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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaatttgcttcaattttctggaaacagcttttgtcaattatatctttgatgaattaaaacaactttctgggattatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG

Basic information

species Oryza sativa
transcript LOC_Os05g49200.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM5G899123_T01 (Zea mays), 3'ss of exon 4
--------gtttgtaat--ttgcttcaattttctggaaacagcttttgtcaattatatctttga----tgaattaaaacaactttctg--ggattatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG
|| || | | || ||||||| | | ||| |||||| |||| | || ||| |||||| || || |||| ||||||||||| ||| | || ||||| ||||||||||||||||| ||||||||||| | |||||||| ||
gtttgtatattccaaaccatggatttgtttttctgattgctggtttgatcaattgc-tcttgaagctctgcggtaactcaacttgctattgggttattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGCACTCATGGTGTCAG

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G065757_T02 (Zea mays), 3'ss of exon 9
--------gtttgtaattt--gcttcaattttctggaaacagcttttgtcaattatatctttga----tgaattaaaacaactttctg--ggattatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG
|| || | | || ||||||| | | ||| |||||| | |||| | || ||| |||||| || || |||| ||||||||||| ||| | || ||||| ||||||||||||||||| ||||||||||| | |||||||| ||
gtttgtatattccaaactatggatttgcttttctgattgctggtttgatcaatt-tctcttgaagctctgcggtaactcaacttgctattgggttattttgcagACACAACCAGCGAAGATCTGTTCTCAGGTTGGTCTGTGCACTTTTGATGGCACCCATGGTGTCAG

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G153977_T01 (Zea mays), 3'ss of exon 3
-------gtttgtaatttgcttcaattttctggaaacagcttttgtcaattatatctttgatgaattaaaacaactttctgggattatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG
|| || | | |||||||| | | ||| ||||||| | | || | || || | ||| |||| |||||||| || ||| | || ||||| ||||||||||| ||||| ||||||||||| | || ||||||||
gtttgtatgttccaaactatgttgcttttctggttgctggtttggtcaattgcttttggaggtaactcaacttgctatttgg--ttattttgcagACGCAACCAGCGAAGATCTGTTCTCAGGTTGGCCTGTGCACTTTTGATGGCACTCACGGTGTTAG

upper sequence: LOC_Os05g49200.2 (Oryza sativa), 3'ss of exon 8
lower sequence: AT1G11910.1 (Arabidopsis thaliana), 3'ss of exon 9
gtt--tgtaatttgc-ttcaattttctggaaacagcttttgtcaattatatctttgatgaattaaaacaactttctggga-------ttatg--ttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG
||| ||| || || | | || || | || | | | |||| | ||||| ||| | || | |||||||| || || ||||||||||| ||| |||||||||||||||||||||| | | |||||| ||
gttagtgtgcttaatattggactagctaataaaatctgtgacaagtcatatgctgtgcaaattattttggcttaccattcatcccccttgcgccttgcagACCCAACCGAAGAAAATCTGCTCGCAGATTGGTCTGTGTACTTTTGATGGTACCCGTGGTGTCAG

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|29681832|gb|CB678107.1|CB678107
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|33795396|gb|CF323568.1|CF323568
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29637769|gb|CB642778.1|CB642778
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29664333|gb|CB660608.1|CB660608
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29687282|gb|CB683557.1|CB683557
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58668482|gb|CK057168.1|CK057168
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|33683538|gb|CF311777.1|CF311777
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58596651|gb|CK007179.1|CK007179
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|125863426|gb|EL586708.1|EL586708
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58672644|gb|CK061330.1|CK061330
EST:     AACAGAT-CTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: AACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29675128|gb|CB671403.1|CB671403
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGGTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|117249803|gb|CT863399.1|CT863399
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29660446|gb|CB656721.1|CB656721
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29637768|gb|CB642777.1|CB642777
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29686812|gb|CB683087.1|CB683087
EST:     CAGTTGTTTTTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58668099|gb|CK056785.1|CK056785
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29660450|gb|CB656725.1|CB656725
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|218501795|gb|FG948052.1|FG948052
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29660989|gb|CB657264.1|CB657264
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGAT
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGAT
EST: gi|29627822|gb|CB632833.1|CB632833
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58587529|gb|CF985837.1|CF985837
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|55827430|gb|AU030192.2|AU030192
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         G
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcag-
EST: gi|55827430|gb|AU030192.2|AU030192
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         G
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcag-
EST: gi|29675906|gb|CB672181.1|CB672181
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTGGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|218480608|gb|FG959514.1|FG959514
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29660990|gb|CB657265.1|CB657265
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|218495569|gb|FG950148.1|FG950148
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29657723|gb|CB653998.1|CB653998
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|88396547|gb|CI601030.1|CI601030
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAACAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58592991|gb|CF991299.1|CF991299
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|29669083|gb|CB665358.1|CB665358
EST:     AG-TGTTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: AGTTG-TTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|33381232|gb|CF196575.1|CF196575
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCANNTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|58599924|gb|CK010452.1|CK010452
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|218481767|gb|FG945139.1|FG945139
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG
EST: gi|218486960|gb|FG945468.1|FG945468
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCT
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCT
EST: gi|66924030|gb|CX110878.1|CX110878
EST:     CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAG                         ACACAGCCCTCAAAAATTTGCTCTCAAGTTGGTCTGTGTACTTTTGATGGG
genomic: CAGTTGTTTCTCAATATGGACAACAGATCCTAGATCTGTTGCTTGCTGAGgtttgtaatt ... tatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtcaattatatctttgatgaattaaaacaactttctgggattatgttgcagACACAGCCATCAAAAATCTGCTCTCAGGTTGGTCTGTGTACTTTTGATGGGAAGCATGGTGTTAG
               ctttgat  putative branch site (score: 5)
 aattatatctttgatg  TA-rich tract