GENSCAN 1.0	Date run: 11-Dec-103	Time: 09:13:59

Sequence AB016625 : 25871 bp : 48.32% C+G : Isochore 2 (43 - 51 C+G%)

Parameter matrix: HumanIso.smat

Predicted genes/exons:

Gn.Ex Type S .Begin ...End .Len Fr Ph I/Ac Do/T CodRg P.... Tscr..
----- ---- - ------ ------ ---- -- -- ---- ---- ----- ----- ------

 1.01 Init +    222    614  393  2  0   88   90   825 0.810  79.44
 1.02 Intr +    827    915   89  1  2   97   23    37 0.585  -3.13
 1.03 Intr +   1109   1161   53  2  2  100   95    62 0.599   6.65
 1.04 Term +   1805   1827   23  0  2  115   45    -2 0.481  -3.33
 1.05 PlyA +   3600   3605    6                               1.05

 2.00 Prom +   6956   6995   40                              -0.46
 2.01 Init +   8459   8494   36  1  0   57   99    56 0.879   1.69
 2.02 Intr +   8637   8740  104  2  2   66  110   128 0.967  11.77
 2.03 Intr +  14410  14564  155  1  2  127   47   236 0.976  23.12
 2.04 Intr +  15591  15762  172  1  1   94   89   109 0.710  10.60
 2.05 Intr +  17283  17409  127  0  1   47   99   161 0.801  13.78
 2.06 Intr +  19179  19279  101  2  2   62   68   156 0.991   9.91
 2.07 Intr +  20948  21162  215  2  2   84   91   130 0.970  11.26
 2.08 Intr +  22691  22873  183  0  0  110  111   168 0.996  21.06
 2.09 Intr +  23935  24070  136  2  1   97   90   203 0.783  21.03

Predicted peptide sequence(s):

Predicted coding sequence(s):


>AB016625|GENSCAN_predicted_peptide_1|185_aa
MRDYDEVTAFLGEWGPFQRLIFFLLSASIIPNGFTGLSSVFLIATPEHRCRVPDAANLSS
AWRNHTVPLRLRDGREVPHSCRRYRLATIANFSALGLEPGRDVDLGQLEQESCLDGWEFS
QDVYLSTIVTEVVSLASRPDGHFEEGTRKVLAVPGRCSMALYSFPYRPQPKNDNLVMPYT
GTLAP

>AB016625|GENSCAN_predicted_CDS_1|558_bp
atgcgggactacgacgaggtgaccgccttcctgggcgagtgggggcccttccagcgcctc
atcttcttcctgctcagcgccagcatcatccccaatggcttcaccggcctgtcctccgtg
ttcctgatagcgaccccggagcaccgctgccgggtgccggacgccgcgaacctgagcagc
gcctggcgcaaccacactgtcccactgcggctgcgggacggccgcgaggtgccccacagc
tgccgccgctaccggctcgccaccatcgccaacttctcggcgctcgggctggagccgggg
cgcgacgtggacctggggcagctggagcaggagagctgtctggatggctgggagttcagt
caggacgtctacctgtccaccattgtgaccgaggtggtcagtctggcctcccgtcctgat
ggccactttgaagagggtaccaggaaggtcctggcggtccctgggcgatgctctatggcc
ctttactccttcccctaccgtccacaacccaaaaacgacaatctggtcatgccctacact
ggcactctagctccctga

>AB016625|GENSCAN_predicted_peptide_2|410_aa
MGKKPALCLPAQWNLVCEDDWKAPLTISLFFVGVLLGSFISGQLSDRFGRKNVLFVTMGM
QTGFSFLQIFSKNFEMFVVLFVLVGMGQISNYVAAFVLGTEILGKSVRIIFSTLGVCIFY
AFGYMVLPLFAYFIRDWRMLLVALTMPGVLCVALWWFIPESPRWLISQGRFEEAEVIIRK
AAKANGIVVPSTIFDPSELQDLSSKKQQSHNILDLLRTWNIRMVTIMSIMLWMTISVGYF
GLSLDTPNLHGDIFVNCFLSAMVEVPAYVLAWLLLQYLPRRYSMATALFLGGSVLLFMQL
VPPDLYYLATVLVMVGKFGVTAAFSMVYVYTAELYPTVVRNMGVGVSSTASRLGSILSPY
FVYLGAYDRFLPYILMGSLTILTAILTLFLPESFGTPLPDTIDQMLRVKG

>AB016625|GENSCAN_predicted_CDS_2|1230_bp
atgggaaagaagcctgctctctgccttcctgcccagtggaacctggtgtgtgaggacgac
tggaaggccccactcacaatctccttgttcttcgtgggtgtgctgttgggctccttcatt
tcagggcagctgtcagacaggtttggccggaagaatgtgctgttcgtgaccatgggcatg
cagacaggcttcagcttcctgcagatcttctcgaagaattttgagatgtttgtcgtgctg
tttgtccttgtaggcatgggccagatctccaactatgtggcagcatttgtcctggggaca
gaaattcttggcaagtcagttcgtataatattctctacgttaggagtgtgcatattttat
gcatttggctacatggtgctgccactgtttgcttacttcatccgagactggcggatgctg
ctggtggcgctgacgatgccgggggtgctgtgcgtggcactctggtggttcatccctgag
tccccccgatggctcatctctcagggacgatttgaagaggcagaggtgatcatccgcaag
gctgccaaagccaatgggattgttgtgccttccactatctttgacccgagtgagttacaa
gacctaagttccaagaagcagcagtcccacaacattctggatctgcttcgaacctggaat
atccggatggtcaccatcatgtccataatgctgtggatgaccatatcagtgggctatttt
gggctttcgcttgatactcctaacttgcatggggacatctttgtgaactgcttcctttca
gcgatggttgaagtcccagcatatgtgttggcctggctgctgctgcaatatttgccccgg
cgctattccatggccactgccctcttcctgggtggcagtgtccttctcttcatgcagctg
gtacccccagacttgtattatttggctacagtcctggtgatggtgggcaagtttggagtc
acggctgccttttccatggtctacgtgtacacagccgagctgtatcccacagtggtgaga
aacatgggtgtgggagtcagctccacagcatcccgcctgggcagcatcctgtctccctac
ttcgtttaccttggtgcctacgaccgcttcctgccctacattctcatgggaagtctgacc
atcctgacagccatcctcaccttgtttctcccagagagcttcggtaccccactcccagac
accattgaccagatgctaagagtcaaaggn


Explanation

Gn.Ex : gene number, exon number (for reference)
Type  : Init = Initial exon
        Intr = Internal exon
        Term = Terminal exon
        Sngl = Single-exon gene
        Prom = Promoter
        PlyA = poly-A signal
S     : DNA strand (+ = input strand; - = opposite strand)
Begin : beginning of exon or signal (numbered on input strand)
End   : end point of exon or signal (numbered on input strand)
Len   : length of exon or signal (bp)
Fr    : reading frame (a codon ending at x is in frame f = x mod 3)
Ph    : net phase of exon (length mod 3)
I/Ac  : initiation signal or acceptor splice site score (x 10)
Do/T  : donor splice site or termination signal score (x 10)
CodRg : coding region score (x 10)
P     : probability of exon (sum over all parses containing exon)
Tscr  : exon score (depends on length, I/Ac, Do/T and CodRg scores)

Comments

The SCORE of a predicted feature (e.g., exon or splice site) is a
log-odds measure of the quality of the feature based on local sequence
properties. Thus, for example, a predicted donor splice site with
score > 100 is excellent; 50-100 is acceptable; 0-50 is weak; and
below 0 is poor (probably not a real donor site).

The PROBABILITY of a predicted exon is the estimated probability under
GENSCAN's model of genomic sequence structure that the exon is correct.
This probability depends in general on global as well as local sequence
properties.  This information can be used to assess the reliability of the
predicted exon, e.g., it would be better to design PCR primers based on
a predicted exon with probability > 0.95 than one with lower probability.