MD10G1255600.v1.1

GAG-pre-integrase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0000034
Physical Location & Seq
Forward (+)
35019412 .. 35020191
780 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1255600.v1.1.491

Sequence Viewer

Length: 360 bp
ATGCCTAACTATTCACAACCAGTGCCTGTTTTGATGCTTATGCCTGGTTATTTCCCGTGTGCTTTTCCCTCTCAATACGCTTCTGGTTCCTTTAACAACTTCAGAGGTTCAGCCTATAATCCTTCTCAAATTTGTCAAATTTGCAATAAGAAATGTCATTCTGCTCTCAATTGCTTCCAAAATGGGTGTCAAATATGTCACGGGAAAGGACATACTGCAGCTACTTGTTTTGACAAGAATGCTCCTCCACAATTTCATATGACTGGTTCTTCCTCTCATCAGATGAATGTTCATCCATCTTCTCAATTTGCTTTTGTTGGTGCTCCACCTGGCTATTATTCCCGTGGACCTCAAGTTTAA
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 gag_pre-integrs rve

Protein Analysis

120

Amino Acids

12.96

Weight (kDa)

8.86

Isoelectric Point (pI)

49.49

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000034)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G34070
fragaria_vesca FvH4_1g00961 FvH4_1g10351 FvH4_1g15351 FvH4_1g26571 FvH4_1g26621 FvH4_1g28434 FvH4_2g00591 FvH4_2g06411 FvH4_2g16831 FvH4_2g20161 FvH4_2g23291 FvH4_3g04191 FvH4_3g07021 FvH4_3g17162 FvH4_3g17262 FvH4_3g38081 FvH4_3g39581 FvH4_3g45090 FvH4_4g05782 FvH4_4g05872 FvH4_4g13041 FvH4_4g23411 FvH4_4g24051 FvH4_4g26452 FvH4_4g26453 FvH4_4g27903 FvH4_4g33449 FvH4_5g01072 FvH4_5g03532 FvH4_5g04140 FvH4_5g06631 FvH4_5g09401 FvH4_5g09403 FvH4_5g20624 FvH4_5g20701 FvH4_5g21971 FvH4_5g36481 FvH4_5g38691 FvH4_6g11492 FvH4_6g19792 FvH4_6g20601 FvH4_6g24641 FvH4_6g34291 FvH4_6g36662 FvH4_6g36681 FvH4_6g36682 FvH4_6g36682 FvH4_6g36682 FvH4_6g36770 FvH4_6g36981 FvH4_6g37021 FvH4_6g37022 FvH4_6g43610 FvH4_7g10872 FvH4_7g10872 FvH4_7g16100 FvH4_7g19191 FvH4_7g23761 FvH4_7g24921
malus_domestica MD01G1077600.v1.1 MD02G1010600.v1.1 MD03G1059500.v1.1 MD04G1024600.v1.1 MD04G1101800.v1.1 MD04G1151700.v1.1 MD05G1025000.v1.1 MD05G1129300.v1.1 MD05G1320000.v1.1 MD06G1136100.v1.1 MD08G1157400.v1.1 MD09G1041800.v1.1 MD10G1109600.v1.1 MD10G1255600.v1.1 MD11G1108900.v1.1 MD11G1145100.v1.1 MD11G1242500.v1.1 MD12G1113300.v1.1 MD12G1231800.v1.1 MD13G1099200.v1.1 MD13G1142500.v1.1 MD15G1114200.v1.1 MD15G1119400.v1.1 MD15G1372100.v1.1 MD16G1038200.v1.1 MD16G1163700.v1.1 MD17G1055600.v1.1 MD17G1089000.v1.1 MD17G1109500.v1.1
prunus_persica Prupe.1G091500_v2.0.a1 Prupe.1G170400_v2.0.a1 Prupe.2G074700_v2.0.a1 Prupe.3G024500_v2.0.a1 Prupe.3G026300_v2.0.a1 Prupe.3G245500_v2.0.a1 Prupe.4G199600_v2.0.a1 Prupe.4G230800_v2.0.a1 Prupe.4G238700_v2.0.a1 Prupe.6G052200_v2.0.a1 Prupe.8G080900_v2.0.a1 Prupe.8G084200_v2.0.a1 Prupe.8G185000_v2.0.a1 Prupe.8G185100_v2.0.a1
pyrus_communis pycom01g07890 pycom01g09690 pycom01g14780 pycom01g18640 pycom03g07210 pycom05g03010 pycom05g11250 pycom05g23340 pycom05g27720 pycom06g05610 pycom06g12180 pycom09g06110 pycom09g08430 pycom10g16550 pycom11g03760 pycom11g24270 pycom12g12290 pycom13g10850 pycom13g18230 pycom13g22260 pycom13g27850 pycom14g17700 pycom15g07910 pycom15g26210 pycom15g26440 pycom15g29540 pycom16g00280 pycom16g18160 pycom17g16360 pycom17g19900
rosa_chinensis RchiOBHm_Chr1g0313671 RchiOBHm_Chr1g0322301 RchiOBHm_Chr1g0334441 RchiOBHm_Chr1g0337651 RchiOBHm_Chr1g0337711 RchiOBHm_Chr1g0339131 RchiOBHm_Chr1g0344491 RchiOBHm_Chr1g0347771 RchiOBHm_Chr1g0349331 RchiOBHm_Chr1g0354241 RchiOBHm_Chr1g0355351 RchiOBHm_Chr1g0376111 RchiOBHm_Chr1g0379881 RchiOBHm_Chr1g0384421 RchiOBHm_Chr2g0101531 RchiOBHm_Chr2g0117741 RchiOBHm_Chr2g0126581 RchiOBHm_Chr2g0129181 RchiOBHm_Chr2g0136201 RchiOBHm_Chr2g0137991 RchiOBHm_Chr2g0156571 RchiOBHm_Chr2g0159441 RchiOBHm_Chr2g0164131 RchiOBHm_Chr2g0174291 RchiOBHm_Chr2g0175161 RchiOBHm_Chr3g0448481 RchiOBHm_Chr3g0450851 RchiOBHm_Chr3g0450861 RchiOBHm_Chr3g0461251 RchiOBHm_Chr3g0463031 RchiOBHm_Chr3g0465981 RchiOBHm_Chr3g0472811 RchiOBHm_Chr3g0472821 RchiOBHm_Chr3g0480521 RchiOBHm_Chr3g0480531 RchiOBHm_Chr3g0482021 RchiOBHm_Chr3g0496771 RchiOBHm_Chr4g0393151 RchiOBHm_Chr4g0407171 RchiOBHm_Chr4g0431731 RchiOBHm_Chr4g0432071 RchiOBHm_Chr4g0436951 RchiOBHm_Chr5g0000711 RchiOBHm_Chr5g0004361 RchiOBHm_Chr5g0012631 RchiOBHm_Chr5g0025271 RchiOBHm_Chr5g0032551 RchiOBHm_Chr5g0038991 RchiOBHm_Chr5g0043811 RchiOBHm_Chr5g0058511 RchiOBHm_Chr5g0077241 RchiOBHm_Chr5g0079981 RchiOBHm_Chr5g0083071 RchiOBHm_Chr6g0256871 RchiOBHm_Chr6g0266721 RchiOBHm_Chr6g0299971 RchiOBHm_Chr6g0304931 RchiOBHm_Chr7g0177331 RchiOBHm_Chr7g0182851 RchiOBHm_Chr7g0190501 RchiOBHm_Chr7g0200091 RchiOBHm_Chr7g0203981 RchiOBHm_Chr7g0206011 RchiOBHm_Chr7g0206111 RchiOBHm_Chr7g0206441 RchiOBHm_Chr7g0220151 RchiOBHm_Chr7g0234441 RchiOBHm_Chr7g0234661 RchiOBHm_Chr7g0238281
rosa_laevigata RLG00000003338 RLG00000020373 RLG00000020377 RLG00000020415 RLG00000020416 RLG00000026600
rosa_multiflora Rmu_co8214922.1_g000001 Rmu_co8257903.1_g000001 Rmu_co8295123.1_g000001 Rmu_sc0000177.1_g000007 Rmu_sc0000614.1_g000005 Rmu_sc0000648.1_g000003 Rmu_sc0000809.1_g000004 Rmu_sc0001044.1_g000022 Rmu_sc0001211.1_g000100 Rmu_sc0001306.1_g000013 Rmu_sc0001493.1_g000053 Rmu_sc0001605.1_g000001 Rmu_sc0001706.1_g000033 Rmu_sc0001966.1_g000037 Rmu_sc0002080.1_g000051 Rmu_sc0002244.1_g000027 Rmu_sc0002669.1_g000045 Rmu_sc0002806.1_g000013 Rmu_sc0003012.1_g000028 Rmu_sc0003074.1_g000019 Rmu_sc0003180.1_g000020 Rmu_sc0003229.1_g000006 Rmu_sc0003229.1_g000015 Rmu_sc0003267.1_g000017 Rmu_sc0003387.1_g000008 Rmu_sc0004109.1_g000011 Rmu_sc0004483.1_g000021 Rmu_sc0004729.1_g000018 Rmu_sc0005124.1_g000007 Rmu_sc0006187.1_g000007 Rmu_sc0006311.1_g000005 Rmu_sc0006323.1_g000009 Rmu_sc0006619.1_g000003 Rmu_sc0006619.1_g000004 Rmu_sc0007216.1_g000004 Rmu_sc0012033.1_g000003 Rmu_sc0012414.1_g000003 Rmu_sc0013716.1_g000004 Rmu_sc0017020.1_g000002 Rmu_sc0017650.1_g000008 Rmu_sc0022997.1_g000002 Rmu_sc0026059.1_g000001 Rmu_sc0034277.1_g000001 Rmu_sc0038462.1_g000001 Rmu_ssc0000134.1_g000019 Rmu_ssc0000326.1_g000010 Rmu_ssc0000337.1_g000002
rosa_roxburghii Rroxscaffold_153G00436580 Rroxscaffold_1G00005540 Rroxscaffold_1G00007910 Rroxscaffold_1G00020780 Rroxscaffold_1G00024800 Rroxscaffold_1G00028530 Rroxscaffold_1G00035960 Rroxscaffold_1G00060770 Rroxscaffold_1G00063880 Rroxscaffold_1G00072730 Rroxscaffold_2G00090480 Rroxscaffold_2G00098360 Rroxscaffold_2G00098380 Rroxscaffold_2G00098390 Rroxscaffold_2G00098410 Rroxscaffold_2G00098420 Rroxscaffold_2G00099480 Rroxscaffold_2G00122440 Rroxscaffold_2G00130690 Rroxscaffold_2G00132840 Rroxscaffold_3G00259940 Rroxscaffold_3G00262860 Rroxscaffold_3G00262870 Rroxscaffold_3G00262880 Rroxscaffold_3G00262890 Rroxscaffold_4G00296680 Rroxscaffold_4G00315340 Rroxscaffold_5G00341760 Rroxscaffold_5G00350520 Rroxscaffold_5G00365550 Rroxscaffold_5G00367740 Rroxscaffold_5G00375090 Rroxscaffold_5G00377290 Rroxscaffold_6G00400710 Rroxscaffold_6G00402880 Rroxscaffold_6G00418980 Rroxscaffold_6G00419370 Rroxscaffold_6G00430760 Rroxscaffold_7G00161960 Rroxscaffold_7G00166140 Rroxscaffold_7G00175330 Rroxscaffold_7G00206820 Rroxscaffold_7G00212670
rosa_rugosa Rorug01G0429300 Rorug01G0429400 Rorug02G0276300 Rorug02G0362300 Rorug02G0412000 Rorug04G0283500.1 Rorug05G0121800 Rorug05G0138500 Rorug05G0138600 Rorug05G0221000 Rorug05G0556000 Rorug07G0094400 Rorug07G0119200
rosa_samantha Rh1AG022500 Rh1AG214800 Rh1AG295500 Rh1DG290300 Rh2AG469300 Rh2AG469600 Rh2AG469800 Rh2AG470000 Rh2AG472200 Rh2AG472300 Rh2AG472400 Rh2BG358100 Rh2BG456100 Rh2BG481900 Rh2BG482100 Rh2BG482300 Rh2BG482400 Rh2BG484300 Rh2BG484400 Rh2CG255600 Rh2CG455400 Rh2CG455500 Rh2CG455600 Rh2CG455900 Rh2CG456100 Rh2CG458100 Rh2CG458200 Rh2CG458300 Rh2DG466000 Rh2DG490700 Rh2DG490900 Rh2DG491100 Rh2DG491200 Rh2DG493500 Rh2DG493600 Rh4AG091000 Rh4BG347200 Rh4CG082200 Rh4CG099300 Rh5AG230100 Rh5AG230300 Rh5AG302500 Rh5AG302600 Rh5BG214100 Rh5BG231000 Rh5BG231100 Rh5BG310700 Rh5BG543300 Rh5CG238000 Rh5CG259000 Rh5CG259100 Rh5CG566500 Rh5DG027500 Rh5DG218700 Rh5DG236100 Rh5DG236300 Rh6AG285400 Rh6BG286900 Rh6BG376000 Rh6DG235600 Rh6DG280900 Rh6DG368700 Rh6DG423800 Rh7AG106800 Rh7AG226500 Rh7AG227900 Rh7AG228000 Rh7AG229300 Rh7BG097000 Rh7BG121300 Rh7BG129300 Rh7BG130100 Rh7BG222700 Rh7BG225700 Rh7BG225800 Rh7CG111500 Rh7CG131300 Rh7CG131600 Rh7CG131700 Rh7CG132100 Rh7CG132400 Rh7CG132500 Rh7CG132700 Rh7CG132900 Rh7CG221800 Rh7CG242400 Rh7CG242500 Rh7CG243800 Rh7CG244000 Rh7CG365700 Rh7DG109900 Rh7DG110000 Rh7DG129000 Rh7DG130400 Rh7DG236200 Rh7DG236300
rosa_wichuraiana Rw0G001140 Rw0G001660 Rw0G003710 Rw0G003800 Rw0G005640 Rw0G009930 Rw1G005610 Rw1G011690 Rw1G018880 Rw1G026950 Rw1G029360 Rw1G032170 Rw1G035710 Rw2G023950 Rw2G030240 Rw2G038210 Rw2G038490 Rw2G038500 Rw2G054270 Rw3G009830 Rw4G005830 Rw4G006210 Rw4G006690 Rw4G014470 Rw4G015560 Rw4G021550 Rw4G033420 Rw4G034150 Rw5G000890 Rw5G002510 Rw5G002580 Rw5G003440 Rw5G009960 Rw5G024480 Rw5G032910 Rw5G032990 Rw5G035340 Rw5G042620 Rw6G004790 Rw6G012300 Rw6G017050 Rw6G019300 Rw6G026800 Rw6G027320 Rw6G039180 Rw7G010750 Rw7G010920 Rw7G014890 Rw7G016540 Rw7G019730 Rw7G022510 Rw7G023070 Rw7G038740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 129, 138
AcuI CTGAAG 1 cut(s) 85
AjnI CCWGG 2 cut(s) 43, 328
AluBI AGCT 1 cut(s) 221
AluI AGCT 1 cut(s) 221
Alw21I GWGCWC 1 cut(s) 325
AlwNI CAGNNNCTG 1 cut(s) 26
ApeKI GCWGC 1 cut(s) 218
ApoI RAATTY 2 cut(s) 129, 138
ArsI GACNNNNNNTTYG 2 cut(s) 172, 204
AspS9I GGNCC 1 cut(s) 347
AvaII GGWCC 1 cut(s) 347
Bbv12I GWGCWC 1 cut(s) 325
BbvI GCAGC 1 cut(s) 230
BccI CCATC 1 cut(s) 304
BciT130I CCWGG 2 cut(s) 45, 330
BfmI CTRYAG 1 cut(s) 216
BisI GCNGC 1 cut(s) 219
BlsI GCNGC 1 cut(s) 220
Bme1390I CCNGG 2 cut(s) 45, 330
Bme18I GGWCC 1 cut(s) 347
BmgT120I GGNCC 1 cut(s) 347
BmiI GGNNCC 1 cut(s) 88
BmrFI CCNGG 2 cut(s) 45, 330
BmsI GCATC 1 cut(s) 24
BpuEI CTTGAG 1 cut(s) 336
BsaJI CCNNGG 1 cut(s) 343
Bse1I ACTGG 2 cut(s) 20, 268
BseBI CCWGG 2 cut(s) 45, 330
BseDI CCNNGG 1 cut(s) 343
BseGI GGATG 1 cut(s) 292
BseNI ACTGG 2 cut(s) 20, 268
BseRI GAGGAG 1 cut(s) 234
BseXI GCAGC 1 cut(s) 230
BsiHKAI GWGCWC 1 cut(s) 325
BsmI GAATGC 1 cut(s) 244
Bsp1286I GDGCHC 1 cut(s) 325
BspLI GGNNCC 1 cut(s) 88
BspMAI CTGCAG 1 cut(s) 220
BsrI ACTGG 2 cut(s) 20, 268
BssECI CCNNGG 1 cut(s) 343
Bst2UI CCWGG 2 cut(s) 45, 330
BstDSI CCRYGG 1 cut(s) 343
BstF5I GGATG 1 cut(s) 292
BstNI CCWGG 2 cut(s) 45, 330
BstSCI CCNGG 2 cut(s) 43, 328
BstSFI CTRYAG 1 cut(s) 216
BstV1I GCAGC 1 cut(s) 230
BtgI CCRYGG 1 cut(s) 343
BtsCI GGATG 1 cut(s) 292
BtsIMutI CAGTG 1 cut(s) 27
CaiI CAGNNNCTG 1 cut(s) 26
Cfr13I GGNCC 1 cut(s) 347
CviJI RGCY 3 cut(s) 113, 221, 333
CviKI_1 RGCY 3 cut(s) 113, 221, 333
Eco47I GGWCC 1 cut(s) 347
Eco57I CTGAAG 1 cut(s) 85
EcoRII CCWGG 2 cut(s) 43, 328
FaiI YATR 6 cut(s) 41, 117, 196, 213, 258, 260
FauNDI CATATG 1 cut(s) 258
Fnu4HI GCNGC 1 cut(s) 219
FokI GGATG 1 cut(s) 279
Fsp4HI GCNGC 1 cut(s) 219
GluI GCNGC 1 cut(s) 219
Hpy166II GTNNAC 1 cut(s) 347
Hpy188I TCNGA 2 cut(s) 104, 282
Hpy8I GTNNAC 1 cut(s) 347
HpyAV CCTTC 1 cut(s) 132
HpyCH4V TGCA 2 cut(s) 144, 218
LmnI GCTCC 2 cut(s) 247, 328
LpnPI CCDG 8 cut(s) 30, 33, 39, 57, 69, 249, 315, 342
Lsp1109I GCAGC 1 cut(s) 230
LweI GCATC 1 cut(s) 24
MaeIII GTNAC 1 cut(s) 197
MboII GAAGA 2 cut(s) 261, 291
MfeI CAATTG 1 cut(s) 169
MhlI GDGCHC 1 cut(s) 325
MluCI AATT 5 cut(s) 129, 138, 169, 251, 305
MnlI CCTC 5 cut(s) 79, 98, 255, 283, 360
MseI TTAA 2 cut(s) 93, 358
MspR9I CCNGG 2 cut(s) 45, 330
MunI CAATTG 1 cut(s) 169
Mva1269I GAATGC 1 cut(s) 244
MvaI CCWGG 2 cut(s) 45, 330
NdeI CATATG 1 cut(s) 258
NlaIV GGNNCC 1 cut(s) 88
NmuCI GTSAC 1 cut(s) 197
PctI GAATGC 1 cut(s) 244
PkrI GCNGC 1 cut(s) 220
Psp6I CCWGG 2 cut(s) 43, 328
PspGI CCWGG 2 cut(s) 43, 328
PspN4I GGNNCC 1 cut(s) 88
PspPI GGNCC 1 cut(s) 347
PstI CTGCAG 1 cut(s) 220
PstNI CAGNNNCTG 1 cut(s) 26
SaqAI TTAA 2 cut(s) 93, 358
SatI GCNGC 1 cut(s) 219
Sau96I GGNCC 1 cut(s) 347
ScrFI CCNGG 2 cut(s) 45, 330
SduI GDGCHC 1 cut(s) 325
SetI ASST 4 cut(s) 109, 223, 331, 352
SfaNI GCATC 1 cut(s) 24
SfcI CTRYAG 1 cut(s) 216
SinI GGWCC 1 cut(s) 347
SmlI CTYRAG 1 cut(s) 351
SmoI CTYRAG 1 cut(s) 351
Sse9I AATT 5 cut(s) 129, 138, 169, 251, 305
StyD4I CCNGG 2 cut(s) 43, 328
TasI AATT 5 cut(s) 129, 138, 169, 251, 305
Tru1I TTAA 2 cut(s) 93, 358
Tru9I TTAA 2 cut(s) 93, 358
TscAI CASTG 1 cut(s) 27
TseFI GTSAC 1 cut(s) 197
TseI GCWGC 1 cut(s) 218
Tsp45I GTSAC 1 cut(s) 197
TspDTI ATGAA 3 cut(s) 245, 281, 299
TspRI CASTG 1 cut(s) 27
VpaK11BI GGWCC 1 cut(s) 347
XapI RAATTY 2 cut(s) 129, 138
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.