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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttagattattatcgaagtccaattctgatttggcactacagggaggtgtaaattttgtgaatttcatgtgttgacatgtggtacccctccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGA

Basic information

species Oryza sativa
transcript LOC_Os07g25420.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g25420.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G121452_T01 (Zea mays), 3'ss of exon 1
ttttagattattatcgaagtc--caattctgatttggcactacagggaggtgtaaattttgtgaatttcatgtgttgacatgtggtacccctcc-ttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGA
  ||   ||   |||   ||   | |     | |||  |  ||    | |  | | ||||||  |||||   | || |||||||  || |||   || |||||||||  |||||| | |||||||||||||| || |  |||||||||||||||||    ||||| ||||| ||| |||| |
--ttgagttgccatcttggtttgcgagagaaacttgcgagaactca-acgaattacttttgtatatttctgttatttacatgtgaaacaccttaattttgcagGTCCATCTCACCCAATTCCCCAGCCTTCCGCCCTTGTTTCAGCAGACACCGAACATTGTGGAGGAGCTCAAACTTGCAA

upper sequence: LOC_Os07g25420.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G073077_T01 (Zea mays), 3'ss of exon 1
ttttagattattatcgaagtccaattctgatttggcactacagggaggtgtaaattttgtgaatttcatgtgttgacatgtggtacccctc-cttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGA
 |    ||  || |    |   || ||       |    |     | |  | | |||||    ||  |  | || |||||||  || | |   || |||||||||  |||||||| |||||||||||||| || |||||| |||||||||| || || ||||| ||||| ||| |||| |
-tcagtatggttttatgggagaaactcctgagaagtgagaactcaacgaattacttttgatttttctagttatttacatgtgaaacacattatttttgcagGTCCATCTCACCAAATTCCCCAGCCTTCCGCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA
















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|58656740|gb|CK045420.1|CK045420
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACA
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACA
EST: gi|88688587|gb|CI732163.1|CI732163
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|8856245|gb|AU093563.1|AU093563
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGNCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88412237|gb|CI573513.1|CI573513
EST:     CGCCAGGAACAACTTCGACACCTGCGTAGACCTGCTGTCGCAGCCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACC
genomic: CGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAG-CTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACC
EST: gi|33819689|gb|CF335663.1|CF335663
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88309199|gb|CI655207.1|CI655207
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|33658971|gb|CF281584.1|CF281584
EST:     TCGCCAGGAACTATTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTTACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88333830|gb|CI643862.1|CI643862
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88424460|gb|CI608046.1|CI608046
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCAAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88328055|gb|CI649853.1|CI649853
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|58681161|gb|CK069848.1|CK069848
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88364221|gb|CI612170.1|CI612170
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCC-AGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88345880|gb|CI632353.1|CI632353
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGCTTCCC-AGCCTTCCTCCATCATTTCAGCAGACACC
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAG-TTCCCCAGCCTTCCTCCATCATTTCAGCAGACACC
EST: gi|88358913|gb|CI619417.1|CI619417
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88737020|gb|CI760528.1|CI760528
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|86905581|gb|CI287146.1|CI287146
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|58600822|gb|CK011350.1|CK011350
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88348768|gb|CI631462.1|CI631462
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|2427780|gb|C72243.1|C72243
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|568760|gb|D39609.1|D39609
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTNACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88737992|gb|CI761500.1|CI761500
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88395474|gb|CI612996.1|CI612996
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88377414|gb|CI602899.1|CI602899
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88391840|gb|CI603359.1|CI603359
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88726404|gb|CI750059.1|CI750059
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|33654136|gb|CF276750.1|CF276750
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88745467|gb|CI768827.1|CI768827
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88305511|gb|CI630673.1|CI630673
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|218496609|gb|FG945909.1|FG945909
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCA-CTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCGTTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88393359|gb|CI618247.1|CI618247
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88305623|gb|CI631990.1|CI631990
EST:     TCGNCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|58586987|gb|CF985295.1|CF985295
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88723691|gb|CI747201.1|CI747201
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88744040|gb|CI767400.1|CI767400
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88392419|gb|CI612893.1|CI612893
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|218495940|gb|FG948496.1|FG948496
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCGTTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|218498577|gb|FG966054.1|FG966054
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCGTTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88326392|gb|CI659822.1|CI659822
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
EST: gi|88383951|gb|CI631841.1|CI631841
EST:     TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAG                         GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG
genomic: TCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 73 (upstream exon), 44 (downstream exon)
Score: 36

TCCGAAGCTGGTGGAGGTGACGCAGCTCTTCTCCCGCTTCAAGGCAGCCTTCGCCAGGAACGACTTCGACACCTGCGTAGACCTGCTGTCGCAGCTCAAGgtcgatcccc ... ccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtgtaaattttgtgaatttcatgtgttgacatgtggtacccctccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGA
                         tgttgac  putative branch site (score: 36)
                                      tacccctcctt  putative PPT
     taaattttgtgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttagattattatcgaagtccaattctgatttggcactacagggaggtgtaaattttgtgaatttcatgtgttgacatgtggtacccctccttgtgcagGTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA