pycom07g08290

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr7
OG0018346
Physical Location & Seq
Reverse (-)
7685653 .. 7688904
3252 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom07g08290.1

Sequence Viewer

Length: 1134 bp
ATGTTACTTTGTTGCCAAGAAACACATAATGCAGCCTTTCTAGAAGATCAAGATGTTTCAGATTTGTCAAGGGAACATTTTGTGTTTGAAGAGATGCATCAGATTCGTGAAAACCCTGTAACAATGAATTACACTCAGGTTCCATTATTTCCTCAACAATTGTCCCCTGCAATTGAAGATTTAAGTGAAGAATTAGGAGCTCATATTGATAACATTATAGAGGTTGACCAATTAACACAACCTACAACATCAATTGCCTTTTCAGAACCACAAATACCAGTTGATGTTCCACCTCCAATTGAACCAAGAGAATCTATAAGAGCTCGAAAATCTACTGCAGTCAGTGACTGTGTACAAGAAAGTGAGTTTGATATAGGCGACATTGATGACCTTTTTACATACACTCAGGCGATTGAAAGTCCTCAATCAGTTTTATGGCACAATGCTATGAAGGATGAGTTAGAATCAATGTTCAAGAATCAAGTTTGTACATTGGTGGAATCAAATTTTGAAATTAGGCCAATAGGTTGCAAGTGGGTGTATAAAACAAAAAGGGATGCTAATGGTAGAATTGAGAGATTTAAAGCAAGTTTGGTTGCTAAAGGGTTCACTCAAAGAGAGGGAATCGATTACAATGATACTTTCTCTCCAATTTCCTCTAAAGATTCCATGAGTAATTCTTTGGAACTTATGGGATACACTGACTCGGATTTGGCTAGAGATGTGGATGACAGAAAGTTAACAGGAGGTTATAACTTCATGCTCAATGGAGGGATAATTTCATGGAAAAGTGAAAAACAAACTATGATTGCTACATCCACTATGGAGGCTGAATTTCCTGTAAAGATGTTTTGTGACAACAACTTTGCTGTATTCTTTGCCAAGAATAATAGGCGCACTTCAGCTTCAAGGTTGATGGATGTGAAATTTCTTAAAGTTAGAGAACAGTGGCTTCTCCTCTTACAGGGTTACGCTCTTTTAGTACTAAGCCCTATTCTTAGTTTGAGCAATAAGCATCCTGACAGAGAGAAGAAGAGCTGCTACGCACTCAGGTTAATCATAAACAACCATGTCTGCAGCCAATGGAAGTTCTTCAGATGTTTAATGGCCCTCGCGATGGACAACTACTATTGA
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

378

Amino Acids

43.26

Weight (kDa)

5.01

Isoelectric Point (pI)

52.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 160 - 224 8.1e-14 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
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Orthologous Genes (Group: OG0018346)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g09832
malus_domestica MD17G1125600.v1.1
pyrus_communis pycom07g08290 pycom08g03650 pycom10g05700 pycom13g21050 pycom17g16760
rosa_wichuraiana Rw1G014600 Rw4G005310 Rw4G016610

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 753
AccII CGCG 1 cut(s) 1115
AcsI RAATTY 3 cut(s) 505, 833, 926
AcuI CTGAAG 2 cut(s) 885, 1078
AfaI GTAC 3 cut(s) 354, 490, 984
AfiI CCNNNNNNNGG 2 cut(s) 964, 1117
AgsI TTSAA 7 cut(s) 89, 176, 302, 416, 475, 512, 909
AluBI AGCT 4 cut(s) 200, 323, 905, 1038
AluI AGCT 4 cut(s) 200, 323, 905, 1038
Alw21I GWGCWC 2 cut(s) 202, 325
AlwNI CAGNNNCTG 1 cut(s) 348
AoxI GGCC 2 cut(s) 518, 1107
ApeKI GCWGC 3 cut(s) 32, 1038, 1077
ApoI RAATTY 3 cut(s) 505, 833, 926
ArsI GACNNNNNNTTYG 2 cut(s) 848, 880
Asp700I GAANNNNTTC 1 cut(s) 1091
AspLEI GCGC 1 cut(s) 897
AspS9I GGNCC 1 cut(s) 1108
BanII GRGCYC 2 cut(s) 202, 325
BarI GAAGNNNNNNTAC 2 cut(s) 1025, 1057
Bbv12I GWGCWC 2 cut(s) 202, 325
BbvI GCAGC 3 cut(s) 44, 1025, 1089
BccI CCATC 2 cut(s) 910, 1111
BcgI CGANNNNNNTGC 2 cut(s) 86, 120
BciVI GTATCC 1 cut(s) 689
BfaI CTAG 2 cut(s) 41, 717
BfmI CTRYAG 2 cut(s) 336, 1075
BfuI GTATCC 1 cut(s) 689
BisI GCNGC 3 cut(s) 33, 1039, 1078
BlsI GCNGC 3 cut(s) 34, 1040, 1079
BmcAI AGTACT 1 cut(s) 984
BmgT120I GGNCC 1 cut(s) 1108
BmiI GGNNCC 1 cut(s) 141
BmsI GCATC 4 cut(s) 84, 106, 547, 1024
Bsa29I ATCGAT 1 cut(s) 627
BsaXI ACNNNNNCTCC 2 cut(s) 631, 661
Bsc4I CCNNNNNNNGG 2 cut(s) 964, 1117
Bse1I ACTGG 1 cut(s) 278
BseCI ATCGAT 1 cut(s) 627
BseGI GGATG 6 cut(s) 460, 562, 733, 815, 925, 1015
BseLI CCNNNNNNNGG 2 cut(s) 964, 1117
BseMII CTCAG 3 cut(s) 149, 419, 1063
BseNI ACTGG 1 cut(s) 278
BseRI GAGGAG 1 cut(s) 947
BseXI GCAGC 3 cut(s) 44, 1025, 1089
Bsh1236I CGCG 1 cut(s) 1115
BshFI GGCC 2 cut(s) 520, 1109
BshVI ATCGAT 1 cut(s) 627
BsiHKAI GWGCWC 2 cut(s) 202, 325
BslFI GGGAC 1 cut(s) 148
BslI CCNNNNNNNGG 2 cut(s) 964, 1117
BsmFI GGGAC 1 cut(s) 148
BsnI GGCC 2 cut(s) 520, 1109
Bsp1286I GDGCHC 2 cut(s) 202, 325
Bsp1407I TGTACA 2 cut(s) 352, 488
Bsp143I GATC 1 cut(s) 46
Bsp68I TCGCGA 1 cut(s) 1115
BspANI GGCC 2 cut(s) 520, 1109
BspCNI CTCAG 3 cut(s) 148, 418, 1062
BspDI ATCGAT 1 cut(s) 627
BspFNI CGCG 1 cut(s) 1115
BspLI GGNNCC 1 cut(s) 141
BspMAI CTGCAG 2 cut(s) 340, 1079
BspQI GCTCTTC 1 cut(s) 1028
BsrGI TGTACA 2 cut(s) 352, 488
BsrI ACTGG 1 cut(s) 278
BssMI GATC 1 cut(s) 46
Bst4CI ACNGT 2 cut(s) 350, 948
Bst6I CTCTTC 2 cut(s) 84, 1028
BstAUI TGTACA 2 cut(s) 352, 488
BstDEI CTNAG 5 cut(s) 135, 405, 986, 998, 1049
BstENI CCTNNNNNAGG 1 cut(s) 962
BstF5I GGATG 6 cut(s) 460, 562, 733, 815, 925, 1015
BstFNI CGCG 1 cut(s) 1115
BstHHI GCGC 1 cut(s) 897
BstKTI GATC 1 cut(s) 49
BstMBI GATC 1 cut(s) 46
BstSFI CTRYAG 2 cut(s) 336, 1075
BstUI CGCG 1 cut(s) 1115
BstV1I GCAGC 3 cut(s) 44, 1025, 1089
Bsu15I ATCGAT 1 cut(s) 627
BsuI GTATCC 1 cut(s) 689
BsuRI GGCC 2 cut(s) 520, 1109
BsuTUI ATCGAT 1 cut(s) 627
BtgZI GCGATG 1 cut(s) 1130
BtsCI GGATG 6 cut(s) 460, 562, 733, 815, 925, 1015
BtsIMutI CAGTG 3 cut(s) 349, 699, 953
BtuMI TCGCGA 1 cut(s) 1115
CaiI CAGNNNCTG 1 cut(s) 348
CfoI GCGC 1 cut(s) 897
Cfr13I GGNCC 1 cut(s) 1108
ClaI ATCGAT 1 cut(s) 627
Csp6I GTAC 3 cut(s) 353, 489, 983
CviAII CATG 4 cut(s) 670, 760, 783, 1070
CviQI GTAC 3 cut(s) 353, 489, 983
DdeI CTNAG 5 cut(s) 135, 405, 986, 998, 1049
DpnI GATC 1 cut(s) 48
DpnII GATC 1 cut(s) 46
DraI TTTAAA 1 cut(s) 583
Eam1104I CTCTTC 2 cut(s) 84, 1028
EarI CTCTTC 2 cut(s) 84, 1028
Ecl136II GAGCTC 2 cut(s) 200, 323
Eco24I GRGCYC 2 cut(s) 202, 325
Eco53kI GAGCTC 2 cut(s) 200, 323
Eco57I CTGAAG 2 cut(s) 885, 1078
EcoICRI GAGCTC 2 cut(s) 200, 323
EcoNI CCTNNNNNAGG 1 cut(s) 962
EcoT22I ATGCAT 1 cut(s) 99
EcoT38I GRGCYC 2 cut(s) 202, 325
FaeI CATG 4 cut(s) 673, 763, 786, 1073
FaqI GGGAC 1 cut(s) 148
FatI CATG 4 cut(s) 669, 759, 782, 1069
Fnu4HI GCNGC 3 cut(s) 33, 1039, 1078
FokI GGATG 6 cut(s) 467, 569, 740, 802, 932, 1002
FriOI GRGCYC 2 cut(s) 202, 325
Fsp4HI GCNGC 3 cut(s) 33, 1039, 1078
FspBI CTAG 2 cut(s) 41, 717
GlaI GCGC 1 cut(s) 896
GluI GCNGC 3 cut(s) 33, 1039, 1078
HaeIII GGCC 2 cut(s) 520, 1109
HhaI GCGC 1 cut(s) 897
Hin1II CATG 4 cut(s) 673, 763, 786, 1073
Hin6I GCGC 1 cut(s) 895
HinP1I GCGC 1 cut(s) 895
HincII GTYRAC 2 cut(s) 226, 741
HindII GTYRAC 2 cut(s) 226, 741
HinfI GANTC 8 cut(s) 103, 311, 464, 478, 500, 624, 665, 704
HpaI GTTAAC 1 cut(s) 741
Hpy166II GTNNAC 4 cut(s) 226, 353, 609, 741
Hpy188I TCNGA 5 cut(s) 61, 102, 265, 709, 1097
Hpy188III TCNNGA 6 cut(s) 41, 50, 107, 475, 1019, 1114
Hpy8I GTNNAC 4 cut(s) 226, 353, 609, 741
HpyAV CCTTC 1 cut(s) 445
HpyCH4III ACNGT 2 cut(s) 350, 948
HpyCH4V TGCA 6 cut(s) 32, 97, 170, 338, 531, 1077
HpyF3I CTNAG 5 cut(s) 135, 405, 986, 998, 1049
Hsp92II CATG 4 cut(s) 673, 763, 786, 1073
HspAI GCGC 1 cut(s) 895
KspAI GTTAAC 1 cut(s) 741
Kzo9I GATC 1 cut(s) 46
LguI GCTCTTC 1 cut(s) 1028
LmnI GCTCC 1 cut(s) 197
Lsp1109I GCAGC 3 cut(s) 44, 1025, 1089
LweI GCATC 4 cut(s) 84, 106, 547, 1024
MaeI CTAG 2 cut(s) 41, 717
MaeIII GTNAC 5 cut(s) 3, 118, 344, 854, 968
MalI GATC 1 cut(s) 48
MboI GATC 1 cut(s) 46
MboII GAAGA 7 cut(s) 56, 101, 188, 200, 1042, 1045, 1084
MfeI CAATTG 4 cut(s) 158, 171, 252, 297
MhlI GDGCHC 2 cut(s) 202, 325
MlyI GAGTC 1 cut(s) 698
Mph1103I ATGCAT 1 cut(s) 99
MroXI GAANNNNTTC 1 cut(s) 1091
MseI TTAA 7 cut(s) 182, 233, 582, 740, 933, 1055, 1103
MunI CAATTG 4 cut(s) 158, 171, 252, 297
MvnI CGCG 1 cut(s) 1115
NdeII GATC 1 cut(s) 46
NlaIII CATG 4 cut(s) 673, 763, 786, 1073
NlaIV GGNNCC 1 cut(s) 141
NmuCI GTSAC 2 cut(s) 344, 854
NruI TCGCGA 1 cut(s) 1115
NsiI ATGCAT 1 cut(s) 99
PciSI GCTCTTC 1 cut(s) 1028
PdmI GAANNNNTTC 1 cut(s) 1091
PfeI GAWTC 7 cut(s) 103, 311, 464, 478, 500, 624, 665
PkrI GCNGC 3 cut(s) 34, 1040, 1079
PleI GAGTC 1 cut(s) 698
PpsI GAGTC 1 cut(s) 698
PsiI TTATAA 1 cut(s) 753
Psp124BI GAGCTC 2 cut(s) 202, 325
PspN4I GGNNCC 1 cut(s) 141
PspPI GGNCC 1 cut(s) 1108
PsrI GAACNNNNNNTAC 2 cut(s) 258, 290
PstI CTGCAG 2 cut(s) 340, 1079
PstNI CAGNNNCTG 1 cut(s) 348
RruI TCGCGA 1 cut(s) 1115
RsaI GTAC 3 cut(s) 354, 490, 984
RsaNI GTAC 3 cut(s) 353, 489, 983
SacI GAGCTC 2 cut(s) 202, 325
SapI GCTCTTC 1 cut(s) 1028
SaqAI TTAA 7 cut(s) 182, 233, 582, 740, 933, 1055, 1103
SatI GCNGC 3 cut(s) 33, 1039, 1078
Sau3AI GATC 1 cut(s) 46
Sau96I GGNCC 1 cut(s) 1108
ScaI AGTACT 1 cut(s) 984
SchI GAGTC 1 cut(s) 698
SduI GDGCHC 2 cut(s) 202, 325
SfaNI GCATC 4 cut(s) 84, 106, 547, 1024
SfcI CTRYAG 2 cut(s) 336, 1075
SspMI CTAG 2 cut(s) 41, 717
SstI GAGCTC 2 cut(s) 202, 325
TaaI ACNGT 2 cut(s) 350, 948
TaqI TCGA 2 cut(s) 325, 627
TatI WGTACW 3 cut(s) 352, 488, 982
TfiI GAWTC 7 cut(s) 103, 311, 464, 478, 500, 624, 665
Tru1I TTAA 7 cut(s) 182, 233, 582, 740, 933, 1055, 1103
Tru9I TTAA 7 cut(s) 182, 233, 582, 740, 933, 1055, 1103
TscAI CASTG 3 cut(s) 349, 706, 953
TseFI GTSAC 2 cut(s) 344, 854
TseI GCWGC 3 cut(s) 32, 1038, 1077
Tsp45I GTSAC 2 cut(s) 344, 854
TspDTI ATGAA 4 cut(s) 140, 464, 748, 771
TspRI CASTG 3 cut(s) 349, 706, 953
XagI CCTNNNNNAGG 1 cut(s) 962
XapI RAATTY 3 cut(s) 505, 833, 926
XbaI TCTAGA 1 cut(s) 40
XmnI GAANNNNTTC 1 cut(s) 1091
XspI CTAG 2 cut(s) 41, 717
ZrmI AGTACT 1 cut(s) 984
Zsp2I ATGCAT 1 cut(s) 99
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.