pycom13g13960

Integrase core domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr13
OG0000278
Physical Location & Seq
Forward (+)
9928150 .. 9929161
1012 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom13g13960.3

Sequence Viewer

Length: 510 bp
ATGTGCGGAAGAAGAAGCATCTTCGTAGAGCTCAATGAATCAGTGAGTGGTAATGTTTCTTTTGGAGATGAATCCAAAATACCCGTAAAAGGAAAAGTTCAGGAAAAGCTTTCCAAAGGAGTCGACCACAAGAGCCCAGAAGCCACTCGAGCTCATTCACACCGATGTAAATCAGAAGTCTTTGGAGCATTTAAGAAGTTCAAAGCCGCTGTAGAAAAGGAGAGTGGTTGCAAGATCAAAGCCATGAGATCTGATCGAGGAGGAGAATTCACTTCGAAGGAATTTCAAGAGTTTTGTGAAGCAAATGGAATTCGTCGACCTTTGACAGTTCCAAGATCCCCTCAACAAAATGGAGTGGCGGAAAGAAAAAATCGAACCATCCTCGACATGGCTCGAAGCATGCTCAAAAGCAAGAAATTGCCTAAGGAATTGTGGGCAGAAGCTGTAGCATGTGCTGTCTACCTATCCAATCGGTCTCTAACAAGGAGTGTGTGGGGAAAAACTCCGTAA
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
rve

Protein Analysis

170

Amino Acids

18.86

Weight (kDa)

9.91

Isoelectric Point (pI)

43.67

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
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Publication-ready
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Orthologous Genes (Group: OG0000278)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G29785
fragaria_vesca FvH4_1g10046 FvH4_1g17351 FvH4_1g18441 FvH4_1g24222 FvH4_2g00141 FvH4_2g05931 FvH4_2g06671 FvH4_2g14030 FvH4_2g15291 FvH4_2g22611 FvH4_2g22612 FvH4_2g26380 FvH4_2g39202 FvH4_2g39202 FvH4_3g06691 FvH4_3g08580 FvH4_3g20502 FvH4_3g20503 FvH4_3g22421 FvH4_3g42580 FvH4_4g02061 FvH4_4g06794 FvH4_4g08661 FvH4_4g11771 FvH4_4g14601 FvH4_4g14721 FvH4_4g20921 FvH4_4g33601 FvH4_4g33602 FvH4_5g07492 FvH4_5g20321 FvH4_5g21591 FvH4_5g30343 FvH4_5g37875 FvH4_6g04372 FvH4_6g04373 FvH4_6g04373 FvH4_6g21377 FvH4_6g23760 FvH4_6g29471 FvH4_6g43142 FvH4_7g14351 FvH4_7g14352 FvH4_7g22582 FvH4_7g22583 FvH4_7g22584
malus_domestica MD00G1179400.v1.1 MD01G1170500.v1.1 MD03G1286700.v1.1 MD04G1054600.v1.1 MD04G1071700.v1.1 MD04G1193900.v1.1 MD08G1054300.v1.1 MD08G1217500.v1.1 MD09G1034600.v1.1 MD09G1098100.v1.1 MD10G1018300.v1.1 MD10G1220000.v1.1 MD10G1250300.v1.1 MD12G1014400.v1.1 MD15G1021000.v1.1 MD16G1112200.v1.1
prunus_persica Prupe.1G188900_v2.0.a1 Prupe.1G258000_v2.0.a1 Prupe.4G233400_v2.0.a1
pyrus_communis pycom01g10100 pycom02g01340 pycom03g19700 pycom05g01320 pycom07g16000 pycom07g16520 pycom11g26500 pycom13g09380 pycom13g13960 pycom14g08180 pycom14g16810 pycom16g09590
rosa_chinensis RchiOBHm_Chr1g0319891 RchiOBHm_Chr1g0333711 RchiOBHm_Chr2g0115331 RchiOBHm_Chr2g0143411 RchiOBHm_Chr2g0167631 RchiOBHm_Chr3g0448581 RchiOBHm_Chr3g0494991 RchiOBHm_Chr4g0442471 RchiOBHm_Chr6g0262311 RchiOBHm_Chr6g0301831 RchiOBHm_Chr6g0301841 RchiOBHm_Chr7g0183451
rosa_roxburghii Rroxscaffold_1G00039280 Rroxscaffold_1G00047670 Rroxscaffold_1G00066330 Rroxscaffold_2G00107510 Rroxscaffold_3G00255410 Rroxscaffold_4G00301460 Rroxscaffold_5G00352730 Rroxscaffold_7G00166350 Rroxscaffold_7G00166360 Rroxscaffold_7G00203820
rosa_rugosa Rorug03G0240500 Rorug05G0191700 Rorug06G0310200
rosa_samantha Rh2BG287000 Rh4CG073500 Rh4CG176200 Rh4CG191400 Rh5BG356100 Rh5BG434100 Rh6AG110600 Rh6AG421900 Rh6AG422000 Rh6AG422100 Rh6BG428600 Rh6BG428700 Rh6BG428800 Rh6CG435200 Rh6CG435300 Rh6CG435400 Rh6DG422000 Rh6DG422100 Rh6DG422200 Rh7BG190500 Rh7CG172800 Rh7CG225200
rosa_wichuraiana Rw2G044060 Rw6G036540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 3 cut(s) 123, 316, 459
AciI CCGC 3 cut(s) 6, 207, 359
AclWI GGATC 1 cut(s) 330
AcsI RAATTY 3 cut(s) 266, 281, 309
AfiI CCNNNNNNNGG 2 cut(s) 89, 388
AgsI TTSAA 2 cut(s) 202, 287
AluBI AGCT 4 cut(s) 31, 109, 152, 443
AluI AGCT 4 cut(s) 31, 109, 152, 443
Alw21I GWGCWC 2 cut(s) 33, 154
Alw26I GTCTC 1 cut(s) 480
AlwI GGATC 1 cut(s) 330
AlwNI CAGNNNCTG 1 cut(s) 443
Ama87I CYCGRG 1 cut(s) 147
ApoI RAATTY 3 cut(s) 266, 281, 309
AsuII TTCGAA 1 cut(s) 275
AvaI CYCGRG 1 cut(s) 147
AxyI CCTNAGG 1 cut(s) 423
BanII GRGCYC 3 cut(s) 33, 137, 154
Bbv12I GWGCWC 2 cut(s) 33, 154
BccI CCATC 1 cut(s) 386
BcoDI GTCTC 1 cut(s) 480
BfmI CTRYAG 2 cut(s) 210, 444
BglII AGATCT 1 cut(s) 248
BisI GCNGC 1 cut(s) 207
BlsI GCNGC 1 cut(s) 208
BmeT110I CYCGRG 1 cut(s) 147
BmsI GCATC 1 cut(s) 27
Bpu14I TTCGAA 1 cut(s) 275
BsaBI GATNNNNATC 1 cut(s) 169
BsaI GGTCTC 1 cut(s) 480
Bsc4I CCNNNNNNNGG 2 cut(s) 89, 388
Bse21I CCTNAGG 1 cut(s) 423
Bse8I GATNNNNATC 1 cut(s) 169
BseGI GGATG 1 cut(s) 378
BseJI GATNNNNATC 1 cut(s) 169
BseLI CCNNNNNNNGG 2 cut(s) 89, 388
BseRI GAGGAG 2 cut(s) 273, 276
BsiHKAI GWGCWC 2 cut(s) 33, 154
BsiHKCI CYCGRG 1 cut(s) 147
BslI CCNNNNNNNGG 2 cut(s) 89, 388
BsmAI GTCTC 1 cut(s) 480
Bso31I GGTCTC 1 cut(s) 480
BsoBI CYCGRG 1 cut(s) 147
Bsp119I TTCGAA 1 cut(s) 275
Bsp1286I GDGCHC 3 cut(s) 33, 137, 154
Bsp143I GATC 4 cut(s) 234, 248, 253, 335
BspACI CCGC 3 cut(s) 6, 207, 359
BspPI GGATC 1 cut(s) 330
BspT104I TTCGAA 1 cut(s) 275
BspTNI GGTCTC 1 cut(s) 480
BssMI GATC 4 cut(s) 234, 248, 253, 335
Bst4CI ACNGT 1 cut(s) 328
BstBI TTCGAA 1 cut(s) 275
BstC8I GCNNGC 1 cut(s) 401
BstDEI CTNAG 1 cut(s) 423
BstF5I GGATG 1 cut(s) 378
BstKTI GATC 4 cut(s) 237, 251, 256, 338
BstMAI GTCTC 1 cut(s) 480
BstMBI GATC 4 cut(s) 234, 248, 253, 335
BstMWI GCNNNNNNNGC 1 cut(s) 149
BstNSI RCATGY 2 cut(s) 403, 453
BstSFI CTRYAG 2 cut(s) 210, 444
BstX2I RGATCY 2 cut(s) 248, 335
BstYI RGATCY 2 cut(s) 248, 335
Bsu36I CCTNAGG 1 cut(s) 423
BtsCI GGATG 1 cut(s) 378
BtsIMutI CAGTG 1 cut(s) 48
Cac8I GCNNGC 1 cut(s) 401
CaiI CAGNNNCTG 1 cut(s) 443
CviAII CATG 4 cut(s) 244, 388, 400, 450
CviJI RGCY 9 cut(s) 31, 109, 135, 143, 152, 206, 242, 392, 443
CviKI_1 RGCY 9 cut(s) 31, 109, 135, 143, 152, 206, 242, 392, 443
DdeI CTNAG 1 cut(s) 423
DpnI GATC 4 cut(s) 236, 250, 255, 337
DpnII GATC 4 cut(s) 234, 248, 253, 335
EciI GGCGGA 1 cut(s) 374
Ecl136II GAGCTC 2 cut(s) 31, 152
Eco24I GRGCYC 3 cut(s) 33, 137, 154
Eco31I GGTCTC 1 cut(s) 480
Eco53kI GAGCTC 2 cut(s) 31, 152
Eco81I CCTNAGG 1 cut(s) 423
Eco88I CYCGRG 1 cut(s) 147
EcoICRI GAGCTC 2 cut(s) 31, 152
EcoRI GAATTC 2 cut(s) 266, 309
EcoT38I GRGCYC 3 cut(s) 33, 137, 154
FaeI CATG 4 cut(s) 247, 391, 403, 453
FaiI YATR 4 cut(s) 245, 389, 401, 451
FatI CATG 4 cut(s) 243, 387, 399, 449
FblI GTMKAC 3 cut(s) 123, 316, 459
Fnu4HI GCNGC 1 cut(s) 207
FokI GGATG 1 cut(s) 365
FriOI GRGCYC 3 cut(s) 33, 137, 154
Fsp4HI GCNGC 1 cut(s) 207
GluI GCNGC 1 cut(s) 207
Hin1II CATG 4 cut(s) 247, 391, 403, 453
HincII GTYRAC 2 cut(s) 124, 317
HindII GTYRAC 2 cut(s) 124, 317
HindIII AAGCTT 1 cut(s) 107
HinfI GANTC 3 cut(s) 38, 71, 120
Hpy166II GTNNAC 3 cut(s) 124, 317, 460
Hpy188I TCNGA 2 cut(s) 175, 253
Hpy188III TCNNGA 2 cut(s) 101, 287
Hpy8I GTNNAC 3 cut(s) 124, 317, 460
Hpy99I CGWCG 1 cut(s) 318
HpyAV CCTTC 1 cut(s) 271
HpyCH4III ACNGT 1 cut(s) 328
HpyCH4V TGCA 1 cut(s) 231
HpyF10VI GCNNNNNNNGC 1 cut(s) 149
HpyF3I CTNAG 1 cut(s) 423
Hsp92II CATG 4 cut(s) 247, 391, 403, 453
Kzo9I GATC 4 cut(s) 234, 248, 253, 335
LmnI GCTCC 1 cut(s) 185
LpnPI CCDG 2 cut(s) 86, 150
LweI GCATC 1 cut(s) 27
MalI GATC 4 cut(s) 236, 250, 255, 337
MboI GATC 4 cut(s) 234, 248, 253, 335
MboII GAAGA 3 cut(s) 13, 21, 24
MflI RGATCY 2 cut(s) 248, 335
MhlI GDGCHC 3 cut(s) 33, 137, 154
MluCI AATT 5 cut(s) 266, 281, 309, 416, 428
MlyI GAGTC 1 cut(s) 129
MnlI CCTC 4 cut(s) 251, 254, 351, 392
MseI TTAA 1 cut(s) 192
MslI CAYNNNNRTG 1 cut(s) 163
MspA1I CMGCKG 1 cut(s) 209
MwoI GCNNNNNNNGC 1 cut(s) 149
NdeII GATC 4 cut(s) 234, 248, 253, 335
NlaIII CATG 4 cut(s) 247, 391, 403, 453
NspI RCATGY 2 cut(s) 403, 453
NspV TTCGAA 1 cut(s) 275
PaeI GCATGC 1 cut(s) 403
PaeR7I CTCGAG 1 cut(s) 147
PfeI GAWTC 2 cut(s) 38, 71
PkrI GCNGC 1 cut(s) 208
PleI GAGTC 1 cut(s) 128
PpsI GAGTC 1 cut(s) 128
Psp124BI GAGCTC 2 cut(s) 33, 154
PspXI VCTCGAGB 1 cut(s) 147
PstNI CAGNNNCTG 1 cut(s) 443
PsuI RGATCY 2 cut(s) 248, 335
RseI CAYNNNNRTG 1 cut(s) 163
SacI GAGCTC 2 cut(s) 33, 154
SalI GTCGAC 2 cut(s) 122, 315
SaqAI TTAA 1 cut(s) 192
SatI GCNGC 1 cut(s) 207
Sau3AI GATC 4 cut(s) 234, 248, 253, 335
SchI GAGTC 1 cut(s) 129
SduI GDGCHC 3 cut(s) 33, 137, 154
SetI ASST 6 cut(s) 33, 111, 154, 322, 445, 465
SfaNI GCATC 1 cut(s) 27
SfcI CTRYAG 2 cut(s) 210, 444
Sfr274I CTCGAG 1 cut(s) 147
SfuI TTCGAA 1 cut(s) 275
SlaI CTCGAG 1 cut(s) 147
SmiMI CAYNNNNRTG 1 cut(s) 163
SmlI CTYRAG 1 cut(s) 147
SmoI CTYRAG 1 cut(s) 147
SphI GCATGC 1 cut(s) 403
Sse9I AATT 5 cut(s) 266, 281, 309, 416, 428
SsiI CCGC 3 cut(s) 6, 207, 359
SstI GAGCTC 2 cut(s) 33, 154
TaaI ACNGT 1 cut(s) 328
TaqI TCGA 8 cut(s) 123, 148, 256, 275, 316, 373, 384, 394
TaqII GACCGA 1 cut(s) 462
TasI AATT 5 cut(s) 266, 281, 309, 416, 428
TauI GCSGC 1 cut(s) 209
TfiI GAWTC 2 cut(s) 38, 71
Tru1I TTAA 1 cut(s) 192
Tru9I TTAA 1 cut(s) 192
TscAI CASTG 1 cut(s) 48
TspDTI ATGAA 2 cut(s) 51, 84
TspGWI ACGGA 1 cut(s) 495
TspRI CASTG 1 cut(s) 48
XapI RAATTY 3 cut(s) 266, 281, 309
XceI RCATGY 2 cut(s) 403, 453
XcmI CCANNNNNNNNNTGG 1 cut(s) 385
XhoI CTCGAG 1 cut(s) 147
XmiI GTMKAC 3 cut(s) 123, 316, 459
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.