Question

Hey guys, I want to compare the hepatic growth factor receptor sequences between mus musculus and Homo sapiens. I tried using BLAST and GenBank but idk what i'm doing lol

Can anyone offer some insight?

Answer 1

@shrutipande9 have you aligned/compared DNA sequences of proteins from different organisms using software?

Answer 2

@Frostbite

Answer 3

i have never done that..but...lets see if frosty knows something

Answer 4

k thanks!

Answer 5

As a matter of fact. I do! but let me just fresh my memory.

Answer 6

refresh*

Answer 7

Done a sequence alignment?

Answer 8

sweet!

so i looked up the sequences, and put them up on the search box.

this is what i got http://blast.ncbi.nlm.nih.gov/Blast.cgi#alnHdr_194267

idk if you'll be able to see it

Answer 9

you wont be able to see it

Answer 10

screen shot?

Answer 11

so i went there, did nucleotide BLAST.

on the next page i clicked on compare two sequences

then i copied and pasted the sequences in FASTA format

Answer 12

not sure which part i should screen shot, the whole page has info and it's long.

i can post the sequences here, you can copy and paste them?

Answer 13

Would be nice then I try do some magic with it. Just need to refresh some of my memories about this.

Answer 14

sweet. i'm just not sure what the results really mean

Answer 15

.... O_O Now I wish I had the 1 letter protein code :P
Thanks I try work a little with it.

Answer 16

haha i shall find the protein code instead

Answer 17

hold on

Answer 18

No keep the nucleotide code.

Answer 19

It is more accurate.

Answer 20

Due to multiple codons coding for the same amino acid :)

Answer 21

haha okay, i'm more interested in the protein though

im gonna buy an aptamer for the human receptor and i wanna know if it works on the mouse one.

Answer 22

i'm actually gonna try the RCSB protein data bank first

Answer 23

RCSB protein data bank is mostly structure remember that :s

Answer 24

that's kinda what i'm going after though, ultimately

Answer 25

Ah. btw... why have you taken the full chromosome code? :O (just asking if intentional?)

Answer 26

chromosome 6 code :)

Answer 27

and if you look after structural motifs in the sequence I suggest you use the ExPASy servers tool, such as motifscan, SMART or InterPro scan.

Answer 28

is it really the whole chromosome? lol

i only want the c-MET gene haha

Okay will look into those

Answer 29

Just noticed "568815591:116672357-116798386 Homo sapiens chromosome 7, GRCh38 Primary Assembly" as I started copy pasting.

Answer 30

"Homo sapiens chromosome 7" specifically :P

Answer 31

You know the primer sequence?

Answer 32

Then we can use that to find the sequence.

Answer 33

These are the genes

mouse http://www.ncbi.nlm.nih.gov/gene/17295

human http://www.ncbi.nlm.nih.gov/gene/4233

Answer 34

where did you find that?

Answer 35

lol

Answer 36

Sorry that was on http://www.uniprot.org/
A super good protein database

Answer 37

Currently the international one.

Answer 38

awesome dude, thanks for all your help.

I gotta get going though, talk to you later!

Answer 39

Sure thingy, I'll look at bit more into it, but I can surely suggest you look in the book I send you. the very last pages! :)

Answer 40

The results I got from a super fast sequence alignment. Obviously ready to work more with this. Just send me an email - I check that more often that OS anyway.