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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctacgaatgctgagtctcacatatataatgccatttgatcttggagttctgaatctgtgcatggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTAATTCACTCTCCTGACATTTCTGG

Basic information

species Zea mays
transcript GRMZM2G098815_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098815_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g09610.1 (Oryza sativa), 3'ss of exon 7
-----------------------gtattctacgaatgctgagtctcacatatataatgc--catttgatcttggagttctgaatctgtgcatggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTAATTCACTCTCCTGACATTTCTGG
                       |  | |||  |||| ||  |      | ||  ||    |||   |||||  |  |  |||| | |||||||||| |||| |||||||||||||| |||||||||||||||||  ||||||| ||  | ||  ||||||||||||||  |||
cccatgccaaatgttgtgtttttggttgctaaaaatgttgtttacttattttaccatatttcatcatatcttatatctgagaatttatgcatggttttagGACCTTGTTGAACACAATCCACTCATTGCTGTTGAAATTCTTTCGAAATTGATGAACTCTCCTGACATTGATGG
















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|60342225|gb|DN209198.1|DN209198
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|110944532|gb|EE164689.1|EE164689
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGT                         GATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|71433708|gb|DR814758.1|DR814758
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|71449727|gb|DR830777.1|DR830777
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|149005335|gb|EE039886.2|EE039886
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|71759264|gb|DR957201.1|DR957201
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|84969904|gb|DW468307.1|DW468307
EST:     CTAAACTGGTTTATTTTTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|78117670|gb|DV536057.1|DV536057
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|211480513|gb|FL444430.1|FL444430
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTTTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
EST: gi|76014272|gb|DT941442.1|DT941442
EST:     CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTG-AT--                         ---CTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA
genomic: CTAAACTGGTTTATTATTGTGGGATGACTCCACAGAAGCTTCCTGTATGTgtattctacg ... atggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcacatatataatgccatttgatcttggagttctgaatctgtgcatggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTAATTCACTCTCCTGACATTTCTGG
     atatataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattctacgaatgctgagtctcacatatataatgccatttgatcttggagttctgaatctgtgcatggtttcagGATCTTGTTGAACACAACCCACTCATTGCTGTTGAGGTTCTTTCAAAGCTAATTCACTCTCCTGACATTTCTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT