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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggttgtgtggttggtccttttcattttgcaacctctctgttcagaactatttcctcattttgtttagcatctaatcaattaccttcttgatttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTCCAACAGTCCGGTTCGTCTCACGGATGTTTCATCCAAACA

Basic information

species Vitis vinifera
transcript Vv08s0032g00310.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0032g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G02760.1 (Arabidopsis thaliana), 3'ss of exon 3
ggttgtgtggttggtccttttcattttgcaacctctctgttcagaactatttcctcattttgtttagcatctaatcaattaccttcttgat----ttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTCCAACAGTCCGGTTCGTCTCACGGATGTTTCATCCAAACA
         ||      || | |||  | || | ||    |    |  ||||   || | | ||  | ||||  ||   |  ||  ||  |    | || | |||||| || |||||  | ||||||||   |||||||||||||||||| || |||||||| ||||| || ||||||||||| ||||||||||
---------gtaaagttttgttatt--gtaatcacttaacttgaga--attttggcaatcttttatgtatctggtcttatgtctcttttgtatggtcttgttagGTACTTTCAAATTGTCACTGCAGTTTTCGGAAGATTATCCAAATAAACCACCAACAGTGCGGTTTGTTTCACGGATGTTCCATCCAAACA

upper sequence: Vv08s0032g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G14400.2 (Arabidopsis thaliana), 3'ss of exon 3
ggttgtgtggttggtccttttcattttgcaacctctctgttcagaactatttcctcattttgtttagcatctaatcaattaccttcttgatttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTCCAACAGTCCGGTTCGTCTCACGGATGTTTCATCCAAACA
    || |||||      | | |||         |      || || | |||       ||||   |    |  |   |  | ||||||||  |  |||||||| || ||| |  | |||||||||   ||||||||||| ||||| || |||||||| ||||| || ||||||||||||||||| || |
----gtatggttatgatatgttattgcattttgacaagaagcataaatttttgggatcgttgtagtggtgttcttatgtctctttcttgatgctgttcagGTACTTTCAAACTCTCACTGCAGTTCTCTGAAGATTATCCCAATAAACCACCAACAGTTCGGTTTGTGTCACGGATGTTTCATCCTAATA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|349814183|gb|FQ414802.1|FQ414802
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|351041390|gb|FQ447517.1|FQ447517
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|77584707|gb|DV221429.1|DV221429
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|71875929|gb|DT024984.1|DT024984
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|37185055|gb|CF604408.1|CF604408
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|34546986|gb|CF515218.1|CF515218
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|351018739|gb|FQ425641.1|FQ425641
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|351049542|gb|FQ429164.1|FQ429164
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|351022236|gb|FQ438821.1|FQ438821
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|71884914|gb|DT033969.1|DT033969
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|37189198|gb|CF608547.1|CF608547
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|37189183|gb|CF608532.1|CF608532
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|71859196|gb|DT008251.1|DT008251
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|30302562|gb|CB979356.1|CB979356
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110370399|gb|EC929600.1|EC929600
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|71858776|gb|DT007831.1|DT007831
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|30256446|gb|CB972289.1|CB972289
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|34543081|gb|CF511313.1|CF511313
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|294966277|gb|GW837528.1|GW837528
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110392731|gb|EC957047.1|EC957047
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110375657|gb|EC940666.1|EC940666
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|22012712|gb|BQ797746.1|BQ797746
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|161719498|gb|FC066422.1|FC066422
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|294966113|gb|GW837480.1|GW837480
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCACGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|161720625|gb|FC070235.1|FC070235
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|46917601|gb|CN546930.1|CN546930
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|349813320|gb|FQ411560.1|FQ411560
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|34547075|gb|CF515307.1|CF515307
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|22013112|gb|BQ798146.1|BQ798146
EST:     CCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: CCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110410666|gb|EC976357.1|EC976357
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|22012179|gb|BQ797213.1|BQ797213
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110701165|gb|EE078466.1|EE078466
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|161719098|gb|FC065706.1|FC065706
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|351032605|gb|FQ462319.1|FQ462319
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|349821106|gb|FQ404359.1|FQ404359
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110696112|gb|EE074897.1|EE074897
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|27582933|gb|CB005628.1|CB005628
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110710849|gb|EE087378.1|EE087378
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|71857354|gb|DT006409.1|DT006409
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCGGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|71859730|gb|DT008785.1|DT008785
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110723791|gb|EE099055.1|EE099055
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|30302634|gb|CB979428.1|CB979428
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110423496|gb|EC989842.1|EC989842
EST:     ACCTGATGATACTCCTTGGGATGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|110720843|gb|EE097121.1|EE097121
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
EST: gi|161720454|gb|FC070566.1|FC070566
EST:     ACCTGATGATACTCCTTGGGACGGAG                         GTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC
genomic: ACCTGATGATACTCCTTGGGATGGAGgtgggtactt ... tttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatttcctcattttgtttagcatctaatcaattaccttcttgatttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTCCAACAGTCCGGTTCGTCTCACGGATGTTTCATCCAAACA
                                    ccttcttgatttttct  CT-rich tract
           attttgttta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttgtgtggttggtccttttcattttgcaacctctctgttcagaactatttcctcattttgtttagcatctaatcaattaccttcttgatttttctcagGTACGTTTAAATTAACTCTGCAGTTCATGGAAGATTATCCAAATAAGCCTCCAACAGTCCGGTTCGTCTCACGGATGTTTCATCCAAACA

ggttgtg
- - - -tggttgg
- - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - -cctctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttctt