2. Using the unknown sequence provided at the bottom, perform a BLASTX search us
ID: 211583 • Letter: 2
Question
2. Using the unknown sequence provided at the bottom, perform a BLASTX search using “Database” option set to "Reference proteins (refseq_protein)" and “Organism” set to “vertebrates (taxid:7742):
Keep all other settings and parameters at the default value.
2.a. How many Blast Hits do you get for the sequence?
Answer =
2.b. What non-PREDICTED hit is the sequence most similar to? Provide the Sequence Accession as your answer.
Answer =
2.c. What is the source organism for this hit?
Answer =
2.d What is the E-value for this hit?
Answer =
2.e. What is the Max identity for this hit?
Answer =
2.f. When you inspect the alignment for this hit, what is the Length of the amino acid sequence hit?
Answer =
2.g. When you inspect the alignment for this hit, what is the Frame the query sequence was translated in?
Answer =
2.h. When you inspect the alignment for this hit, what positions of the translated “Query” sequence align to the “Subject” (i.e., hit) sequence?
Answer =
2.i. When you inspect the alignment for this hit, what positions of the “Subject” (i.e., hit) sequence are aligned to by the translated “Query” sequence?
Answer =
2.j. When you inspect the alignment for this hit, what is the % Gap listed?
Answer =
2.k. When you inspect alignments for the other hits returned from the BLASTX search, is the translation Frame consistently the same as your answer to 2.g. or different?
Answer =
2.l. From your answer to 2.k., what then is the most likely translation Frame for the unknown query sequence that produces a functional protein?
Answer =
2.m. When you inspect the BLASTX search results from your answer to 2.a., what is the most likely protein that the query sequence produces?
Answer =
>Unknown_Sequence
GATATTCACATGATCGCAAATGACCCGCGGCTCCGGCGGCAGCGTCTCAAGCGCCCTCCGCCCGCTCGCAGCAGCAGTAAGTGTGCACGACTGTGCAAGTGTGAGAGCATCATGGTAGCATTCAAAGGAGTCTGGACTCATCCCTTCTGGAAAGCCGTTTCAGCAGAATTTTTGGTCATGTTGATTTTTGTCCTCCTCAGCCTTGGCTCTACGATCAACTGGGGTGGATCAGAGAAGCCACTGCCCGTAGACATGGTCCTTATCTCTCTCTGCTTTGGACTGAGCATTGCAACCATGGTGCAGTGCTTTGGACACATCAGCGGTGGCCACATCAACCCTGCTGTGACTGTGGCCATGGTCTGCACAAGAAAGATCAGCCTCGCCAAATCGGTCTTCTACATTCTTGCCCAGTGCCTGGGAGCCATCGTGGGAGCTGGCATCCTCTACCTCATCACACCACCGAGTGTGGTGGGAGGCCTGGGAGTCACTGCGGTACACGGGGATCTTTCCGCTGGCCATGGACTCCTGGTGGAGCTGATAATTACATTTCAGCTGGTTTTTACTATTTTTGCCAGCTGTGATTCAAAACGAAGTGATGTCACTGGTTCAGTAGCTCTAGCAATTGGATTTTCTGTTGCAATTGGACATTTATTTGCTATCAATTACACTGGTGCCAGTATGAACCCTGCTCGCTCATTTGGACCTGCTGTCATCATGGGAAAATGGGAAAACCAATGGGTTTATTGGGTGGGGCCAATAATAGGAGCAGTCCTTGCTGGTGCTCTTTATGAGTATGTCTATTGCCCAGACGTGGAGCTCAAACGCCGTTTTAAAGATGTCTTCAGTAAAGCTACTCAGCCATCCAAAGGGAAGTACATAGAAGTGGATGACACCAGGAGCCACGTAGAGACCGATGACCTGATCCTGAAGCCTGGCATTGTCCACGTGATTGATATTGACAGGAGTGAGGACAAGAAGGGAAGAGATCCATCAAGTGAGGTGCTGTCTTCTGTATGACTAGCAAGGAGCACTGAAAGCAGAGAGCAGCCTGCCAGCGACTCCACAGATATCCTTCCACCTATCAAACAGAGAGCAGCCTGCCAGCGACTCCACAGATATCCTTCCACCTATCAAAGAAACAGATCTCCTCTAAACAGAGCATCTATCATTTCTTAAAAAGTGTGGTGAAGGCAGCTGTGTGGTAGTGGCATCACCAAACCATACATCTGCTCAGCTGGAATATTAGGACTTCATTATAATTAGGATTCCCCACGAATTATTCTAAATTTGGAGGTGTTCCTGCAATTTTCCTTCCTTTCTTTCTGGAACAACCCCAAAGTCAAAAAGAGATGAAAGCACTCTTCTTTAATAAATCAGTCAATAATGAGATGAAGATAGAGCTGTTTAACATTCAGATTGACAGATAAGATGTATCAGGAAATGCCTATAGACATGAAGACCTACTTATCAGATTGTTCTTCTGACACTTAATTGACTGTTGTCATCTTTGATTAGAACATCTTATCCATTAAGCATTCTCTGTGAGGTTCAGGGACAGCACCAACAGTATTTAACAGTTTTATCCAAAGTCAAGCAATGGAGTATTGTTTCCACTTCACGTATGTCACTACTACCTTGCAAACTACCTCTGAAATAAATGATATTTTAATAGGCTCCAGAAAAAAATTCGATCAACCCATCAAATTTCACTCATACGATTTTCTGTATAAATGTATTACCTTCATCTCTTCCCAGGAGTAAATATGCTGAAATTGAATATTGAAGTCTACCGTAATAAGGCTGCAAAGCATTTAACTGTACTTCATGCTCACTTTTGACATTGTCTATCTGGTGAAACATTCTCCTGGGGTTTGACTATTGACCATTTCATGTTAGCAGACTCTCAAGGTCACG
Choose Search Set Database 1 Reference proteins (retseq-protein) Organisnm Optional vertebrates (taxid:7742) Exclude +Explanation / Answer
Just open the NCBI
on the home page of NCBI, there will be a list of tools on right side,
from that list, you have to selct the BLAST, aftet selecting that, the BLAST window will open,
In that window, you have to Select the BLAST X which will be writtern in the aero from left to right.
After selecting that, there will be a window of BLAST X
Now here you can copy and paste your sequence and as you said, under that sequence there will be a many options available. from them all, there will be a first and second options are DATABASE and ORGANISM respectively. You have to select the (refseq_protein), and in Organism section, you have to write vertebrates so there will be a suggestions with taxid id, so select the organism with taxid id 7742.
now go to at the end and select tje BLAST
it will take prosess of 5 to 15 min, till the final result window generates, do not refresh or back button.
then there will be a result window, and you will have your all answers at there...
some of them, i giving here...
2.a. How many Blast Hits do you get for the sequence?
Answer = 101
2.b. What non-PREDICTED hit is the sequence most similar to? Provide the Sequence Accession as your answer.
Answer = Sequence ID: NP_001304756.1
2.c. What is the source organism for this hit?
Answer = Gallus gallus
2.d What is the E-value for this hit?
Answer = 0.0
2.e. What is the Max identity for this hit?
Answer = 99%
2.f. When you inspect the alignment for this hit, what is the Length of the amino acid sequence hit?
Answer = 360
2.g. When you inspect the alignment for this hit, what is the Frame the query sequence was translated in?
Answer = +1 and +2
2.h. When you inspect the alignment for this hit, what positions of the translated “Query” sequence align to the “Subject” (i.e., hit) sequence?
Answer = 10 to 1089 Nulceotide
2.i. When you inspect the alignment for this hit, what positions of the “Subject” (i.e., hit) sequence are aligned to by the translated “Query” sequence?
Answer = 1st amino acid to 10th Nucleotide - 360th amini acid to 1089th Nucleotide
2.j. When you inspect the alignment for this hit, what is the % Gap listed?
Answer = 0%
2.k. When you inspect alignments for the other hits returned from the BLASTX search, is the translation Frame consistently the same as your answer to 2.g. or different?
Answer = same
2.l. From your answer to 2.k., what then is the most likely translation Frame for the unknown query sequence that produces a functional protein?
Answer = frame +1
2.m. When you inspect the BLASTX search results from your answer to 2.a., what is the most likely protein that the query sequence produces?
Answer = aquaporin-4 protein
you will get these all answers from that results windows too.
Related Questions
drjack9650@gmail.com
Navigate
Integrity-first tutoring: explanations and feedback only — we do not complete graded work. Learn more.