RchiOBHm_Chr2g0164521

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000154
Physical Location & Seq
Reverse (-)
79593396 .. 79594046
651 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ53257

Sequence Viewer

Length: 651 bp
ATGATAGGAAGCTTATTGTACCTTACTGCTAGCAGACCCGATATTTCTTTTAGTGTTGGTGTTTGTGCTAGATATCAAGCTAATCCTAAGGAATCACATCTAAAGGCTGTTAAACGCATCATTAGATATGTTTCTGGAACTTCTAACTATGGGGTGGTGTACACCTTTGATTCCAATGTTGAGATTGCAGGTTATACTGACTCGGATTGGGCAGGAAATGTGGATGATCGAAGAAGCACCTCGGGTGGATGTTTCTTTGTGGGAAACAATCTTGTTTCATGGCATAGCAAGAAGCAAAACTGTGTGTCTCTCTCAACTGCCGAAGCCGAGTACATTGCAGCTGGTAGTTGTTGCACCCAAATGTTATGGATGAAACAAATGTTGAACGACTATGGTTTCCCTCAAGGTAAGTTGTCAATCTTTTGTGACAACACTAGTGCCATTAACATTTCTAAGAATCCTGTTCAGCACTCACGCACAAAGCATATTGATATTCGATATCATTTCATTCGTGATCTTGTTGATGCAAATATCCTTGAGCTGGAATTTATTCCCACTGAAAATCAATTGGCTGATTTGTTTACAAAACCTTTAGACAACCTTCGTTTTGAGTCTCTTAGGAAGTCTATTGGAGTGTGCTCAACTGTTTGA
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_2 Retrotran_gag_2 gag_pre-integrs rve zf-CCHC

Protein Analysis

216

Amino Acids

24.17

Weight (kDa)

7.59

Isoelectric Point (pI)

34.68

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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

Orthologous Genes (Group: OG0000154)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g02351 FvH4_1g18383 FvH4_1g18442 FvH4_1g19622 FvH4_2g08148 FvH4_2g16312 FvH4_3g06912 FvH4_3g10761 FvH4_3g12332 FvH4_3g12332 FvH4_3g14182 FvH4_3g21021 FvH4_3g35231 FvH4_3g45132 FvH4_4g08663 FvH4_4g30271 FvH4_4g30272 FvH4_4g30901 FvH4_4g30902 FvH4_5g12471 FvH4_5g22951 FvH4_6g07331 FvH4_6g07332 FvH4_6g41872 FvH4_6g43841 FvH4_6g43842 FvH4_6g48811 FvH4_7g03911 FvH4_7g13272 FvH4_7g21181 FvH4_7g29024 FvH4_7g33702
malus_domestica MD00G1037700.v1.1 MD01G1037300.v1.1 MD01G1096700.v1.1 MD01G1101100.v1.1 MD01G1129400.v1.1 MD02G1295200.v1.1 MD03G1131300.v1.1 MD04G1072100.v1.1 MD05G1104800.v1.1 MD07G1028600.v1.1 MD07G1274600.v1.1 MD08G1027200.v1.1 MD09G1044400.v1.1 MD09G1044700.v1.1 MD09G1129500.v1.1 MD09G1238700.v1.1 MD10G1011700.v1.1 MD10G1071400.v1.1 MD10G1108600.v1.1 MD10G1162100.v1.1 MD10G1162300.v1.1 MD11G1016700.v1.1 MD11G1074500.v1.1 MD15G1058600.v1.1 MD15G1383000.v1.1 MD16G1192200.v1.1 MD17G1077400.v1.1 MD17G1077500.v1.1
pyrus_communis pycom01g03520 pycom02g00350 pycom03g09910 pycom03g13960 pycom03g13970 pycom03g19180 pycom04g08410 pycom04g10140 pycom06g03750 pycom07g09240 pycom07g09260 pycom08g20130 pycom09g11020 pycom10g12690 pycom14g04140 pycom14g05710 pycom16g06380 pycom17g05500 pycom808g00140
rosa_chinensis RchiOBHm_Chr1g0316211 RchiOBHm_Chr1g0319901 RchiOBHm_Chr1g0321811 RchiOBHm_Chr1g0329831 RchiOBHm_Chr1g0330721 RchiOBHm_Chr1g0330731 RchiOBHm_Chr1g0368461 RchiOBHm_Chr1g0381111 RchiOBHm_Chr2g0154461 RchiOBHm_Chr2g0164521 RchiOBHm_Chr2g0175301 RchiOBHm_Chr3g0451301 RchiOBHm_Chr3g0453691 RchiOBHm_Chr3g0470191 RchiOBHm_Chr3g0486561 RchiOBHm_Chr4g0409141 RchiOBHm_Chr4g0409151 RchiOBHm_Chr4g0421231 RchiOBHm_Chr4g0440701 RchiOBHm_Chr5g0018211 RchiOBHm_Chr5g0023611 RchiOBHm_Chr5g0045971 RchiOBHm_Chr5g0056061 RchiOBHm_Chr5g0063381 RchiOBHm_Chr5g0064011 RchiOBHm_Chr5g0064021 RchiOBHm_Chr5g0064041 RchiOBHm_Chr6g0259681 RchiOBHm_Chr6g0259691 RchiOBHm_Chr6g0296531 RchiOBHm_Chr7g0186421 RchiOBHm_Chr7g0192321 RchiOBHm_Chr7g0198271 RchiOBHm_Chr7g0198951 RchiOBHm_Chr7g0237911
rosa_laevigata RLG00000026946
rosa_roxburghii Rroxscaffold_1G00014460 Rroxscaffold_1G00014610 Rroxscaffold_1G00028950 Rroxscaffold_1G00052630 Rroxscaffold_2G00104760 Rroxscaffold_2G00138900 Rroxscaffold_2G00145210 Rroxscaffold_3G00220110 Rroxscaffold_4G00297860 Rroxscaffold_4G00321570 Rroxscaffold_5G00332990 Rroxscaffold_5G00360870
rosa_samantha Rh1AG319600 Rh1CG299100 Rh4DG385900 Rh5BG032200
rosa_wichuraiana Rw0G002380 Rw0G003050 Rw0G003940 Rw1G002730 Rw1G003260 Rw1G005490 Rw1G016140 Rw1G016150 Rw1G017930 Rw1G017940 Rw1G022540 Rw1G022630 Rw1G031080 Rw1G039680 Rw2G003340 Rw2G003720 Rw2G006640 Rw2G020790 Rw2G025650 Rw2G028430 Rw2G029550 Rw2G034920 Rw2G040820 Rw2G048420 Rw2G048570 Rw3G010040 Rw3G022790 Rw3G023350 Rw3G025140 Rw3G028810 Rw4G000680 Rw4G003350 Rw4G004640 Rw4G026650 Rw4G034500 Rw5G008490 Rw5G020650 Rw5G023000 Rw5G033610 Rw5G037280 Rw5G046620 Rw5G050250 Rw6G001410 Rw6G005690 Rw6G005820 Rw6G010920 Rw6G022790 Rw6G023940 Rw6G026290 Rw6G028610 Rw6G031260 Rw6G036550 Rw6G036560 Rw7G015300 Rw7G017250 Rw7G018150 Rw7G031960 Rw7G036490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 179
AcsI RAATTY 1 cut(s) 545
AfaI GTAC 3 cut(s) 20, 161, 332
AfiI CCNNNNNNNGG 1 cut(s) 541
AgsI TTSAA 1 cut(s) 385
AhlI ACTAGT 1 cut(s) 434
AluBI AGCT 4 cut(s) 12, 80, 341, 541
AluI AGCT 4 cut(s) 12, 80, 341, 541
Alw21I GWGCWC 1 cut(s) 641
Alw26I GTCTC 2 cut(s) 312, 618
Ama87I CYCGRG 1 cut(s) 241
ApeKI GCWGC 1 cut(s) 338
ApoI RAATTY 1 cut(s) 545
Asp700I GAANNNNTTC 1 cut(s) 549
AsuNHI GCTAGC 1 cut(s) 29
AvaI CYCGRG 1 cut(s) 241
AxyI CCTNAGG 1 cut(s) 87
Bbv12I GWGCWC 1 cut(s) 641
BbvI GCAGC 1 cut(s) 350
BcgI CGANNNNNNTGC 2 cut(s) 317, 351
BcoDI GTCTC 2 cut(s) 312, 618
BcuI ACTAGT 1 cut(s) 434
BfaI CTAG 3 cut(s) 30, 69, 435
BfuAI ACCTGC 1 cut(s) 179
BisI GCNGC 1 cut(s) 339
BlsI GCNGC 1 cut(s) 340
BmeT110I CYCGRG 1 cut(s) 241
BmsI GCATC 2 cut(s) 126, 514
BmtI GCTAGC 1 cut(s) 33
BpuEI CTTGAG 2 cut(s) 387, 557
BsaJI CCNNGG 1 cut(s) 240
Bsc4I CCNNNNNNNGG 1 cut(s) 541
Bse21I CCTNAGG 1 cut(s) 87
Bse3DI GCAATG 1 cut(s) 333
BseDI CCNNGG 1 cut(s) 240
BseGI GGATG 3 cut(s) 229, 254, 375
BseLI CCNNNNNNNGG 1 cut(s) 541
BseMI GCAATG 1 cut(s) 333
BseXI GCAGC 1 cut(s) 350
BsiHKAI GWGCWC 1 cut(s) 641
BsiHKCI CYCGRG 1 cut(s) 241
BslI CCNNNNNNNGG 1 cut(s) 541
BsmAI GTCTC 2 cut(s) 312, 618
BsoBI CYCGRG 1 cut(s) 241
Bsp1286I GDGCHC 1 cut(s) 641
Bsp1407I TGTACA 1 cut(s) 159
Bsp143I GATC 2 cut(s) 226, 514
BspMI ACCTGC 1 cut(s) 179
BspOI GCTAGC 1 cut(s) 33
BsrDI GCAATG 1 cut(s) 333
BsrGI TGTACA 1 cut(s) 159
BssECI CCNNGG 1 cut(s) 240
BssMI GATC 2 cut(s) 226, 514
Bst4CI ACNGT 2 cut(s) 302, 646
BstAUI TGTACA 1 cut(s) 159
BstC8I GCNNGC 1 cut(s) 31
BstDEI CTNAG 3 cut(s) 87, 453, 617
BstF5I GGATG 3 cut(s) 229, 254, 375
BstKTI GATC 2 cut(s) 229, 517
BstMAI GTCTC 2 cut(s) 312, 618
BstMBI GATC 2 cut(s) 226, 514
BstV1I GCAGC 1 cut(s) 350
Bsu36I CCTNAGG 1 cut(s) 87
BtsCI GGATG 3 cut(s) 229, 254, 375
BtsIMutI CAGTG 1 cut(s) 555
BveI ACCTGC 1 cut(s) 179
Cac8I GCNNGC 1 cut(s) 31
Csp6I GTAC 3 cut(s) 19, 160, 331
CviAII CATG 1 cut(s) 279
CviJI RGCY 7 cut(s) 12, 80, 107, 326, 341, 541, 572
CviKI_1 RGCY 7 cut(s) 12, 80, 107, 326, 341, 541, 572
CviQI GTAC 3 cut(s) 19, 160, 331
DdeI CTNAG 3 cut(s) 87, 453, 617
DpnI GATC 2 cut(s) 228, 516
DpnII GATC 2 cut(s) 226, 514
Eco32I GATATC 2 cut(s) 74, 500
Eco81I CCTNAGG 1 cut(s) 87
Eco88I CYCGRG 1 cut(s) 241
EcoRV GATATC 2 cut(s) 74, 500
FaeI CATG 1 cut(s) 282
FaiI YATR 8 cut(s) 129, 150, 195, 280, 285, 367, 393, 486
FatI CATG 1 cut(s) 278
Fnu4HI GCNGC 1 cut(s) 339
FokI GGATG 3 cut(s) 236, 261, 382
Fsp4HI GCNGC 1 cut(s) 339
FspBI CTAG 3 cut(s) 30, 69, 435
GluI GCNGC 1 cut(s) 339
Hin1II CATG 1 cut(s) 282
HindIII AAGCTT 1 cut(s) 10
HinfI GANTC 5 cut(s) 92, 170, 200, 457, 611
Hpy166II GTNNAC 3 cut(s) 160, 162, 582
Hpy188I TCNGA 1 cut(s) 205
Hpy188III TCNNGA 2 cut(s) 135, 512
Hpy8I GTNNAC 3 cut(s) 160, 162, 582
HpyAV CCTTC 1 cut(s) 611
HpyCH4III ACNGT 2 cut(s) 302, 646
HpyCH4V TGCA 4 cut(s) 188, 338, 354, 527
HpyF3I CTNAG 3 cut(s) 87, 453, 617
Hsp92II CATG 1 cut(s) 282
Kzo9I GATC 2 cut(s) 226, 514
LpnPI CCDG 6 cut(s) 120, 174, 198, 327, 474, 527
Lsp1109I GCAGC 1 cut(s) 350
LweI GCATC 2 cut(s) 126, 514
MaeI CTAG 3 cut(s) 30, 69, 435
MaeIII GTNAC 1 cut(s) 425
MalI GATC 2 cut(s) 228, 516
MboI GATC 2 cut(s) 226, 514
MboII GAAGA 1 cut(s) 243
MfeI CAATTG 1 cut(s) 566
MhlI GDGCHC 1 cut(s) 641
MluCI AATT 2 cut(s) 545, 566
MlyI GAGTC 2 cut(s) 194, 620
MnlI CCTC 2 cut(s) 250, 411
MroXI GAANNNNTTC 1 cut(s) 549
MseI TTAA 2 cut(s) 111, 444
MslI CAYNNNNRTG 1 cut(s) 359
MspA1I CMGCKG 1 cut(s) 341
MunI CAATTG 1 cut(s) 566
NdeII GATC 2 cut(s) 226, 514
NheI GCTAGC 1 cut(s) 29
NlaIII CATG 1 cut(s) 282
NmeAIII GCCGAG 1 cut(s) 352
NmuCI GTSAC 1 cut(s) 425
PdmI GAANNNNTTC 1 cut(s) 549
PfeI GAWTC 3 cut(s) 92, 170, 457
PkrI GCNGC 1 cut(s) 340
PleI GAGTC 2 cut(s) 194, 619
PpsI GAGTC 2 cut(s) 194, 619
PvuII CAGCTG 1 cut(s) 341
RsaI GTAC 3 cut(s) 20, 161, 332
RsaNI GTAC 3 cut(s) 19, 160, 331
RseI CAYNNNNRTG 1 cut(s) 359
SaqAI TTAA 2 cut(s) 111, 444
SatI GCNGC 1 cut(s) 339
Sau3AI GATC 2 cut(s) 226, 514
SchI GAGTC 2 cut(s) 194, 620
SduI GDGCHC 1 cut(s) 641
SfaNI GCATC 2 cut(s) 126, 514
SmiMI CAYNNNNRTG 1 cut(s) 359
SmlI CTYRAG 2 cut(s) 402, 536
SmoI CTYRAG 2 cut(s) 402, 536
SpeI ACTAGT 1 cut(s) 434
Sse9I AATT 2 cut(s) 545, 566
SspMI CTAG 3 cut(s) 30, 69, 435
TaaI ACNGT 2 cut(s) 302, 646
TaqI TCGA 2 cut(s) 229, 496
TasI AATT 2 cut(s) 545, 566
TatI WGTACW 2 cut(s) 159, 330
TfiI GAWTC 3 cut(s) 92, 170, 457
Tru1I TTAA 2 cut(s) 111, 444
Tru9I TTAA 2 cut(s) 111, 444
TscAI CASTG 1 cut(s) 562
TseFI GTSAC 1 cut(s) 425
TseI GCWGC 1 cut(s) 338
Tsp45I GTSAC 1 cut(s) 425
TspDTI ATGAA 3 cut(s) 267, 386, 496
TspRI CASTG 1 cut(s) 562
XapI RAATTY 1 cut(s) 545
XmnI GAANNNNTTC 1 cut(s) 549
XspI CTAG 3 cut(s) 30, 69, 435
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.