Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgtatccatattcttttgacatcaaaacaaatatctgtatctgtgctgcatagaattacattgtacaaagcggacttaaattattactttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGCTCGTGGACGCAGCTATAGCAGGTCGCCATAGTACAACTGTGACAAATAT

Basic information

species Zea mays
transcript GRMZM2G070239_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070239_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g54770.1 (Oryza sativa), 3'ss of exon 4
-tatgtatcca--tattcttttgacatcaaaacaaatatctgtatctgtgctgcatagaattacattgtacaaagcggacttaaattattactttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGCTCGTGGACGCAGCTATAGCAGGTCGCCATAGTACAACTGTGACAAATAT
   |  |||||  | |||| || |   |  |     |   || || | |  || |    || |  |   | |||| | ||| |  | |||| | |||   ||| ||||| || |||||| |||| |||||||||||||| | |  |||||| | |||||| |||||||| |||||||| |||     |    |||       |
cagttaatccacttgttctattaaacacctactttgttgttgaatttat--tgtaatatatgatgtaaaagaaag-gaactgagctaattattctgcgaacagAAGCTACAGTCCTCGTGATCGCTCTCCAAGGCGCCGCAGTGTTTCACCAGTTCGTGGGCGCAGCTACAGCAGGTCACCACGTGGCCGAGGTGGTTCTCCT
















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|22819738|gb|BU499828.1|BU499828
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAA
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAA
EST: gi|71430460|gb|DR811510.1|DR811510
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|211007022|gb|FK984004.1|FK984004
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|67041575|gb|CO467830.1|CO467830
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|37396713|gb|CF635650.1|CF635650
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|211018134|gb|FK984060.1|FK984060
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGC-GTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|60340914|gb|DN207887.1|DN207887
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|78179171|gb|DV549544.1|DV549544
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32809316|gb|CD961550.1|CD961550
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|71430461|gb|DR811511.1|DR811511
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|30705227|gb|CD058704.1|CD058704
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|18178719|gb|BM379929.1|BM379929
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|31356601|gb|CD440958.1|CD440958
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32806641|gb|CD958875.1|CD958875
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|50326514|gb|CO521640.1|CO521640
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATC
EST: gi|211224371|gb|FL431883.1|FL431883
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|26560162|gb|CA832397.1|CA832397
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32943212|gb|CF048031.1|CF048031
EST:     A-CCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGT
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGT
EST: gi|87156333|gb|DY401122.1|DY401122
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|148983454|gb|EE029469.2|EE029469
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|76012688|gb|DT939858.1|DT939858
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|50326513|gb|CO521639.1|CO521639
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTTTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|211018143|gb|FK984069.1|FK984069
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|60337673|gb|DN204646.1|DN204646
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|211018139|gb|FK984065.1|FK984065
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|4776273|gb|AI665276.1|AI665276
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCCCCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32799115|gb|CD951351.1|CD951351
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|22819737|gb|BU499827.1|BU499827
EST:     GGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTTTCCCAGGCGCCGTACTCCTTCCCCGGC
genomic: GGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|33098007|gb|CF057967.1|CF057967
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|30705843|gb|CD058940.1|CD058940
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32823248|gb|CD962970.1|CD962970
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCC-CTGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGG
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTC-GTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGG
EST: gi|22935529|gb|BU571804.1|BU571804
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTC
EST: gi|211009785|gb|FK984010.1|FK984010
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTTATCGT-CTCCAAGGCGCCGTACTCCTTTCAC-G
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTT-ATCGTTCTCCAAGGCGCCGTACTCCTT-CACCG
EST: gi|6918354|gb|AW399884.1|AW399884
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32826907|gb|CD966585.1|CD966585
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|149061145|gb|EE157405.2|EE157405
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC
EST: gi|32808824|gb|CD961058.1|CD961058
EST:     AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAG                         GAGCTATAGCCCCCGTTATCGCTCTCCAAGGCGCCGTACTCCTTCACCGGC
genomic: AGCCGCAGTCGCAGCCCTAGATACCGCAGGAGTCCGAGCTATAATAGAAGgtaaccattt ... ttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctgcatagaattacattgtacaaagcggacttaaattattactttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGCTCGTGGACGCAGCTATAGCAGGTCGCCATAGTACAACTGTGACAAATAT
                                           ctttgctttc  CT-rich tract
                              acttaaattattactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatgtatccatattcttttgacatcaaaacaaatatctgtatctgtgctgcatagaattacattgtacaaagcggacttaaattattactttgctttcagGAGCTATAGCCCTCGTTATCGTTCTCCAAGGCGCCGTACTCCTTCACCGGCTCGTGGACGCAGCTATAGCAGGTCGCCATAGTACAACTGTGACAAATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT