AATT 1 cut(s) 35
SsiI CCGC 2 cut(s) 20, 472
SspMI CTAG 2 cut(s) 243, 757
SstI GAGCTC 1 cut(s) 459
TaaI ACNGT 1 cut(s) 197
TaiI ACGT 3 cut(s) 139, 250, 414
TaqI TCGA 7 cut(s) 39, 81, 159, 192, 600, 660, 710
TasI AATT 1 cut(s) 35
TauI GCSGC 2 cut(s) 22, 475
TfiI GAWTC 5 cut(s) 185, 226, 266, 404, 577
Tru1I TTAA 4 cut(s) 123, 143, 495, 569
Tru9I TTAA 4 cut(s) 123, 143, 495, 569
TscAI CASTG 2 cut(s) 175, 546
TseFI GTSAC 1 cut(s) 533
Tsp45I GTSAC 1 cut(s) 533
TspDTI ATGAA 4 cut(s) 129, 338, 590, 704
TspGWI ACGGA 1 cut(s) 119
TspRI CASTG 2 cut(s) 175, 546
XceI RCATGY 1 cut(s) 424
XhoI CTCGAG 1 cut(s) 709
XmnI GAANNNNTTC 1 cut(s) 230
XspI CTAG 2 cut(s) 243, 757
Zsp2I ATGCAT 1 cut(s) 489
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.