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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttctttttgaaacaatggtttaggggaccatcgagttgtcttgtacttttggtgtgatgcacaatctcacataatcattactgtaattttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGTGGCCTGAGGAAAAAG

Basic information

species Zea mays
transcript GRMZM2G025854_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025854_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g11140.2 (Oryza sativa), 3'ss of exon 1
gtttctttttgaaacaatggtttaggggaccatcgagttgtcttgtacttttggtgtgatgcacaatctcacataa----tcattactgtaattttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGTGGCCTGAGGAAAAAG
     | | || |  |  || |||    ||  |  |||    || | ||| | |||||||  | |  | || ||||    | || | ||| |  |||| || ||||||  || || ||||||||||| ||||||||||||||||| ||||| |||||  ||||||| |||
---attgtgtgcattataggattatca-actcttaagtctctttttgcttattgtgtgattgagatacacaaataacagatgatgattgtgacgttttatgcagATCAAGTCGATTCCGACCAAGCCCGTTGAGGGGCAGAAGACCGGGACCAGTGGGTTGAGGAAGAAG
















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|211022177|gb|FL153050.1|FL153050
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456111|gb|FL153032.1|FL153032
EST:     TCGCCCGCTGCTCCCCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022165|gb|FL153038.1|FL153038
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022178|gb|FL153051.1|FL153051
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022173|gb|FL153046.1|FL153046
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022172|gb|FL153045.1|FL153045
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456114|gb|FL153035.1|FL153035
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022174|gb|FL153047.1|FL153047
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456113|gb|FL153034.1|FL153034
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022175|gb|FL153048.1|FL153048
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211456115|gb|FL153036.1|FL153036
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCGATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|89759099|gb|DY688027.1|DY688027
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211024619|gb|FL153052.1|FL153052
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|50333167|gb|CO528293.1|CO528293
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|74238594|gb|DT646508.1|DT646508
EST:     TCG-CCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
EST: gi|211022168|gb|FL153041.1|FL153041
EST:     TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAG                         ATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT
genomic: TCGCCCGCTGCTCCTCCGCCGGGACGCCGTCAGCCGCCCAGGCGCTCAAGgtatggttcc ... ttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttttggtgtgatgcacaatctcacataatcattactgtaattttttgtgtagATCAGTTCAATCCCGACCAAGCCAGTTGAGGGGCAGAAGACTGGGACTAGTGGCCTGAGGAAAAAG
                    atctcac  putative branch site (score: 3)
                                           ttttttgt  putative PPT
                           ataatcattactgtaa  TA-rich tract