RchiOBHm_Chr7g0192321

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
OG0000154
Physical Location & Seq
Forward (+)
10825641 .. 10826901
1261 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ17189

Sequence Viewer

Length: 1203 bp
ATGGATGTGAAAAGTGCGTTTTTAAATGGTGTTCTTCAAGAAGAAGTGTATGTTGAACAACCTGCAGGATTCATAGATCCTATCCATCCCGACCATGTGTATAGACTTAAGAAAGCTCTCTATGGGCTGAAACAAGCCCCTAGAGCTTGGTATGAGAGACTTTCCTCTCATCTTTTGGATAAAGGCTATGTTAGAGGTTCAATTGACAAAACTTTGTTTGTAAAAAGAACTTCTCATCATTTAATTCTTGCTCAAGTCTATGTGGATGACATTGTTTTTGGTTCAACTTCAGATTCATTGATTGAAGAATTCACTAATATCATGAAAAATGAGTTTGAAATGAGTTTGTGTGGCAAATTAAATTATTTTCTTGGTCTGCAAGTCCAACAAAGGAGTGATGGTCTCTACATCTCTCAAACCAAATATGCCAATGACCTTGTGAAAAAGTTTGGTTTGGATGCTGCTACTGCTGTCCGAAATCCCATGGGAACTAGTTCAAAACTTGATGTGGATTTGACTGGAATTAGTGTTGATCAAACCTTGTATAGAAGCATGATAGGAAGCTTGTTGTACCTTACTGCTAGCAGACCCGATATTTCCTTTAGTGTTGGTGTTTGTGCTAGATATCAAGCTAATCCTAAGGAATCACATCTAAAGGCTGTTAAACGCATCATTAGATATGTTTCTGGAACTTCTAACTATGGGGTGGTGTACACCTTTGATTCCAATGTTGAGATTGCAGGTTATACTGACTCGGATTGGGCAGGAAATGTGGATGATCGAAGAAGCACCTCCGGTGGATGTTTCTTTGTGGGAAACAATCTTGTTTCATGGCATAGCAAGAAGCAAAACTGTGTGTCTCTCTCAACTGCCGAAGCCGAGTACATTGCAGCTGGTAGTTGTTGCACCCAAATGTTATGGATGAAACAAATGTTGAACGACTATGGTTTCCCTCAAGGTAAGTTGTCAATCTTTTGTGACAACACTAGTGCCATTAACATTTCTAAGAATCCTGTTCAGCACTCACGCACAAAGCATATTGATATTCGATATCATTTCATTCGTGATCTTGTTGATGCAAATATCCTTGAGCTGGAATTTATTCCCACTGAAAATCAATTGGCTGATTTGTTTACAAAACCTTTAGACAACCTTCGTTTTGAGTCTCTTAGGAAGTCTATTGGAGTGTGCTCTACTGTTTGA
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

400

Amino Acids

44.97

Weight (kDa)

7.12

Isoelectric Point (pI)

32.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 1 - 162 2.7e-43 Reverse transcriptase (RNA-dependent DNA polymerase)
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: 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 2 cut(s) 70, 731
AclWI GGATC 1 cut(s) 71
AcsI RAATTY 2 cut(s) 308, 1097
AcuI CTGAAG 1 cut(s) 273
AfaI GTAC 3 cut(s) 572, 713, 884
AfiI CCNNNNNNNGG 1 cut(s) 1093
AflII CTTAAG 1 cut(s) 107
AgsI TTSAA 8 cut(s) 38, 56, 201, 285, 305, 338, 498, 937
AhlI ACTAGT 2 cut(s) 491, 986
AluBI AGCT 6 cut(s) 116, 146, 564, 632, 893, 1093
AluI AGCT 6 cut(s) 116, 146, 564, 632, 893, 1093
Alw21I GWGCWC 1 cut(s) 1193
Alw26I GTCTC 4 cut(s) 151, 407, 864, 1170
AlwI GGATC 1 cut(s) 71
ApeKI GCWGC 2 cut(s) 461, 890
ApoI RAATTY 2 cut(s) 308, 1097
ArsI GACNNNNNNTTYG 2 cut(s) 260, 292
Asp700I GAANNNNTTC 2 cut(s) 493, 1101
AsuNHI GCTAGC 1 cut(s) 581
AxyI CCTNAGG 1 cut(s) 639
Bbv12I GWGCWC 1 cut(s) 1193
BbvI GCAGC 2 cut(s) 448, 902
BccI CCATC 2 cut(s) 93, 392
BcgI CGANNNNNNTGC 2 cut(s) 869, 903
BclI TGATCA 1 cut(s) 532
BcoDI GTCTC 4 cut(s) 151, 407, 864, 1170
BcuI ACTAGT 2 cut(s) 491, 986
BfaI CTAG 5 cut(s) 141, 492, 582, 621, 987
BfmI CTRYAG 1 cut(s) 63
BfrI CTTAAG 1 cut(s) 107
BfuAI ACCTGC 2 cut(s) 70, 731
BisI GCNGC 2 cut(s) 462, 891
BlsI GCNGC 2 cut(s) 463, 892
BmsI GCATC 3 cut(s) 448, 678, 1066
BmtI GCTAGC 1 cut(s) 585
BpuEI CTTGAG 3 cut(s) 237, 939, 1109
BsaI GGTCTC 1 cut(s) 407
BsaJI CCNNGG 1 cut(s) 483
BsaWI WCCGGW 1 cut(s) 794
BsaXI ACNNNNNCTCC 2 cut(s) 385, 415
Bsc4I CCNNNNNNNGG 1 cut(s) 1093
Bse1I ACTGG 1 cut(s) 523
Bse21I CCTNAGG 1 cut(s) 639
Bse3DI GCAATG 1 cut(s) 885
BseDI CCNNGG 1 cut(s) 483
BseGI GGATG 7 cut(s) 10, 85, 271, 463, 781, 806, 927
BseLI CCNNNNNNNGG 1 cut(s) 1093
BseMI GCAATG 1 cut(s) 885
BseNI ACTGG 1 cut(s) 523
BseXI GCAGC 2 cut(s) 448, 902
BsiHKAI GWGCWC 1 cut(s) 1193
BsiSI CCGG 1 cut(s) 795
BslI CCNNNNNNNGG 1 cut(s) 1093
BsmAI GTCTC 4 cut(s) 151, 407, 864, 1170
Bso31I GGTCTC 1 cut(s) 407
Bsp1286I GDGCHC 1 cut(s) 1193
Bsp1407I TGTACA 1 cut(s) 711
Bsp143I GATC 4 cut(s) 76, 532, 778, 1066
Bsp19I CCATGG 1 cut(s) 483
BspHI TCATGA 1 cut(s) 321
BspMAI CTGCAG 1 cut(s) 67
BspMI ACCTGC 2 cut(s) 70, 731
BspOI GCTAGC 1 cut(s) 585
BspPI GGATC 1 cut(s) 71
BspTI CTTAAG 1 cut(s) 107
BspTNI GGTCTC 1 cut(s) 407
BsrDI GCAATG 1 cut(s) 885
BsrGI TGTACA 1 cut(s) 711
BsrI ACTGG 1 cut(s) 523
BssECI CCNNGG 1 cut(s) 483
BssMI GATC 4 cut(s) 76, 532, 778, 1066
BssT1I CCWWGG 1 cut(s) 483
Bst4CI ACNGT 2 cut(s) 854, 1198
BstAFI CTTAAG 1 cut(s) 107
BstAUI TGTACA 1 cut(s) 711
BstC8I GCNNGC 1 cut(s) 583
BstDEI CTNAG 3 cut(s) 639, 1005, 1169
BstDSI CCRYGG 1 cut(s) 483
BstF5I GGATG 7 cut(s) 10, 85, 271, 463, 781, 806, 927
BstKTI GATC 4 cut(s) 79, 535, 781, 1069
BstMAI GTCTC 4 cut(s) 151, 407, 864, 1170
BstMBI GATC 4 cut(s) 76, 532, 778, 1066
BstMWI GCNNNNNNNGC 2 cut(s) 143, 467
BstSFI CTRYAG 1 cut(s) 63
BstV1I GCAGC 2 cut(s) 448, 902
BstX2I RGATCY 1 cut(s) 76
BstYI RGATCY 1 cut(s) 76
Bsu36I CCTNAGG 1 cut(s) 639
BtgI CCRYGG 1 cut(s) 483
BtsCI GGATG 7 cut(s) 10, 85, 271, 463, 781, 806, 927
BtsIMutI CAGTG 1 cut(s) 1107
BveI ACCTGC 2 cut(s) 70, 731
Cac8I GCNNGC 1 cut(s) 583
CciI TCATGA 1 cut(s) 321
Csp6I GTAC 3 cut(s) 571, 712, 883
CviAII CATG 5 cut(s) 95, 322, 484, 553, 831
CviQI GTAC 3 cut(s) 571, 712, 883
DdeI CTNAG 3 cut(s) 639, 1005, 1169
DpnI GATC 4 cut(s) 78, 534, 780, 1068
DpnII GATC 4 cut(s) 76, 532, 778, 1066
DraI TTTAAA 1 cut(s) 24
Eco130I CCWWGG 1 cut(s) 483
Eco31I GGTCTC 1 cut(s) 407
Eco32I GATATC 2 cut(s) 626, 1052
Eco57I CTGAAG 1 cut(s) 273
Eco81I CCTNAGG 1 cut(s) 639
EcoRI GAATTC 1 cut(s) 308
EcoRV GATATC 2 cut(s) 626, 1052
EcoT14I CCWWGG 1 cut(s) 483
ErhI CCWWGG 1 cut(s) 483
FaeI CATG 5 cut(s) 98, 325, 487, 556, 834
FatI CATG 5 cut(s) 94, 321, 483, 552, 830
FbaI TGATCA 1 cut(s) 532
Fnu4HI GCNGC 2 cut(s) 462, 891
FokI GGATG 7 cut(s) 17, 72, 278, 470, 788, 813, 934
Fsp4HI GCNGC 2 cut(s) 462, 891
FspBI CTAG 5 cut(s) 141, 492, 582, 621, 987
GluI GCNGC 2 cut(s) 462, 891
HapII CCGG 1 cut(s) 795
Hin1II CATG 5 cut(s) 98, 325, 487, 556, 834
HindIII AAGCTT 1 cut(s) 562
HinfI GANTC 7 cut(s) 69, 293, 644, 722, 752, 1009, 1163
HpaII CCGG 1 cut(s) 795
Hpy166II GTNNAC 3 cut(s) 712, 714, 1134
Hpy188I TCNGA 3 cut(s) 292, 476, 757
Hpy188III TCNNGA 5 cut(s) 38, 89, 322, 687, 1064
Hpy8I GTNNAC 3 cut(s) 712, 714, 1134
HpyAV CCTTC 1 cut(s) 1163
HpyCH4III ACNGT 2 cut(s) 854, 1198
HpyCH4V TGCA 6 cut(s) 65, 379, 740, 890, 906, 1079
HpyF10VI GCNNNNNNNGC 2 cut(s) 143, 467
HpyF3I CTNAG 3 cut(s) 639, 1005, 1169
Hsp92II CATG 5 cut(s) 98, 325, 487, 556, 834
Ksp22I TGATCA 1 cut(s) 532
Kzo9I GATC 4 cut(s) 76, 532, 778, 1066
Lsp1109I GCAGC 2 cut(s) 448, 902
LweI GCATC 3 cut(s) 448, 678, 1066
MaeI CTAG 5 cut(s) 141, 492, 582, 621, 987
MaeIII GTNAC 1 cut(s) 977
MalI GATC 4 cut(s) 78, 534, 780, 1068
MboI GATC 4 cut(s) 76, 532, 778, 1066
MboII GAAGA 4 cut(s) 26, 53, 317, 795
MfeI CAATTG 2 cut(s) 201, 1118
MflI RGATCY 1 cut(s) 76
MhlI GDGCHC 1 cut(s) 1193
MluCI AATT 8 cut(s) 201, 243, 308, 356, 361, 522, 1097, 1118
MlyI GAGTC 2 cut(s) 746, 1172
MmeI TCCRAC 1 cut(s) 409
MnlI CCTC 4 cut(s) 175, 188, 802, 963
MroXI GAANNNNTTC 2 cut(s) 493, 1101
MseI TTAA 6 cut(s) 23, 108, 242, 359, 663, 996
MslI CAYNNNNRTG 1 cut(s) 911
MspA1I CMGCKG 1 cut(s) 893
MspCI CTTAAG 1 cut(s) 107
MspI CCGG 1 cut(s) 795
MunI CAATTG 2 cut(s) 201, 1118
MwoI GCNNNNNNNGC 2 cut(s) 143, 467
NcoI CCATGG 1 cut(s) 483
NdeII GATC 4 cut(s) 76, 532, 778, 1066
NheI GCTAGC 1 cut(s) 581
NlaIII CATG 5 cut(s) 98, 325, 487, 556, 834
NmeAIII GCCGAG 1 cut(s) 904
NmuCI GTSAC 1 cut(s) 977
PagI TCATGA 1 cut(s) 321
PdmI GAANNNNTTC 2 cut(s) 493, 1101
PfeI GAWTC 5 cut(s) 69, 293, 644, 722, 1009
PkrI GCNGC 2 cut(s) 463, 892
PleI GAGTC 2 cut(s) 746, 1171
PpsI GAGTC 2 cut(s) 746, 1171
PstI CTGCAG 1 cut(s) 67
PsuI RGATCY 1 cut(s) 76
PvuII CAGCTG 1 cut(s) 893
RsaI GTAC 3 cut(s) 572, 713, 884
RsaNI GTAC 3 cut(s) 571, 712, 883
RseI CAYNNNNRTG 1 cut(s) 911
SaqAI TTAA 6 cut(s) 23, 108, 242, 359, 663, 996
SatI GCNGC 2 cut(s) 462, 891
Sau3AI GATC 4 cut(s) 76, 532, 778, 1066
SbfI CCTGCAGG 1 cut(s) 67
SchI GAGTC 2 cut(s) 746, 1172
SdaI CCTGCAGG 1 cut(s) 67
SduI GDGCHC 1 cut(s) 1193
SfaNI GCATC 3 cut(s) 448, 678, 1066
SfcI CTRYAG 1 cut(s) 63
SmiMI CAYNNNNRTG 1 cut(s) 911
SmlI CTYRAG 4 cut(s) 107, 252, 954, 1088
SmoI CTYRAG 4 cut(s) 107, 252, 954, 1088
SpeI ACTAGT 2 cut(s) 491, 986
Sse8387I CCTGCAGG 1 cut(s) 67
Sse9I AATT 8 cut(s) 201, 243, 308, 356, 361, 522, 1097, 1118
SspMI CTAG 5 cut(s) 141, 492, 582, 621, 987
StyI CCWWGG 1 cut(s) 483
TaaI ACNGT 2 cut(s) 854, 1198
TaqI TCGA 2 cut(s) 781, 1048
TasI AATT 8 cut(s) 201, 243, 308, 356, 361, 522, 1097, 1118
TatI WGTACW 2 cut(s) 711, 882
TfiI GAWTC 5 cut(s) 69, 293, 644, 722, 1009
Tru1I TTAA 6 cut(s) 23, 108, 242, 359, 663, 996
Tru9I TTAA 6 cut(s) 23, 108, 242, 359, 663, 996
TscAI CASTG 1 cut(s) 1114
TseFI GTSAC 1 cut(s) 977
TseI GCWGC 2 cut(s) 461, 890
Tsp45I GTSAC 1 cut(s) 977
TspDTI ATGAA 6 cut(s) 61, 285, 338, 819, 938, 1048
TspRI CASTG 1 cut(s) 1114
Vha464I CTTAAG 1 cut(s) 107
XapI RAATTY 2 cut(s) 308, 1097
XmnI GAANNNNTTC 2 cut(s) 493, 1101
XspI CTAG 5 cut(s) 141, 492, 582, 621, 987
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.