pycom1134g00040

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
tig00001134
OG0000291
Physical Location & Seq
Forward (+)
54436 .. 55311
876 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom1134g00040.1

Sequence Viewer

Length: 876 bp
ATGTTGAATGAAGGGGAGGAGAAGTACGGGCCTTTGCCGAAACAAGTGGAAGCCGTCCTTATGGAGTTTGCGGACGTAATGCCTAAGGAACTGCCAAAGAAGTTGCCACCAAGGAGAGAGGTCGACCATGCGATTGAGTTGGAGCCTGGTGCTAAGCCTCCCTCCAAATCACCTTATAGGATGTCGCCACCCGAGTTGGAGGAATTGAGGAAGCAACTCAACGAGCTACTTGATGCTGGCTACATCCAACCCTCCAAGTCCCCATATGGTGCACCCGTCTTGTTCCAACGCAAGAAAGAAGGTAGCCCAAGGTTGTGCATCGACTATAGAGCATTGAACAAGATTACCATCAAGAACAAGTACCCACTTCCGTTGATCGCCGACTTATTCGATCAACTTGGTGAAGCAAGGTACTTCACAAAGTTAGATCTTCGATCGGGATACTACCAAGTGAGGATAGCCCCTGGAGACGAATCGAAGACGGCGATGGTGACCAGATATGGATCGTTTGAGTATAAAGTCATGCCATTTGGTCTGACCAATGCCCCTGCAACATTCTGCACATTGATGAACAAGGTATTCCATCCTTATCTTGACAAGTTTGTCATGGTTTACATTGATGATATCGTTATCTATAGCAAGACATTGGAGGAGCACGTCAAGCACTTGCACATAGTGTTCAAGACCCTTCGGGAGCATGAACTCTATGTCAAGAAGGAGAAATGCTCCTTTGCCACAAAAGAAGTAGAATTTCTTGGCCACAAGATAAAGGAGGGGAAACTTATGATAGAAAAGGGCAAGATCAAGGCCATTCAAGAGTGGGAACCACCGACCAAGGTACCAACACTACAATCCTTTCTGGGGCTAGCCAACTAG
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

292

Amino Acids

33.51

Weight (kDa)

8.92

Isoelectric Point (pI)

44.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 97 - 256 1.6e-42 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) 602
Acc65I GGTACC 1 cut(s) 838
AccB1I GGYRCC 1 cut(s) 838
AccI GTMKAC 1 cut(s) 123
AciI CCGC 1 cut(s) 71
AclWI GGATC 1 cut(s) 511
AcoI YGGCCR 1 cut(s) 757
AcsI RAATTY 1 cut(s) 749
AdeI CACNNNGTG 1 cut(s) 676
AfaI GTAC 4 cut(s) 26, 362, 413, 840
AfiI CCNNNNNNNGG 1 cut(s) 861
AgsI TTSAA 4 cut(s) 7, 337, 682, 815
AjiI CACGTC 1 cut(s) 658
AjnI CCWGG 2 cut(s) 145, 463
AluBI AGCT 1 cut(s) 226
AluI AGCT 1 cut(s) 226
Alw21I GWGCWC 2 cut(s) 274, 657
Alw26I GTCTC 1 cut(s) 462
Alw44I GTGCAC 1 cut(s) 270
AlwI GGATC 1 cut(s) 511
Ama87I CYCGRG 1 cut(s) 191
AoxI GGCC 3 cut(s) 29, 757, 807
ApaLI GTGCAC 1 cut(s) 270
ApoI RAATTY 1 cut(s) 749
Asp718I GGTACC 1 cut(s) 838
AspS9I GGNCC 1 cut(s) 29
AsuHPI GGTGA 3 cut(s) 162, 413, 502
AsuNHI GCTAGC 1 cut(s) 865
AvaI CYCGRG 1 cut(s) 191
AxyI CCTNAGG 1 cut(s) 84
BaeGI GKGCMC 1 cut(s) 274
BaeI ACNNNNGTAYC 2 cut(s) 822, 855
BalI TGGCCA 1 cut(s) 759
BanI GGYRCC 1 cut(s) 838
BbsI GAAGAC 1 cut(s) 485
Bbv12I GWGCWC 2 cut(s) 274, 657
BccI CCATC 3 cut(s) 356, 481, 591
BceAI ACGGC 2 cut(s) 38, 498
BciT130I CCWGG 2 cut(s) 147, 465
BciVI GTATCC 1 cut(s) 434
BcoDI GTCTC 1 cut(s) 462
BfaI CTAG 2 cut(s) 866, 874
BfmI CTRYAG 2 cut(s) 325, 634
BfuI GTATCC 1 cut(s) 434
BglII AGATCT 1 cut(s) 427
BlpI GCTNAGC 1 cut(s) 153
Bme1390I CCNGG 2 cut(s) 147, 465
BmeT110I CYCGRG 1 cut(s) 191
BmgBI CACGTC 1 cut(s) 658
BmgT120I GGNCC 1 cut(s) 29
BmiI GGNNCC 3 cut(s) 144, 825, 840
BmrFI CCNGG 2 cut(s) 147, 465
BmsI GCATC 2 cut(s) 223, 327
BmtI GCTAGC 1 cut(s) 869
BpiI GAAGAC 1 cut(s) 485
BplI GAGNNNNNCTC 2 cut(s) 710, 742
BpmI CTGGAG 1 cut(s) 486
Bpu1102I GCTNAGC 1 cut(s) 153
BsaBI GATNNNNATC 2 cut(s) 347, 502
BsaJI CCNNGG 4 cut(s) 110, 308, 463, 834
BsaXI ACNNNNNCTCC 2 cut(s) 8, 38
Bsc4I CCNNNNNNNGG 1 cut(s) 861
Bse21I CCTNAGG 1 cut(s) 84
Bse8I GATNNNNATC 2 cut(s) 347, 502
BseBI CCWGG 2 cut(s) 147, 465
BseDI CCNNGG 4 cut(s) 110, 308, 463, 834
BseGI GGATG 3 cut(s) 186, 243, 583
BseJI GATNNNNATC 2 cut(s) 347, 502
BseLI CCNNNNNNNGG 1 cut(s) 861
BseRI GAGGAG 2 cut(s) 32, 665
BseSI GKGCMC 1 cut(s) 274
BsgI GTGCAG 1 cut(s) 544
Bsh1285I CGRYCG 1 cut(s) 437
BshFI GGCC 3 cut(s) 31, 759, 809
BshNI GGYRCC 1 cut(s) 838
BsiEI CGRYCG 1 cut(s) 437
BsiHKAI GWGCWC 2 cut(s) 274, 657
BsiHKCI CYCGRG 1 cut(s) 191
BslFI GGGAC 1 cut(s) 244
BslI CCNNNNNNNGG 1 cut(s) 861
BsmAI GTCTC 1 cut(s) 462
BsmBI CGTCTC 1 cut(s) 462
BsmFI GGGAC 1 cut(s) 244
BsnI GGCC 3 cut(s) 31, 759, 809
BsoBI CYCGRG 1 cut(s) 191
Bsp1286I GDGCHC 2 cut(s) 274, 657
Bsp143I GATC 6 cut(s) 375, 391, 427, 434, 503, 801
Bsp1720I GCTNAGC 1 cut(s) 153
BspACI CCGC 1 cut(s) 71
BspANI GGCC 3 cut(s) 31, 759, 809
BspLI GGNNCC 3 cut(s) 144, 825, 840
BspOI GCTAGC 1 cut(s) 869
BspPI GGATC 1 cut(s) 511
BspT107I GGYRCC 1 cut(s) 838
BssECI CCNNGG 4 cut(s) 110, 308, 463, 834
BssMI GATC 6 cut(s) 375, 391, 427, 434, 503, 801
BssT1I CCWWGG 3 cut(s) 110, 308, 834
Bst2UI CCWGG 2 cut(s) 147, 465
BstC8I GCNNGC 2 cut(s) 238, 867
BstDEI CTNAG 2 cut(s) 84, 153
BstEII GGTNACC 1 cut(s) 490
BstF5I GGATG 3 cut(s) 186, 243, 583
BstKTI GATC 6 cut(s) 378, 394, 430, 437, 506, 804
BstMAI GTCTC 1 cut(s) 462
BstMBI GATC 6 cut(s) 375, 391, 427, 434, 503, 801
BstMCI CGRYCG 1 cut(s) 437
BstMWI GCNNNNNNNGC 1 cut(s) 661
BstNI CCWGG 2 cut(s) 147, 465
BstPI GGTNACC 1 cut(s) 490
BstSCI CCNGG 2 cut(s) 145, 463
BstSFI CTRYAG 2 cut(s) 325, 634
BstSLI GKGCMC 1 cut(s) 274
BstV2I GAAGAC 1 cut(s) 485
BstX2I RGATCY 1 cut(s) 427
BstYI RGATCY 1 cut(s) 427
Bsu36I CCTNAGG 1 cut(s) 84
BsuI GTATCC 1 cut(s) 434
BsuRI GGCC 3 cut(s) 31, 759, 809
BtgZI GCGATG 1 cut(s) 500
BtrI CACGTC 1 cut(s) 658
BtsCI GGATG 3 cut(s) 186, 243, 583
Cac8I GCNNGC 2 cut(s) 238, 867
Cfr13I GGNCC 1 cut(s) 29
Csp6I GTAC 4 cut(s) 25, 361, 412, 839
CspCI CAANNNNNGTGG 4 cut(s) 177, 212, 354, 389
CviAII CATG 4 cut(s) 128, 523, 607, 698
CviQI GTAC 4 cut(s) 25, 361, 412, 839
DdeI CTNAG 2 cut(s) 84, 153
DpnI GATC 6 cut(s) 377, 393, 429, 436, 505, 803
DpnII GATC 6 cut(s) 375, 391, 427, 434, 503, 801
DraIII CACNNNGTG 1 cut(s) 676
DrdI GACNNNNNNGTC 1 cut(s) 602
DseDI GACNNNNNNGTC 1 cut(s) 602
EaeI YGGCCR 1 cut(s) 757
Eco130I CCWWGG 3 cut(s) 110, 308, 834
Eco32I GATATC 1 cut(s) 625
Eco81I CCTNAGG 1 cut(s) 84
Eco88I CYCGRG 1 cut(s) 191
Eco91I GGTNACC 1 cut(s) 490
EcoO65I GGTNACC 1 cut(s) 490
EcoRII CCWGG 2 cut(s) 145, 463
EcoRV GATATC 1 cut(s) 625
EcoT14I CCWWGG 3 cut(s) 110, 308, 834
ErhI CCWWGG 3 cut(s) 110, 308, 834
Esp3I CGTCTC 1 cut(s) 462
FaeI CATG 4 cut(s) 131, 526, 610, 701
FalI AAGNNNNNCTT 2 cut(s) 42, 74
FaqI GGGAC 1 cut(s) 244
FatI CATG 4 cut(s) 127, 522, 606, 697
FauNDI CATATG 1 cut(s) 265
FblI GTMKAC 1 cut(s) 123
FokI GGATG 3 cut(s) 193, 230, 570
FspBI CTAG 2 cut(s) 866, 874
GsuI CTGGAG 1 cut(s) 486
HaeIII GGCC 3 cut(s) 31, 759, 809
Hin1II CATG 4 cut(s) 131, 526, 610, 701
HincII GTYRAC 1 cut(s) 124
HindII GTYRAC 1 cut(s) 124
HinfI GANTC 1 cut(s) 473
HphI GGTGA 3 cut(s) 162, 413, 502
Hpy166II GTNNAC 3 cut(s) 124, 272, 613
Hpy188I TCNGA 1 cut(s) 537
Hpy188III TCNNGA 7 cut(s) 352, 438, 593, 682, 692, 712, 815
Hpy8I GTNNAC 3 cut(s) 124, 272, 613
HpyAV CCTTC 4 cut(s) 5, 293, 698, 709
HpyCH4IV ACGT 2 cut(s) 75, 657
HpyCH4V TGCA 5 cut(s) 272, 318, 551, 561, 670
HpyF10VI GCNNNNNNNGC 1 cut(s) 661
HpyF3I CTNAG 2 cut(s) 84, 153
HpySE526I ACGT 2 cut(s) 75, 657
Hsp92II CATG 4 cut(s) 131, 526, 610, 701
KpnI GGTACC 1 cut(s) 842
Kzo9I GATC 6 cut(s) 375, 391, 427, 434, 503, 801
LmnI GCTCC 4 cut(s) 142, 652, 694, 731
LpnPI CCDG 8 cut(s) 132, 159, 222, 450, 477, 508, 561, 845
LweI GCATC 2 cut(s) 223, 327
MaeI CTAG 2 cut(s) 866, 874
MaeII ACGT 2 cut(s) 75, 657
MaeIII GTNAC 1 cut(s) 490
MalI GATC 6 cut(s) 377, 393, 429, 436, 505, 803
MboI GATC 6 cut(s) 375, 391, 427, 434, 503, 801
MboII GAAGA 2 cut(s) 422, 490
MflI RGATCY 1 cut(s) 427
MhlI GDGCHC 2 cut(s) 274, 657
MlsI TGGCCA 1 cut(s) 759
MluCI AATT 2 cut(s) 203, 749
MluNI TGGCCA 1 cut(s) 759
MmeI TCCRAC 4 cut(s) 120, 177, 271, 310
Mox20I TGGCCA 1 cut(s) 759
MscI TGGCCA 1 cut(s) 759
MslI CAYNNNNRTG 1 cut(s) 566
Msp20I TGGCCA 1 cut(s) 759
MspR9I CCNGG 2 cut(s) 147, 465
MvaI CCWGG 2 cut(s) 147, 465
MwoI GCNNNNNNNGC 1 cut(s) 661
NdeI CATATG 1 cut(s) 265
NdeII GATC 6 cut(s) 375, 391, 427, 434, 503, 801
NheI GCTAGC 1 cut(s) 865
NlaIII CATG 4 cut(s) 131, 526, 610, 701
NlaIV GGNNCC 3 cut(s) 144, 825, 840
NmuCI GTSAC 1 cut(s) 490
PcsI WCGNNNNNNNCGW 1 cut(s) 482
PfeI GAWTC 1 cut(s) 473
Ple19I CGATCG 1 cut(s) 437
Psp6I CCWGG 2 cut(s) 145, 463
PspEI GGTNACC 1 cut(s) 490
PspGI CCWGG 2 cut(s) 145, 463
PspN4I GGNNCC 3 cut(s) 144, 825, 840
PspPI GGNCC 1 cut(s) 29
PsuI RGATCY 1 cut(s) 427
PvuI CGATCG 1 cut(s) 437
RsaI GTAC 4 cut(s) 26, 362, 413, 840
RsaNI GTAC 4 cut(s) 25, 361, 412, 839
RseI CAYNNNNRTG 1 cut(s) 566
SalI GTCGAC 1 cut(s) 122
Sau3AI GATC 6 cut(s) 375, 391, 427, 434, 503, 801
Sau96I GGNCC 1 cut(s) 29
ScrFI CCNGG 2 cut(s) 147, 465
SduI GDGCHC 2 cut(s) 274, 657
SfaNI GCATC 2 cut(s) 223, 327
SfcI CTRYAG 2 cut(s) 325, 634
SmiMI CAYNNNNRTG 1 cut(s) 566
Sse9I AATT 2 cut(s) 203, 749
SsiI CCGC 1 cut(s) 71
SspMI CTAG 2 cut(s) 866, 874
StyD4I CCNGG 2 cut(s) 145, 463
StyI CCWWGG 3 cut(s) 110, 308, 834
TaiI ACGT 2 cut(s) 78, 660
TaqI TCGA 5 cut(s) 123, 321, 390, 433, 476
TasI AATT 2 cut(s) 203, 749
TfiI GAWTC 1 cut(s) 473
TseFI GTSAC 1 cut(s) 490
Tsp45I GTSAC 1 cut(s) 490
TspDTI ATGAA 3 cut(s) 24, 584, 714
TspGWI ACGGA 1 cut(s) 360
VneI GTGCAC 1 cut(s) 270
XapI RAATTY 1 cut(s) 749
XmiI GTMKAC 1 cut(s) 123
XspI CTAG 2 cut(s) 866, 874
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.