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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgctttcattgcctccattctcttcaattacatttaactcagaggttgctaatggaacaatgactggagagaaatgtaaacctgaagtagccaaaactggacttgggtcatcagctgccatgaccacatcagttgttgcagctcttcttcactatcttggtgctgttaacctctcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACGCTATTGCCCAAAGTGCACATTGTTTAGCACAAGGGAAAATTGGCAGTGG

Basic information

species Zea mays
transcript GRMZM2G030839_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030839_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g14830.1 (Oryza sativa), 3'ss of exon 5
gtactgctttcattgcctccattctcttcaattacatttaactcagaggttgctaatggaacaatgactggagagaaatgtaaacctgaagtagccaaaactggacttgggtcatcagctgccatgaccacatcagttgttgcagctcttcttc--actatcttggtgctgttaacctc-tcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGA-CGAGAACTTGACTTGGTTCACGCTATTGCCCAAAGTGCACATTGTTTAGCACAAGGGAAAATTGGCAGTGG
                        |   ||  |  |  | |        || | |     |  |    |  ||||   ||  |   | || ||   |   || |   |     |||   |  |  ||    | ||  ||      ||||   ||      | ||| |   |||  |  | |  ||||||     || |  |   ||   ||| | |||| | |  |                                                                 
------------------------ttcccatgtttaacttatgtgtgaattacaatgcagatcacccttaaagagttgtgccactgttaaataattag--cttgctattttctatcgtttctccagATTGAAGCACGTGGCCTTCCTCTAACTCCAGAGGTATTGCTTTCGTTGCCTCCATTCTGTTCAATTACATTTAATTCAGAAGTTGCTAATGGAACAATGA-----------------------------------------------------------------

upper sequence: GRMZM2G030839_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g48160.1 (Oryza sativa), 3'ss of exon 7
gtactgctttcattgcctccattctcttcaattacatttaactcagaggttgctaatggaacaatgactggagagaaatgtaaacctgaagtagccaaaactggacttgggtcatcagctgccatgaccacatcagttgttgcagctcttcttcactatcttggtgctgttaacctctcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACGCTATTGCCCAAAGTGCACATTGTTTAGCACAAGGGAAAATTGGCAGTGG
                    | ||||||     |   |||||| |  |  ||   ||    || |   |||||     ||      | || ||   ||  || | |||    || |   |  |  ||    | ||   || ||  | ||    | | |     |   | ||    || |    ||    |  ||   |  |    |    ||  |  |  ||    |                                                            
--------------------actctcttt--ccatgattaacttat-gtctgaatataactcactt-ttggagcattgtgccgctgttaaataattaa--cttgtctttttccaccgtttctccagATTGAAGCA--CGTGGCCTCCCTCTAACTCCAGACCAGAAGTATTGCTTTCGCTGCCTCCATTCTGTCCAATTACATTTAATTCAGAAGTTGCTAATGGAAT-----------------------------------------------------------
















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|31664398|gb|CD573123.1|CD573123
EST:     ATTGAAGCACGTGGTCTCCCTCTTACTCCGGAG                         GACAATCTTCTGGCGACAATGCAAG-GGACGAGAACTTGACTTGGTTCACG
genomic: ATTGAAGCACGTGGTCTCCCTCTTACTCCGGAGgtactgcttt ... tcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACG
EST: gi|31664518|gb|CD573451.1|CD573451
EST:     ATTGAAGCACGTGGTCTCCCTCTTACTCCGGAG                         GACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACG
genomic: ATTGAAGCACGTGGTCTCCCTCTTACTCCGGAGgtactgcttt ... tcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACG
EST: gi|31664553|gb|CD573486.1|CD573486
EST:     ATTGAAGCACGTGGTCTCCCTCTTACTCCGGAG                         GACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACG
genomic: ATTGAAGCACGTGGTCTCCCTCTTACTCCGGAGgtactgcttt ... tcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagttgttgcagctcttcttcactatcttggtgctgttaacctctcatgttcagGACAATCTTCTGGCGACAATGCAAGTGGACGAGAACTTGACTTGGTTCACGCTATTGCCCAAAGTGCACATTGTTTAGCACAAGGGAAAATTGGCAGTGG
                                   tgttaac  putative branch site (score: 2)
                                         cctctcat  CT-rich tract