Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttccaacggagcgggcgatctgtcacttgcattttgcagccgatctccttgttcgatgtcacatagctaagactcgcctcgcctcttgattcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGGAGGCGGAGGCGCCGTGCCCCGCAAGCAGGCGTCCAGATCCTCCTACATC

Basic information

species Zea mays
transcript GRMZM2G077607_T05
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G077607_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g48830.2 (Oryza sativa), 3'ss of exon 1
----tttccaacggagcgggc--gatctgtcacttgcattttgcagccgatctccttgttcgatgtcacatagctaagactcgcctcgcctcttgattcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGGAGGCGGAGGCGCCGTGCCCCGCAAGCAGGCGTCCAGATCCTCCTACATC
    |      | |||  |||  ||| ||  ||| |||||||| ||| |||||| ||  ||    ||| || |||||   ||| | ||  | |||||||  ||||||||||||||||| |||||||||||||||||||| | ||||||||| ||||||||  | ||   |||| | || |||| |||||| ||||||| | |   |
catgtgatggtctgagaaggcccgatttgcgactcgcattttgtagcagatctctttcctccg-atcaaatcgctaa---tcggcgcg--ttttgattcactgcagGTACCAAAGGCTTAGCCCGGACTGCCTCCCGCTAGCCAACGGCGGCGGCGGAGGAAGCGGTAGCGTGACACGGAAGCCGGCGTCGAGATCCTGCAAGGAC
















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|71434245|gb|DR815295.1|DR815295
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|149020916|gb|EE045759.2|EE045759
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|78079040|gb|DV507452.1|DV507452
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|71437364|gb|DR818414.1|DR818414
EST:     ACGCCGAGTCCCCTGAGGCTCAAAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|78086715|gb|DV515108.1|DV515108
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|71435554|gb|DR816604.1|DR816604
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|148957859|gb|EC904011.2|EC904011
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|148939008|gb|EC883386.2|EC883386
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|149102954|gb|EE288308.2|EE288308
EST:     ACGCCGAGTCCCCTGAGGCTCAAAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|94472405|gb|EB701363.1|EB701363
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|38687646|gb|CK144677.1|CK144677
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGGCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|91874846|gb|EB404803.1|EB404803
EST:     CCGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|148953835|gb|EC899211.2|EC899211
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|76294234|gb|DV033802.1|DV033802
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
EST: gi|149081670|gb|EE170823.2|EE170823
EST:     ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAG                         GTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG
genomic: ACGCCGAGTCCCCTGAGGCTCAGAGACCCTCCGGCATTGGACATGATGAGgtagccggca ... ttcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccttgttcgatgtcacatagctaagactcgcctcgcctcttgattcgttgcagGTACCAAAGGCTGAGCCCGGACTGCCTCCCGCTCGGCAACGGCGGTGGCGGAGGCGGAGGCGCCGTGCCCCGCAAGCAGGCGTCCAGATCCTCCTACATC
                                       tcttgat  putative branch site (score: 4)