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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgctaaactggcatctccgtgatgaaataactgtacctaaagcttatgttcaattctggtttgacatatactgcatgcatgcctgtagagtacagtccttacccttttgtttcgataagttattgacccccccccccccccctctgtttggcatctatcagGTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTTCTCGTTGAATCATTATTTGGTGCAACATTTCATCAAATTCCTATGAGGG

Basic information

species Zea mays
transcript GRMZM2G450659_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G450659_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g47210.1 (Oryza sativa), 3'ss of exon 10
gtatgtgctaaactggcatctccgtgatgaaataactgtacctaaagcttatgttcaattctggtttgacatatactgcatgcatgcctgtagagtacagtccttacccttttgtttcgataagttattgacccccccccccccc---cctctgtttggcatctatcagGTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTTCTCGTTGAATCATTATTTGGTGCAACATTTCATCAAATTCCTATGAGGG
                                                                 || | ||||     ||| |    | ||  || | ||  |  ||||||    ||  |   |  || |       |||       | | | |     | ||| |||||  |||||  ||||||||| ||||| ||||||||||| || ||||| || || || ||||||||||||||||| ||||||||||||||||||||| |||
-----------------------------------------------------------------ttaatatatgtca-atgaaaaagt-taatgtgcggtgat--ccctttaacatcattgcatacttaaaattttgcccttttgggcatttttgaaatacctaacagGTGGTTGCAGCATACTTTCCATTGTCCCAGTGCCTAAAGGGCTTAAACGTGCTGGTGGAATCATTATTTGGTGCCACATTTCATCAAATTCCTATGGGGG

upper sequence: GRMZM2G450659_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G51540.1 (Arabidopsis thaliana), 3'ss of exon 10
gtatgtgctaaactggcatctccgtgatgaaataactgtacctaaagcttatgttcaattctggtttgacatatactgcatgcatgcctgtagagtacagtccttacccttttgtttcgataagttattgacccccccccccccccctctgtttggcatctat-cagGTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTTCTCGTTGAATCATTATTTGGTGCAACATTTCATCAAATTCCTATGAGGG
        |||  ||   | |   |  | |  |  || |   |       |    || ||| | ||    || | |    || || | | | | |  |  |      | ||||  |||  |   | |     | |    |   | |   ||         | | |||||| | |||  ||| |||||  || | |||||  |  ||||  |||| || || ||||||||||||||||||||||||||||||   |||||| |   | 
-------gtaagttgc--ttttgttatttatttttctattgttgtgctgcaaaagcacttcggcttctctatcttcattttgtatacttat-gggagctttttggttctttttacttctgttgctaagacttctcttgtcatgctctgttggaatattcttgtacagGTTGTAGCATCATATTTTCCTCTGCCACAGTGTATTGAAGGCCTAAAAGTGCTTGTTGAATCATTATTTGGTGCAACATTTCATACTATTCCTCTCGCGC
















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|26557906|gb|CA830141.1|CA830141
EST:     ATTACTTCATTGGAATGATGAAATCATCTGTATATGACCTGGACGCTTCA                         GTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTT
genomic: ATTACTTCATTGGAATGATGAAATCATCTGTATATGACCTGGACGCTTCAgtatgtgcta ... catctatcagGTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTT
EST: gi|21891714|gb|BQ744927.1|BQ744927
EST:     ATTACTTCATTGGAATGATGAAATCATCTGTATATGACCTGGACGCTTCA                         GTTATTGCAAAATACTTTCCCTTGTCGCAGCGCCTAAAAGGGTTAAATGTT
genomic: ATTACTTCATTGGAATGATGAAATCATCTGTATATGACCTGGACGCTTCAgtatgtgcta ... catctatcagGTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttcgataagttattgacccccccccccccccctctgtttggcatctatcagGTTATTGCAAAATACTTTCCCTTGTCGCAGTGCCTAAAAGGGTTAAATGTTCTCGTTGAATCATTATTTGGTGCAACATTTCATCAAATTCCTATGAGGG
              tattgac  putative branch site (score: 2)
                    cccccccccccccccc  CT-rich tract
        ataagttatt  TA-rich tract