pycom10g05700

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr10
OG0018346
Physical Location & Seq
Forward (+)
6166574 .. 6166984
411 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom10g05700.1

Sequence Viewer

Length: 411 bp
ATGAAGGTTGACCAATTAACACAGCCTGCAACATCAATTCCCTTTTCAGAACCACAAGTACCAATTGATGCTCCACCTCCAATTGAACTAAGAAAATCTACAAGAGCTCGAAAATCTACTGCAATCAGTGACTGTGTGTACTTACAAGAAAGTAAGTTTGATATAGGTGACATTGATGACCCTCTTACATACACTCAGGCAATTGAAAGTCCTCAATCAGTTCTATGGCACAAGGCTATGAAGGATGAGTTAGATTCAATGTTCAAGAATCAAGTTTGGACATTGGTGGAATCAAATTATGGAATTAGGCCAATAGGTTGCAATTGGGTGTGTAAAACAAAAAGGGATGCTCATGGTAGAATTGAGAGATATAAAGCAAGGTTGGTTGCTAAAGGGTTCGCTCAGAGATAG
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

137

Amino Acids

15.51

Weight (kDa)

8.79

Isoelectric Point (pI)

48.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 90 - 136 1.3e-09 Reverse transcriptase (RNA-dependent DNA polymerase)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

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)
AfaI GTAC 2 cut(s) 60, 140
AgsI TTSAA 4 cut(s) 86, 206, 258, 265
AluBI AGCT 1 cut(s) 107
AluI AGCT 1 cut(s) 107
Alw21I GWGCWC 1 cut(s) 109
AlwNI CAGNNNCTG 1 cut(s) 132
AoxI GGCC 1 cut(s) 308
AsuHPI GGTGA 1 cut(s) 179
BanII GRGCYC 1 cut(s) 109
Bbv12I GWGCWC 1 cut(s) 109
BmsI GCATC 2 cut(s) 58, 337
BseGI GGATG 2 cut(s) 250, 352
BseMII CTCAG 1 cut(s) 209
BshFI GGCC 1 cut(s) 310
BsiHKAI GWGCWC 1 cut(s) 109
BsnI GGCC 1 cut(s) 310
Bsp1286I GDGCHC 1 cut(s) 109
BspANI GGCC 1 cut(s) 310
BspCNI CTCAG 1 cut(s) 208
Bst4CI ACNGT 1 cut(s) 134
BstC8I GCNNGC 1 cut(s) 27
BstDEI CTNAG 3 cut(s) 89, 195, 402
BstF5I GGATG 2 cut(s) 250, 352
BsuRI GGCC 1 cut(s) 310
BtsCI GGATG 2 cut(s) 250, 352
BtsIMutI CAGTG 1 cut(s) 133
Cac8I GCNNGC 1 cut(s) 27
CaiI CAGNNNCTG 1 cut(s) 132
Csp6I GTAC 2 cut(s) 59, 139
CviAII CATG 1 cut(s) 353
CviJI RGCY 4 cut(s) 25, 107, 236, 310
CviKI_1 RGCY 4 cut(s) 25, 107, 236, 310
CviQI GTAC 2 cut(s) 59, 139
DdeI CTNAG 3 cut(s) 89, 195, 402
Ecl136II GAGCTC 1 cut(s) 107
Eco24I GRGCYC 1 cut(s) 109
Eco53kI GAGCTC 1 cut(s) 107
EcoICRI GAGCTC 1 cut(s) 107
EcoT38I GRGCYC 1 cut(s) 109
FaeI CATG 1 cut(s) 356
FaiI YATR 7 cut(s) 164, 190, 226, 239, 300, 354, 372
FatI CATG 1 cut(s) 352
FokI GGATG 2 cut(s) 257, 359
FriOI GRGCYC 1 cut(s) 109
HaeIII GGCC 1 cut(s) 310
Hin1II CATG 1 cut(s) 356
HincII GTYRAC 1 cut(s) 10
HindII GTYRAC 1 cut(s) 10
HinfI GANTC 3 cut(s) 254, 268, 290
HphI GGTGA 1 cut(s) 179
Hpy166II GTNNAC 2 cut(s) 10, 139
Hpy188I TCNGA 2 cut(s) 49, 405
Hpy188III TCNNGA 1 cut(s) 265
Hpy8I GTNNAC 2 cut(s) 10, 139
HpyAV CCTTC 1 cut(s) 235
HpyCH4III ACNGT 1 cut(s) 134
HpyCH4V TGCA 3 cut(s) 29, 122, 321
HpyF3I CTNAG 3 cut(s) 89, 195, 402
Hsp92II CATG 1 cut(s) 356
LmnI GCTCC 1 cut(s) 76
LpnPI CCDG 2 cut(s) 39, 182
LweI GCATC 2 cut(s) 58, 337
MaeIII GTNAC 2 cut(s) 128, 167
MfeI CAATTG 4 cut(s) 63, 81, 201, 322
MhlI GDGCHC 1 cut(s) 109
MluCI AATT 9 cut(s) 14, 36, 63, 81, 201, 295, 303, 322, 360
MnlI CCTC 3 cut(s) 87, 192, 222
MseI TTAA 1 cut(s) 17
MunI CAATTG 4 cut(s) 63, 81, 201, 322
NlaIII CATG 1 cut(s) 356
NmuCI GTSAC 2 cut(s) 128, 167
PfeI GAWTC 3 cut(s) 254, 268, 290
Psp124BI GAGCTC 1 cut(s) 109
PsrI GAACNNNNNNTAC 2 cut(s) 42, 74
PstNI CAGNNNCTG 1 cut(s) 132
RsaI GTAC 2 cut(s) 60, 140
RsaNI GTAC 2 cut(s) 59, 139
SacI GAGCTC 1 cut(s) 109
SaqAI TTAA 1 cut(s) 17
SduI GDGCHC 1 cut(s) 109
SetI ASST 6 cut(s) 9, 79, 109, 169, 319, 383
SfaNI GCATC 2 cut(s) 58, 337
Sse9I AATT 9 cut(s) 14, 36, 63, 81, 201, 295, 303, 322, 360
SstI GAGCTC 1 cut(s) 109
TaaI ACNGT 1 cut(s) 134
TaqI TCGA 1 cut(s) 109
TasI AATT 9 cut(s) 14, 36, 63, 81, 201, 295, 303, 322, 360
TatI WGTACW 1 cut(s) 138
TfiI GAWTC 3 cut(s) 254, 268, 290
Tru1I TTAA 1 cut(s) 17
Tru9I TTAA 1 cut(s) 17
TscAI CASTG 1 cut(s) 133
TseFI GTSAC 2 cut(s) 128, 167
Tsp45I GTSAC 2 cut(s) 128, 167
TspDTI ATGAA 2 cut(s) 17, 254
TspRI CASTG 1 cut(s) 133
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.