restrict.txt

emboss的linux版本的源代码

RL   L.M.R. Michiels, University of Antwerp, Dept of Biochemistry,
RL   Universiteisplein 1, 2610 Wilrijk, BELGIUM
XX
RN   [2]
RP   1-518
RX   MEDLINE; 93368957.
RA   Michiels L., Van der Rauwelaert E., Van Hasselt F., Kas K., Merregaert J.;
RT   " fau cDNA encodes a ubiquitin-like-S30 fusion protein and is expressed as
RT   an antisense sequences in the Finkel-Biskis-Reilly murine sarcoma virus";
RL   Oncogene 8:2537-2546(1993).
XX
DR   SWISS-PROT; P35544; UBIM_HUMAN.
DR   SWISS-PROT; Q05472; RS30_HUMAN.
XX
FH   Key             Location/Qualifiers
FH
FT   source          1..518
FT                   /chromosome="11q"
FT                   /db_xref="taxon:9606"
FT                   /organism="Homo sapiens"
FT                   /tissue_type="placenta"
FT                   /clone_lib="cDNA"
FT                   /clone="pUIA 631"
FT                   /map="13"
FT   misc_feature    57..278
FT                   /note="ubiquitin like part"
FT   CDS             57..458
FT                   /db_xref="SWISS-PROT:P35544"
FT                   /db_xref="SWISS-PROT:Q05472"
FT                   /gene="fau"
FT                   /protein_id="CAA46716.1"
FT                   /translation="MQLFVRAQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLA
G
FT                   APLEDEATLGQCGVEALTTLEVAGRMLGGKVHGSLARAGKVRGQTPKVAKQEKKKKKT
G
FT                   RAKRRMQYNRRFVNVVPTFGKKKGPNANS"
FT   misc_feature    98..102
FT                   /note="nucleolar localization signal"
FT   misc_feature    279..458
FT                   /note="S30 part"
FT   polyA_signal    484..489
FT   polyA_site      509
XX
SQ   Sequence 518 BP; 125 A; 139 C; 148 G; 106 T; 0 other;
     ttcctctttc tcgactccat cttcgcggta gctgggaccg ccgttcagtc gccaatatgc        6
0
     agctctttgt ccgcgcccag gagctacaca ccttcgaggt gaccggccag gaaacggtcg       12
0
     cccagatcaa ggctcatgta gcctcactgg agggcattgc cccggaagat caagtcgtgc       18
0
     tcctggcagg cgcgcccctg gaggatgagg ccactctggg ccagtgcggg gtggaggccc       24
0
     tgactaccct ggaagtagca ggccgcatgc ttggaggtaa agttcatggt tccctggccc       30
0
     gtgctggaaa agtgagaggt cagactccta aggtggccaa acaggagaag aagaagaaga       36
0
     agacaggtcg ggctaagcgg cggatgcagt acaaccggcg ctttgtcaac gttgtgccca       42
0
     cctttggcaa gaagaagggc cccaatgcca actcttaagt cttttgtaat tctggctttc       48
0
     tctaataaaa aagccactta gttcagtcaa aaaaaaaa                               51
8
//

Output file format

   The output is a standard EMBOSS report file.

   The results can be output in one of several styles by using the
   command-line qualifier -rformat xxx, where 'xxx' is replaced by the
   name of the required format. The available format names are: embl,
   genbank, gff, pir, swiss, trace, listfile, dbmotif, diffseq, excel,
   feattable, motif, regions, seqtable, simple, srs, table, tagseq

   See: http://emboss.sf.net/docs/themes/ReportFormats.html for further
   information on report formats.

   By default restrict writes a 'table' report file.

  Output files for usage example

  File: hsfau.restrict

########################################
# Program: restrict
# Rundate: Sat 15 Jul 2006 12:00:00
# Commandline: restrict
#    -sequence tembl:hsfau
# Report_format: table
# Report_file: hsfau.restrict
########################################

#=======================================
#
# Sequence: HSFAU     from: 1   to: 518
# HitCount: 54
#
# Minimum cuts per enzyme: 1
# Maximum cuts per enzyme: 2000000000
# Minimum length of recognition site: 4
# Blunt ends allowed
# Sticky ends allowed
# DNA is linear
# Ambiguities allowed
#
#=======================================

  Start     End Enzyme_name Restriction_site 5prime 3prime 5primerev 3primerev
     11      14 TaqI        TCGA                 11     13         .         .
     28      25 AciI        CCGC                 25     27         .         .
     36      31 BseYI       CCCAGC               31     35         .         .
     38      41 AciI        CCGC                 38     40         .         .
     44      40 BceAI       ACGGC                25     27         .         .
     71      81 BsiYI       CCNNNNNNNGG          77     74         .         .
     71      74 AciI        CCGC                 71     73         .         .
     73      76 Hin6I       GCGC                 73     75         .         .
     73      76 HhaI        GCGC                 75     73         .         .
     77      81 EcoRII      CCWGG                76     81         .         .
     77      81 BssKI       CCNGG                76     81         .         .
     94      97 TaqI        TCGA                 94     96         .         .
    103     106 HpaII       CCGG                103    105         .         .
    105     108 HaeIII      GGCC                106    106         .         .
    107     111 EcoRII      CCWGG               106    111         .         .
    107     111 BssKI       CCNGG               106    111         .         .
    107     117 BsiYI       CCNNNNNNNGG         113    110         .         .
    122     132 BsiYI       CCNNNNNNNGG         128    125         .         .
    125     135 Hin4I       GAYNNNNNVTC         116    111       148       143
    146     150 BsrI        ACTGG               151    149         .         .
    161     165 BssKI       CCNGG               160    165         .         .
    162     165 HpaII       CCGG                162    164         .         .
    182     186 EcoRII      CCWGG               181    186         .         .
    182     186 BssKI       CCNGG               181    186         .         .
    190     193 Hin6I       GCGC                190    192         .         .
    190     193 HhaI        GCGC                192    190         .         .
    192     195 Hin6I       GCGC                192    194         .         .
    192     195 HhaI        GCGC                194    192         .         .
    197     201 EcoRII      CCWGG               196    201         .         .
    197     201 BssKI       CCNGG               196    201         .         .
    209     212 HaeIII      GGCC                210    210         .         .
    219     222 HaeIII      GGCC                220    220         .         .
    221     231 BsiYI       CCNNNNNNNGG         227    224         .         .
    225     221 BsrI        ACTGG               221    219         .         .
    229     226 AciI        CCGC                226    228         .         .
    236     239 HaeIII      GGCC                237    237         .         .
    248     252 EcoRII      CCWGG               247    252         .         .
    248     252 BssKI       CCNGG               247    252         .         .
    261     264 HaeIII      GGCC                262    262         .         .
    263     266 AciI        CCGC                263    265         .         .
    293     297 EcoRII      CCWGG               292    297         .         .
    293     297 BssKI       CCNGG               292    297         .         .
    296     299 HaeIII      GGCC                297    297         .         .
    335     338 HaeIII      GGCC                336    336         .         .
    380     377 AciI        CCGC                377    379         .         .
    383     380 AciI        CCGC                380    382         .         .
    395     398 HpaII       CCGG                395    397         .         .
    398     401 Hin6I       GCGC                398    400         .         .
    398     401 HhaI        GCGC                400    398         .         .
    405     410 HindII      GTYRAC              407    407         .         .
    408     413 AclI        AACGTT              409    411         .         .
    409     412 MaeII       ACGT                409    411         .         .
    417     427 BsiYI       CCNNNNNNNGG         423    420         .         .
    438     441 HaeIII      GGCC                439    439         .         .

#---------------------------------------
#---------------------------------------

#---------------------------------------
# Total_sequences: 1
# Total_hitcount: 54
#---------------------------------------

  Output files for usage example 2

  File: hsfau.restrict

########################################
# Program: restrict
# Rundate: Sat 15 Jul 2006 12:00:00
# Commandline: restrict
#    -fragments
#    -sequence tembl:hsfau
# Report_format: table
# Report_file: hsfau.restrict
########################################

#=======================================
#
# Sequence: HSFAU     from: 1   to: 518
# HitCount: 54
#
# Minimum cuts per enzyme: 1
# Maximum cuts per enzyme: 2000000000
# Minimum length of recognition site: 4
# Blunt ends allowed
# Sticky ends allowed
# DNA is linear
# Ambiguities allowed
#
#=======================================

  Start     End Enzyme_name Restriction_site 5prime 3prime 5primerev 3primerev
     11      14 TaqI        TCGA                 11     13         .         .
     28      25 AciI        CCGC                 25     27         .         .
     36      31 BseYI       CCCAGC               31     35         .         .
     38      41 AciI        CCGC                 38     40         .         .
     44      40 BceAI       ACGGC                25     27         .         .
     71      81 BsiYI       CCNNNNNNNGG          77     74         .         .
     71      74 AciI        CCGC                 71     73         .         .
     73      76 Hin6I       GCGC                 73     75         .         .
     73      76 HhaI        GCGC                 75     73         .         .
     77      81 EcoRII      CCWGG                76     81         .         .
     77      81 BssKI       CCNGG                76     81         .         .
     94      97 TaqI        TCGA                 94     96         .         .
    103     106 HpaII       CCGG                103    105         .         .
    105     108 HaeIII      GGCC                106    106         .         .
    107     111 EcoRII      CCWGG               106    111         .         .
    107     111 BssKI       CCNGG               106    111         .         .
    107     117 BsiYI       CCNNNNNNNGG         113    110         .         .
    122     132 BsiYI       CCNNNNNNNGG         128    125         .         .
    125     135 Hin4I       GAYNNNNNVTC         116    111       148       143
    146     150 BsrI        ACTGG               151    149         .         .
    161     165 BssKI       CCNGG               160    165         .         .
    162     165 HpaII       CCGG                162    164         .         .
    182     186 EcoRII      CCWGG               181    186         .         .
    182     186 BssKI       CCNGG               181    186         .         .


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