pycom12486g00010

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
tig00012486
OG0000291
Physical Location & Seq
Forward (+)
7712 .. 8515
804 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom12486g00010.1

Sequence Viewer

Length: 804 bp
ATGGAGTTTGCGGACGTAATGCCTAAGGAACTGCCAAAGAAGTTGCCACCAAGGAGAGAGGTCGACCATGCGATTGAGTTGGAGCCTGGTGCTAAGCCTCCCTCCAAATCACCTTATAGGATGTCGCCACCCGAGTTGGAGGAATTGAGGAAGCAACTCAACGAGCTACTTGATGCTGGCTACATCCAACCCTCCAAGTCCCCATATGGTGCACCCGTCTTGTTCCAACGCAAGAAAGAAGGTAGCCCAAGGTTGTGCATCGACTATAGAGCATTGAACAAGATTACCATCAAGAACAAGTACCCACTTCCGTTGATCGCCGACTTATTCGATCAACTTGGTGAAGCAAGGTACTTCACAAAGTTAGATCTTCGATCGGGATACTACCAAGTGAGGATAGCCCCTGGAGACGAATCGAAGACGGCGATGGTGACCAGATATGGATCGTTTGAGTATAAAGTCATGCCATTTGGTCTGACCAATGCCCCTGCAACATTCTGCACATTGATGAACAAGGTATTCCATCCTTATCTTGACAAGTTTGTCGTGGTTTACATTGATGATATCGTTATCTATAGCAAGACATTGGAGGAGCACGTCAAGCACTTGCACATAGTGTTCAAGACCTTCGGGAGCATGAACTCTATGTCAAGAAGGAGAAATGCTCCTTTGCCACAAAGAAGTAGAATTTCTTGGCCACAAGATAAAGGAGGGGAAACTTATGATAGAAAAGGGCAAGATCAAGGCCATTCAGAGTGGGAACCACGACCAAGGTACCAACACTACAATCCTTTCTGGGGCTAG
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
Asp_protease_2 Chromo RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

268

Amino Acids

31.04

Weight (kDa)

9.32

Isoelectric Point (pI)

57.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 77 - 212 1.1e-32 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: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 542
Acc65I GGTACC 1 cut(s) 774
AccB1I GGYRCC 1 cut(s) 774
AccI GTMKAC 1 cut(s) 63
AciI CCGC 1 cut(s) 11
AclWI GGATC 1 cut(s) 451
AcoI YGGCCR 1 cut(s) 695
AcsI RAATTY 1 cut(s) 687
AdeI CACNNNGTG 1 cut(s) 616
AfaI GTAC 3 cut(s) 302, 353, 776
AfiI CCNNNNNNNGG 1 cut(s) 797
AgsI TTSAA 2 cut(s) 277, 622
AjiI CACGTC 1 cut(s) 598
AjnI CCWGG 2 cut(s) 85, 403
AluBI AGCT 1 cut(s) 166
AluI AGCT 1 cut(s) 166
Alw21I GWGCWC 2 cut(s) 214, 597
Alw26I GTCTC 1 cut(s) 402
Alw44I GTGCAC 1 cut(s) 210
AlwI GGATC 1 cut(s) 451
Ama87I CYCGRG 1 cut(s) 131
AoxI GGCC 2 cut(s) 695, 745
ApaLI GTGCAC 1 cut(s) 210
ApoI RAATTY 1 cut(s) 687
Asp718I GGTACC 1 cut(s) 774
AsuHPI GGTGA 3 cut(s) 102, 353, 442
AvaI CYCGRG 1 cut(s) 131
AxyI CCTNAGG 1 cut(s) 24
BaeGI GKGCMC 1 cut(s) 214
BaeI ACNNNNGTAYC 2 cut(s) 758, 791
BalI TGGCCA 1 cut(s) 697
BanI GGYRCC 1 cut(s) 774
BbsI GAAGAC 1 cut(s) 425
Bbv12I GWGCWC 2 cut(s) 214, 597
BccI CCATC 3 cut(s) 296, 421, 531
BceAI ACGGC 1 cut(s) 438
BciT130I CCWGG 2 cut(s) 87, 405
BciVI GTATCC 1 cut(s) 374
BcoDI GTCTC 1 cut(s) 402
BfaI CTAG 1 cut(s) 802
BfmI CTRYAG 2 cut(s) 265, 574
BfuI GTATCC 1 cut(s) 374
BglII AGATCT 1 cut(s) 367
BlpI GCTNAGC 1 cut(s) 93
Bme1390I CCNGG 2 cut(s) 87, 405
BmeT110I CYCGRG 1 cut(s) 131
BmgBI CACGTC 1 cut(s) 598
BmiI GGNNCC 3 cut(s) 84, 762, 776
BmrFI CCNGG 2 cut(s) 87, 405
BmsI GCATC 2 cut(s) 163, 267
BpiI GAAGAC 1 cut(s) 425
BplI GAGNNNNNCTC 2 cut(s) 649, 681
BpmI CTGGAG 1 cut(s) 426
Bpu1102I GCTNAGC 1 cut(s) 93
BsaBI GATNNNNATC 2 cut(s) 287, 442
BsaJI CCNNGG 4 cut(s) 50, 248, 403, 770
Bsc4I CCNNNNNNNGG 1 cut(s) 797
Bse21I CCTNAGG 1 cut(s) 24
Bse8I GATNNNNATC 2 cut(s) 287, 442
BseBI CCWGG 2 cut(s) 87, 405
BseDI CCNNGG 4 cut(s) 50, 248, 403, 770
BseGI GGATG 3 cut(s) 126, 183, 523
BseJI GATNNNNATC 2 cut(s) 287, 442
BseLI CCNNNNNNNGG 1 cut(s) 797
BseRI GAGGAG 1 cut(s) 605
BseSI GKGCMC 1 cut(s) 214
BsgI GTGCAG 1 cut(s) 484
Bsh1285I CGRYCG 1 cut(s) 377
BshFI GGCC 2 cut(s) 697, 747
BshNI GGYRCC 1 cut(s) 774
BsiEI CGRYCG 1 cut(s) 377
BsiHKAI GWGCWC 2 cut(s) 214, 597
BsiHKCI CYCGRG 1 cut(s) 131
BslFI GGGAC 1 cut(s) 184
BslI CCNNNNNNNGG 1 cut(s) 797
BsmAI GTCTC 1 cut(s) 402
BsmBI CGTCTC 1 cut(s) 402
BsmFI GGGAC 1 cut(s) 184
BsnI GGCC 2 cut(s) 697, 747
BsoBI CYCGRG 1 cut(s) 131
Bsp1286I GDGCHC 2 cut(s) 214, 597
Bsp143I GATC 6 cut(s) 315, 331, 367, 374, 443, 739
Bsp1720I GCTNAGC 1 cut(s) 93
BspACI CCGC 1 cut(s) 11
BspANI GGCC 2 cut(s) 697, 747
BspLI GGNNCC 3 cut(s) 84, 762, 776
BspPI GGATC 1 cut(s) 451
BspT107I GGYRCC 1 cut(s) 774
BssECI CCNNGG 4 cut(s) 50, 248, 403, 770
BssMI GATC 6 cut(s) 315, 331, 367, 374, 443, 739
BssT1I CCWWGG 3 cut(s) 50, 248, 770
Bst2UI CCWGG 2 cut(s) 87, 405
BstC8I GCNNGC 1 cut(s) 178
BstDEI CTNAG 2 cut(s) 24, 93
BstEII GGTNACC 1 cut(s) 430
BstF5I GGATG 3 cut(s) 126, 183, 523
BstKTI GATC 6 cut(s) 318, 334, 370, 377, 446, 742
BstMAI GTCTC 1 cut(s) 402
BstMBI GATC 6 cut(s) 315, 331, 367, 374, 443, 739
BstMCI CGRYCG 1 cut(s) 377
BstMWI GCNNNNNNNGC 1 cut(s) 601
BstNI CCWGG 2 cut(s) 87, 405
BstPI GGTNACC 1 cut(s) 430
BstSCI CCNGG 2 cut(s) 85, 403
BstSFI CTRYAG 2 cut(s) 265, 574
BstSLI GKGCMC 1 cut(s) 214
BstV2I GAAGAC 1 cut(s) 425
BstX2I RGATCY 1 cut(s) 367
BstYI RGATCY 1 cut(s) 367
Bsu36I CCTNAGG 1 cut(s) 24
BsuI GTATCC 1 cut(s) 374
BsuRI GGCC 2 cut(s) 697, 747
BtgZI GCGATG 1 cut(s) 440
BtrI CACGTC 1 cut(s) 598
BtsCI GGATG 3 cut(s) 126, 183, 523
Cac8I GCNNGC 1 cut(s) 178
Csp6I GTAC 3 cut(s) 301, 352, 775
CspCI CAANNNNNGTGG 4 cut(s) 117, 152, 294, 329
CviAII CATG 3 cut(s) 68, 463, 637
CviJI RGCY 9 cut(s) 85, 97, 166, 180, 246, 401, 697, 747, 801
CviKI_1 RGCY 9 cut(s) 85, 97, 166, 180, 246, 401, 697, 747, 801
CviQI GTAC 3 cut(s) 301, 352, 775
DdeI CTNAG 2 cut(s) 24, 93
DpnI GATC 6 cut(s) 317, 333, 369, 376, 445, 741
DpnII GATC 6 cut(s) 315, 331, 367, 374, 443, 739
DraIII CACNNNGTG 1 cut(s) 616
DrdI GACNNNNNNGTC 1 cut(s) 542
DseDI GACNNNNNNGTC 1 cut(s) 542
EaeI YGGCCR 1 cut(s) 695
Eco130I CCWWGG 3 cut(s) 50, 248, 770
Eco32I GATATC 1 cut(s) 565
Eco81I CCTNAGG 1 cut(s) 24
Eco88I CYCGRG 1 cut(s) 131
Eco91I GGTNACC 1 cut(s) 430
EcoO65I GGTNACC 1 cut(s) 430
EcoRII CCWGG 2 cut(s) 85, 403
EcoRV GATATC 1 cut(s) 565
EcoT14I CCWWGG 3 cut(s) 50, 248, 770
ErhI CCWWGG 3 cut(s) 50, 248, 770
Esp3I CGTCTC 1 cut(s) 402
FaeI CATG 3 cut(s) 71, 466, 640
FaqI GGGAC 1 cut(s) 184
FatI CATG 3 cut(s) 67, 462, 636
FauNDI CATATG 1 cut(s) 205
FblI GTMKAC 1 cut(s) 63
FokI GGATG 3 cut(s) 133, 170, 510
FspBI CTAG 1 cut(s) 802
GsuI CTGGAG 1 cut(s) 426
HaeIII GGCC 2 cut(s) 697, 747
Hin1II CATG 3 cut(s) 71, 466, 640
HincII GTYRAC 1 cut(s) 64
HindII GTYRAC 1 cut(s) 64
HinfI GANTC 1 cut(s) 413
HphI GGTGA 3 cut(s) 102, 353, 442
Hpy166II GTNNAC 3 cut(s) 64, 212, 553
Hpy188I TCNGA 2 cut(s) 477, 754
Hpy188III TCNNGA 6 cut(s) 292, 378, 533, 622, 631, 651
Hpy8I GTNNAC 3 cut(s) 64, 212, 553
HpyAV CCTTC 3 cut(s) 233, 637, 648
HpyCH4IV ACGT 2 cut(s) 15, 597
HpyCH4V TGCA 5 cut(s) 212, 258, 491, 501, 610
HpyF10VI GCNNNNNNNGC 1 cut(s) 601
HpyF3I CTNAG 2 cut(s) 24, 93
HpySE526I ACGT 2 cut(s) 15, 597
Hsp92II CATG 3 cut(s) 71, 466, 640
KpnI GGTACC 1 cut(s) 778
Kzo9I GATC 6 cut(s) 315, 331, 367, 374, 443, 739
LmnI GCTCC 4 cut(s) 82, 592, 633, 670
LpnPI CCDG 8 cut(s) 72, 99, 162, 390, 417, 448, 501, 781
LweI GCATC 2 cut(s) 163, 267
MaeI CTAG 1 cut(s) 802
MaeII ACGT 2 cut(s) 15, 597
MaeIII GTNAC 1 cut(s) 430
MalI GATC 6 cut(s) 317, 333, 369, 376, 445, 741
MboI GATC 6 cut(s) 315, 331, 367, 374, 443, 739
MboII GAAGA 2 cut(s) 362, 430
MflI RGATCY 1 cut(s) 367
MhlI GDGCHC 2 cut(s) 214, 597
MlsI TGGCCA 1 cut(s) 697
MluCI AATT 2 cut(s) 143, 687
MluNI TGGCCA 1 cut(s) 697
MmeI TCCRAC 4 cut(s) 60, 117, 211, 250
MnlI CCTC 9 cut(s) 52, 108, 112, 133, 141, 202, 387, 583, 704
Mox20I TGGCCA 1 cut(s) 697
MscI TGGCCA 1 cut(s) 697
MslI CAYNNNNRTG 1 cut(s) 506
Msp20I TGGCCA 1 cut(s) 697
MspR9I CCNGG 2 cut(s) 87, 405
MvaI CCWGG 2 cut(s) 87, 405
MwoI GCNNNNNNNGC 1 cut(s) 601
NdeI CATATG 1 cut(s) 205
NdeII GATC 6 cut(s) 315, 331, 367, 374, 443, 739
NlaIII CATG 3 cut(s) 71, 466, 640
NlaIV GGNNCC 3 cut(s) 84, 762, 776
NmuCI GTSAC 1 cut(s) 430
PcsI WCGNNNNNNNCGW 1 cut(s) 422
PfeI GAWTC 1 cut(s) 413
Ple19I CGATCG 1 cut(s) 377
Psp6I CCWGG 2 cut(s) 85, 403
PspEI GGTNACC 1 cut(s) 430
PspGI CCWGG 2 cut(s) 85, 403
PspN4I GGNNCC 3 cut(s) 84, 762, 776
PsuI RGATCY 1 cut(s) 367
PvuI CGATCG 1 cut(s) 377
RsaI GTAC 3 cut(s) 302, 353, 776
RsaNI GTAC 3 cut(s) 301, 352, 775
RseI CAYNNNNRTG 1 cut(s) 506
SalI GTCGAC 1 cut(s) 62
Sau3AI GATC 6 cut(s) 315, 331, 367, 374, 443, 739
ScrFI CCNGG 2 cut(s) 87, 405
SduI GDGCHC 2 cut(s) 214, 597
SfaNI GCATC 2 cut(s) 163, 267
SfcI CTRYAG 2 cut(s) 265, 574
SmiMI CAYNNNNRTG 1 cut(s) 506
Sse9I AATT 2 cut(s) 143, 687
SsiI CCGC 1 cut(s) 11
SspMI CTAG 1 cut(s) 802
StyD4I CCNGG 2 cut(s) 85, 403
StyI CCWWGG 3 cut(s) 50, 248, 770
TaiI ACGT 2 cut(s) 18, 600
TaqI TCGA 5 cut(s) 63, 261, 330, 373, 416
TasI AATT 2 cut(s) 143, 687
TfiI GAWTC 1 cut(s) 413
TseFI GTSAC 1 cut(s) 430
Tsp45I GTSAC 1 cut(s) 430
TspDTI ATGAA 2 cut(s) 524, 653
TspGWI ACGGA 1 cut(s) 300
VneI GTGCAC 1 cut(s) 210
XapI RAATTY 1 cut(s) 687
XmiI GTMKAC 1 cut(s) 63
XspI CTAG 1 cut(s) 802
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.