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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttcttcacctaccatttgcttttcatttcatattactttttgaattagactgacattcagtgttgctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAGAATGGTTTCCCTGTTTTTGCCACAGTGGTTGAGGCAAACTATGTGGCAA

Basic information

species Zea mays
transcript GRMZM2G139894_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 8
gtaatttttcttcacctaccatttgcttttcatttcatattactttttgaattagactgacattcagtgttg--ctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAGAATGGTTTCCCTGTTTTTGCCACAGTGGTTGAGGCAAACTATGTGGCAA
|||| | |||| ||  |||| |||   ||||  | ||| ||| | |   ||  |   |   ||| | | |    |  | | ||||||||||||||||||||||| || ||||||||| |||||||||||||||||||||||||||| |||||||||||||| || |||||||||||||||||||
gtaagtcttctgcatgtaccttttttatttc--tacatcttattgtagaaagcatgttctaattgactatctgcccatgttcagGAGGTCACTGGGATATACACCAACAATTTTGACTTGTCTTTGAATACAAAGAATGGTTTCCCAGTTTTTGCCACAGTAGTGGAGGCAAACTATGTGGCAA

upper sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 8
lower sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 6
--gtaatttttcttcacctaccatttgcttttcattt-catat-tactttttgaattagac-tgacattcagtgttg--ctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAGAATGGTTTCCCTGTTTTTGCCACAGTGGTTGAGGCAAACTATGTGGCAA
      |  |  |  |    || | |    | | |   || || ||  |  | ||| |  | ||  ||   |  |||   | | | |||||||| ||||| ||||| || || || |||||||| |||||||| ||||||||||| || || || |||||||| ||||| || || ||||||||  |||
gtacgttcatcatatattagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA

upper sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 7
------------------------------gtaatttttctt-cacct-accatttgcttttcatttcatattactttttgaattagactgacat--tcagtgttgctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAGAATGGTTTCCCTGTTTTTGCCACAGTGGTTGAGGCAAACTATGTGGCAA
                               |  ||||| || ||| | |  ||     ||    |    ||| |    |||| |    | ||||  ||  |||   |   | ||||||||||| || || ||||| |||||||||||||| ||  ||||||| |||||||| || ||||| |||||||| || || |||||||| |||||  |||
gtaatacccttatgtctgcacttcttttatctggtttttgttgcacttgattatcctggttatgatagggattgccacctgaacttctgttacatgttccatgtgatttatttcagGAGGTCACAGGTATTTACACGAATAATTTTGACCTCTCCCTGAATACGAAGAATGGATTTCCTGTATTTGCCACTGTAGTCGAGGCAAATTATGTCACAA

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|211351168|gb|FL066628.1|FL066628
EST:     TCATACTTCTGAATGATCTGATTGACTGTGCTCGTCCAGGAGAGGAGATT                         GAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAG
genomic: TCATACTTCTGAATGATCTGATTGACTGTGCTCGTCCAGGAGAGGAGATTgtaatttttc ... ctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAG
EST: gi|211351172|gb|FL066632.1|FL066632
EST:     TCATACTTCTGAATGATCTGATTGACTGTGCTCGTCCAGGAGAGGAGATT                         GAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAG
genomic: TCATACTTCTGAATGATCTGATTGACTGTGCTCGTCCAGGAGAGGAGATTgtaatttttc ... ctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcatttcatattactttttgaattagactgacattcagtgttgctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAGAATGGTTTCCCTGTTTTTGCCACAGTGGTTGAGGCAAACTATGTGGCAA
                           gactgac  putative branch site (score: 2)
                                             ctgtctcc  putative PPT
     tttcatattacttttt  TA-rich tract