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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAACAAGAACAGAAGACTTTATTGTGGACACTCTTAAGCTACGCATATACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaaactacaaaataatgcctctatgtactcgaatttctggttttcattcgtccttggtcaaatag

Basic information

species Zea mays
transcript GRMZM2G000749_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000749_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g06190.1 (Oryza sativa), 5'ss of exon 3
TTCAACAAGAACAGAAGACTTTATTGTGGACACTCTTAAGCTACGCATATACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgttt-------------------ttaaaaactaca--------aaataat--gcctctatgtactcgaatttctggtt--ttcattcgtccttggtcaaatag
||||||||||||||| || ||| |||| ||||| ||||| || |||||||||||||||||||| ||| |||| | ||| ||||||||||| |||||||||||||                   || |  | |  |        ||||  |    |  | || |||| |||||||| ||  ||  ||  | ||||  |||| ||
TTCAACAAGAACAGAGGATTTTGTTGTAGACACCCTTAAACTTCGCATATACATTGGTCTCTACTTGAAAGAACATTTTAAAGATCCAACCAAGAGAAAGgtttcttctgcgttctccaattgtttatcattttattgaggggaaattgtttatcattgtgaactcaaatttctgtttacttggtttcttcttgtgcaaaaag
















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|211268121|gb|FL015554.1|FL015554
EST:     ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAG                         GTAATGCATGGTGCGGATCG
genomic: ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGGATCG
EST: gi|60338799|gb|DN205772.1|DN205772
EST:     ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAG                         GTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCAC
genomic: ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCAC
EST: gi|211270566|gb|FL015574.1|FL015574
EST:     CATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAAG                         GTAATGCATGGTGCGG
genomic: CATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAA-Ggtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGG
EST: gi|211270560|gb|FL015568.1|FL015568
EST:     ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAG                         GTAATGCATGGTGCGGATCGTGATAT
genomic: ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGGATCGTGATAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCAACAAGAACAGAAGACTTTATTGTGGACACTCTTAAGCTACGCATATACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaaactacaaaataatgcctctatgtactcgaatttctggttttcattcgtccttggtcaaatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA