Dear Dr Jackson , Thank you very much! That is to say, except EL584176, other ESTs in this region are introns corresponding to genome.
And I have one more question that other ESTs coordinates are following: chr3 173240131 173448143 DA850742 0 + 173240131 173448143 0 6 124,34,105,76,77,127, 0,72804,72838,93823,187223,207885, chr3 173240131 173448196 DA864040 0 + 173240131 173448196 0 6 124,34,105,76,77,180, 0,72804,72838,93823,187223,207885, chr3 173240134 173448235 DA863440 0 + 173240134 173448235 0 5 121,139,76,76,219, 0,72801,93820,187220,207882, chr3 173240181 173448184 CN289921 0 + 173240181 173448184 0 5 74,139,76,77,168, 0,72754,93773,187173,207835, chr3 173241037 173448225 DB235484 0 + 173241037 173448225 0 5 71,139,76,77,209, 0,71898,92917,186317,206979, chr3 173241038 173448223 DA723804 0 + 173241038 173448223 0 5 70,139,76,77,207, 0,71897,92916,186316,206978, chr3 173247393 173448241 DB076759 0 + 173247393 173448241 0 5 38,139,76,77,225, 0,65542,86561,179961,200623, chr3 173312934 173451906 BI561806 0 + 173312934 173451906 0 28 56,83,13,41,22,77,40,32,14,7,8,7,17,18,4,6,5,13,14,15,5,17,14,17,25,5,66,10, 0,57,21020,21033,21074,114420,135082,135122,135162,135176,135183,135191,135198,135215,135233,135237,135248,135253,135266,135286,135301,135307,138807,138846,138865,138890,138896,138962, chr3 173312938 173427430 BF992955 0 + 173312938 173427430 0 7 12,12,11,4,94,76,76, 0,15,27,38,42,21016,114416, chr3 173312981 173448163 AW748812 0 + 173312981 173448163 0 8 5,4,6,15,63,76,77,147, 0,5,9,15,30,20973,114373,135035, chr3 173327456 173427747 DB067370 0 + 173327456 173427747 0 3 85,76,393, 0,6498,99898, chr3 173327460 173451940 BG722524 0 + 173327460 173451940 0 5 81,76,77,244,197, 0,6494,99894,120556,124283, chr3 173333995 173448120 BE082404 0 - 173333995 173448120 0 4 35,77,36,68, 0,93359,114021,114057, The coordinate of MER53 is chr3:173402247-173402431<http://genome.ucsc.edu/cgi-bin/hgTracks?hgsid=146499668&db=hg18&position=chr3%3A173402247-173402431>, why I intersect it with human ESTs used Table browser returned only EL584176 ? But if consider coordinates, these ESTs are all intersect with it. Could you tell me the reasons ? Thank you ! Best regards, Chuangye 2009/11/10 Jennifer Jackson <[email protected]> > Hello, > > The dark bar is an exon - this display is an indication that there is a > base level alignment at this position between the EST and the genome. The > rest of the data (other sequences) appears to support the idea that this is > instead an intronic region (no mRna/Est alignments at this location, but at > locations at one or either edge). > > Zoom out a few levels to see the big picture. Then try 10x to see where the > other sequence have exons. > > We hope this helps, > Jennifer > > ------------------------------------------------ > Jennifer Jackson > UCSC Genome Bioinformatics Group > > ----- "Chuangye" <[email protected]> wrote: > > > From: "Chuangye" <[email protected]> > > To: [email protected] > > Sent: Monday, November 9, 2009 4:14:28 AM GMT -08:00 US/Canada Pacific > > Subject: [Genome] What differences between these ests > > > > Dear sir, > > > > Thank you for reading my Email! > > > > First, please set "chr3:173,402,247-173,402,431" in your > > "position/search" > > of UCSC Browser. Then set "full" of "Human EST" in "mRNA and EST > > Tracks". > > And "Refresh". OK, now you will see the picture of the attached > > figure. As > > you will see, a few ESTs with thin lines plus arrows but only one with > > thick > > line at the bottom with no arrows as upper ESTs. OK. My question is > > what the > > differences between the last one > > (EL584176< > http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Search&db=nucest&term=EL584176&doptcmdl=GenBank&tool=genome.ucsc.edu > >) > > with others ? > > > > Thank you! > > > > Best wishes, > > > > Chuangye > > > > _______________________________________________ > > Genome maillist - [email protected] > > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
