Source:
Generated By: https://synbiohub.org/public/igem/igem2sbol/1
Created by: James DiCarlo
Date created: 2009-10-20 11:00:00
Date modified: 2015-05-08 01:11:47
3L.3_23.A2
| Types | DnaRegion |
| Roles | engineered_region Composite |
| Sequences | BBa_K277135_sequence (Version 1) |
Description
3L.3_23.A2 was designed as a piece of synthetic chromosome 3 with the goal of minimizing and stabilizing that chromosome and to that end has had any tRNAs, introns,repeat regions, and transposons that were present in the wildtype chromosome removed. In addition a very few gene sequences were slightly recoded to add or remove restriction enzyme recognition sites to facilitate assembly; most gene sequences were slightly recoded to introduce unique primers for diagnostic PCR amplification, and some gene sequences were slightly recoded to address the distribution of stop codon usage. 3L.3_23.A2 is comprised of and must be constructed from the parts 3L.3_23.A2.01, 3L.3_23.A2.02, 3L.3_23.A2.03, 3L.3_23.A2.04, 3L.3_23.A2.05, 3L.3_23.A2.06, 3L.3_23.A2.07, 3L.3_23.A2.08, 3L.3_23.A2.09, 3L.3_23.A2.10, 3L.3_23.A2.11, 3L.3_23.A2.12, 3L.3_23.A2.13, and 3L.3_23.A2.14.This part wholly contains the following features (positions offset from first base of sequence):
kind and name offset notes
reverse_primer YCL057W_tagr1v1 (6353..6380)
loxP_site loxPsym_YCL057W (8175..8208)
forward_primer YCL059C_tagf1v1 (3862..3889)
forward_primer YCL057W_tagf1v1 (6158..6185)
reverse_primer YCL055W_tagr1v1 (9956..9983)
gene YCL056C (8224..8658) Protein of unknown function%3B green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
loxP_site loxPsym_YCL055W (10239..10272)
gene YCL059C (3694..4644) Essential nucleolar protein required for the synthesis of 18S rRNA and for the assembly of 40S ribosomal subunit
mutation_affecting_coding_sequence YCL057W_re_remove_AlwNI (6474..6485) removal of AlwNI
mutation_affecting_coding_sequence YCL061C_re_remove_AlwNI (1548..1559) removal of AlwNI
reverse_primer YCL061C_tagr3v1 (3219..3246)
gene YCL058W-A (4849..5190) Protein of unknown function%3B identified by homology to Ashbya gossypii
reverse_primer YCL061C_tagr2v1 (2808..2835)
reverse_primer YCL061C_tagr1v1 (2601..2628)
reverse_primer YCL057W_tagr2v1 (7577..7604)
forward_primer YCL061C_tagf3v1 (2991..3018)
loxP_site loxPsym_YCL061C (44..77)
gene YCL055W (9228..10235) Transcription factor required for induction of KAR3 and CIK1 during mating%2C also required during meiosis%3B exists in two forms%2C a slower-migrating form more abundant during vegetative growth and a faster-migrating form induced by pheromone
forward_primer YCL057W_tagf2v1 (7181..7208)
gene YCL057W (6033..8171) Zinc metalloendopeptidase%2C found in the cytoplasm and intermembrane space of mitochondria%3B with Cym1p%2C involved in degradation of mitochondrial proteins and of presequence peptides cleaved from imported proteins
gene YCL061C (81..3371) S-phase checkpoint protein found at replication forks%2C required for DNA replication%3B also required for Rad53p activation during DNA replication stress%2C where it forms a replication-pausing complex with Tof1p and is phosphorylated by Mec1p%3B protein involved in replication checkpoint
forward_primer YCL061C_tagf1v1 (2208..2235)
mutation_affecting_coding_sequence YCL058C_stop_recode_overlap_from_YCL058W-A (5190..5190) Overlaps stop codon change in YCL058W-A
gene YCL057C-A (5297..5590) Hypothetical protein%2C has similarity to proteins in S. pombe%2C C. elegans%2C D. melanogaster.
forward_primer YCL055W_tagf1v1 (9500..9527)
reverse_primer YCL059C_tagr1v1 (4312..4336)
gene YCL058C (4788..5246) Protein of unknown function%2C required for survival upon exposure to K1 killer toxin%3B involved in ion homeostasis
forward_primer YCL061C_tagf2v1 (2337..2364)
Sequence (corresponding to coordinates 8871..19174 in synthetic chromosome yeast_chr3_3_23)
Notes
Constructed using USER assembly method described in RFC38Source
Synthetic Yeast| Access | Instance | Definition |
| public public public public public public public public public public public public public public | BBa_K277013 BBa_K277014 BBa_K277015 BBa_K277016 BBa_K277017 BBa_K277018 BBa_K277019 BBa_K277020 BBa_K277021 BBa_K277022 BBa_K277023 BBa_K277024 BBa_K277025 BBa_K277026 | BBa_K277013 BBa_K277014 BBa_K277015 BBa_K277016 BBa_K277017 BBa_K277018 BBa_K277019 BBa_K277020 BBa_K277021 BBa_K277022 BBa_K277023 BBa_K277024 BBa_K277025 BBa_K277026 |