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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACTGCCTATACTGCAGGTAGGTGACCATACAGAAAGTATCACCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattattttgcctgttgaacttcattgctctcttttatgtctactgccatcagaggatgagagttttaccaagcagttctctgattttgtctgtcgctg...

Basic information

species Oryza sativa
transcript LOC_Os08g26870.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g26870.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G377595_T01 (Zea mays), 5'ss of exon 7
AAACTGCCTATACTGCAGGTAGGTGACCATACAGAAAGTATCACCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattattttgcctgttgaacttcattgctctcttttatgtctactgccatcagaggatgagagttttaccaagcagttct--ctgattttgtctgt-cgctg-
|| ||| | |||||| | | |||||| ||||| | ||||||||||||||||||| ||||||||| ||||||||||| || || | | | | | | || | | | || | || || | | ||| || | | | || | || || | |
------------------GTCAATGATCCTACAGACAACACCACCTTCGATCTTCGGCCTTCAGATGCCATAAACACTGCTGTTCGTTGCAAGgtatt-ttctgtatat--gtccttgctacatactaatttttttagtaa-attcatttttgttatctctactaatccatatgtacggactgtgggcgtgcaccca

upper sequence: LOC_Os08g26870.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G006468_T05 (Zea mays), 5'ss of exon 6
AAACTGCCTATACTGCAGGTAGGTGACCATACAGAAAGTATCACCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattattttgcctgttgaacttcattgctctcttttatgtctactgccatcagaggatgagagttttaccaagcagttctctgattttgtctgtcgctg------
| | ||| |||||| || |||||||| ||||| | ||||||||||||||||||||||||||||| ||||||||||| ||| |||||| ||| |||| | || ||| || | | || | | || | | | || | | ||
------------------ATTGATGATTCTACAGACAGCATCACCTTCGATCTTCGGCCTTCAGATGCCATAAACATTGCTGTTCGTTGCAAGgtatt----tgc-tgttgatgttc-ttgccacatgctaaatcttctattactctgatttttattattcatattgaaggttttagtgcatgcttatttgtgggagca

upper sequence: LOC_Os08g26870.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G053531_T02 (Zea mays), 5'ss of exon 7
AAACTGCCTATACTGCAGGTAGGTGACCATACAGAAAGTATCACCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattattttgcctgttgaacttcattgctctcttttatgtctactgccatcagaggatgagagttttaccaagcagttctctgattttgtctgtcgctg-----
|| ||| | |||||| | |||||||| ||||| | ||||||||||||||||||||||||||||| ||||||||||| || || | | | | | | || || | | || | || || | | || | |||| || | || | | |
------------------GTCAATGATCCTACAGACAACATCACCTTCGATCTTCGGCCTTCAGATGCCATAAACATTGCTGTTCGTTGCAAGgtatt-ttctgtatat--gtccttgctacatgctatttt-tttagtaa-attgattcttgttattagtattgaaggtttctatgtccatatcacttgttcgaaca

upper sequence: LOC_Os08g26870.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0001g12960.t01 (Vitis vinifera), 5'ss of exon 8
AAACTGCCTATACTGCAGGTAGGTGACCATACAGAAAGTATCACCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattattttgcctgttgaacttcattgctctcttttatgtctactgccatcagaggatgagagttttaccaagcagttctctg-attttgtctgtcgctg-
|| ||| | | | ||| || ||| ||||| || |||||||||||||||| |||||||||||| | ||||||||| | || ||| | | ||| ||||| | || || | | | ||| || |||| | | || | | |||
------------------GTGGGTAATGAAAAAGAGAGCGTCAGTTTTGACCTTCGACCTTCAGATGCCATTAACATTGCTGTTAGATGCAAGgtactcttca--ttgtgggtgtgagttgtgtgactttatacatgcttttatttggtcacagtatcttttgcagatgccaatctgtaactagtttttatctgt

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|30228242|gb|CB966133.1|CB966133
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86428772|gb|CI075453.1|CI075453
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86841671|gb|CI337368.1|CI337368
EST:     AGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: AGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86870797|gb|CI323841.1|CI323841
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACA-TGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86866657|gb|CI343508.1|CI343508
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|89182212|gb|CI113581.1|CI113581
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|88219539|gb|CI219099.1|CI219099
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86845296|gb|CI340393.1|CI340393
EST:     TTCGCTGC-A-                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: TTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86545503|gb|CI185709.1|CI185709
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86486764|gb|CI129397.1|CI129397
EST:     TCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: TCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|88843827|gb|CI011085.1|CI011085
EST:     AGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: AGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86424485|gb|CI063246.1|CI063246
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86881486|gb|CI322571.1|CI322571
EST:     AAGACCGTCAGATGCCATAAACAGTGGCTGTTCGCTGCAA-                         GTTCCTATACAA-TCCATAGAAGCCTT-CATACAGTGATGGCATAAGATCA
genomic: AAGACCTTCAGATGCCATAAACA-TTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|29667115|gb|CB663390.1|CB663390
EST:     ATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: ATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|89194098|gb|CI116535.1|CI116535
EST:     ATCTAAGACCTTCAGATGCCATGAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: ATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86535591|gb|CI175797.1|CI175797
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|88221407|gb|CI221363.1|CI221363
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|33656426|gb|CF279040.1|CF279040
EST:     CTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|88844616|gb|CI021191.1|CI021191
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86535529|gb|CI175735.1|CI175735
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|30228832|gb|CB966723.1|CB966723
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86853630|gb|CI330481.1|CI330481
EST:     TCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: TCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|89182723|gb|CI114092.1|CI114092
EST:     TTTGATCTAAGACCTTCAGATGACATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGAGTC
genomic: TTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGA-TC
EST: gi|23514436|gb|BU673639.1|BU673639
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCNTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|89175204|gb|CI111723.1|CI111723
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86522948|gb|CI163154.1|CI163154
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|88217099|gb|CI216948.1|CI216948
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86841645|gb|CI337352.1|CI337352
EST:     AGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: AGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86884643|gb|CI313022.1|CI313022
EST:     TAAGACCTTCAGATGCCATAAACATTGCTGTTCGGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATC
genomic: TAAGACCTTCAGATGCCATAAACATTGCTGTTC-GCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATC
EST: gi|86418718|gb|CI053519.1|CI053519
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|88833609|gb|CI077090.1|CI077090
EST:     AAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATC
genomic: AAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCC-TATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATC
EST: gi|58030519|gb|CX728062.1|CX728062
EST:     ATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: ATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86433857|gb|CI094200.1|CI094200
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|89161725|gb|CI100885.1|CI100885
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|86867122|gb|CI343891.1|CI343891
EST:     CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: CCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
EST: gi|15855809|gb|BI808621.1|BI808621
EST:     TGTGATGCTAAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAG                         GTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA
genomic: TTTGAT-CT-AAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattatttt ... acatgaacagGTTCCTATACAAGTCCATAGAAGCCTTGCATACAGTGATGGCATAAGATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAACTGCCTATACTGCAGGTAGGTGACCATACAGAAAGTATCACCTTTGATCTAAGACCTTCAGATGCCATAAACATTGCTGTTCGCTGCAAGgtattattttgcctgttgaacttcattgctctcttttatgtctactgccatcagaggatgagagttttaccaagcagttctctgattttgtctgtcgctg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT