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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataattcctacacctgcctcccctcctatatactatataggcattaacaattgtgtatttcttttatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT

Basic information

species Zea mays
transcript GRMZM2G155729_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os08g10600.3 (Oryza sativa), 3'ss of exon 11
gtataattcctacacctgcc--tcccctcc----tatatactatataggcattaacaattgtgt-atttcttttatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT
||||   || |     | ||  ||||||||    |  || || |||| |  || | |||  | | | |   ||| |||||  | | ||| ||||||||||||||||||||||||| || ||||| ||||| |||||||||||||| |||||
gtatgtctcttcttattccctttcccctccactgtccatcctttataagtgttgataatcattttactatctttctgtca--gGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT

upper sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 12
------------------------gtataattcctacacctgcctcccctcctatatactatataggcattaacaattgtgtatttcttttatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT
                         || | ||            |  |   ||   |  ||  |   | | || | || ||  |  | ||    |   || ||||||| || ||||| ||| |||||||||||||||||||| ||||  | |||||||| || |||||
acagatcatgaaaatatttgtactttagagtttgattgttatttttactggctgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT

upper sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 11
--------------------gtataattcctacacctgcctcccctcctatat-actatataggc-attaacaattgtgtatttcttttatgtcat--agATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT
                     | ||||    | |   |  |        || | | |||||      ||  |  ||   || ||  ||| ||   |  || | ||||| |||||||||||| |||||||||||||||||||| ||||  | ||||| || || |||||
gcctttcaattttcagtgttatttaatattcaaaatggtattaaggatgatttgattatatgctttgttttcttttcaatagtttgtttctgcttttcagGTGTGCTTACATATGTTTACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAGAAAGACAGCAT

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|32789277|gb|CD941513.1|CD941513
EST:     CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAAT                         ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT
genomic: CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcc ... tatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT
EST: gi|74243750|gb|DT651664.1|DT651664
EST:     CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAAT                         ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCCAGTGACAAACAG
genomic: CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcc ... tatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAG
EST: gi|40303703|gb|CK348090.1|CK348090
EST:     CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAAT                         ATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT
genomic: CAACTGAAATCAATCAAACTACTGGCCGCCTTCGTTATTGCTGGAGCAATgtataattcc ... tatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccctcctatatactatataggcattaacaattgtgtatttcttttatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT
                      cattaac  putative branch site (score: 2)
                                    tatttctttt  putative PPT
       tatatactatata  TA-rich tract