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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgagttttgctgcgtgcagttaccaatttattcaccgttgaggatcatgagctttgcttctgattatctcacttatcttgttttgtttgccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG

Basic information

species Zea mays
transcript GRMZM2G101217_T02
intron # 8
splice site 3'
intron type U2

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|60352980|gb|DN219953.1|DN219953
EST:     ACAGGGCTCCATTGGTTTCATCAAAG                         AAGGAATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
genomic: ACAGGGCTCCATTGGTTTCATCAAAGgtgagtgtcc ... gccattgtagAAGG-ATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
EST: gi|211301901|gb|FL443563.1|FL443563
EST:     TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAG                         AACGATGGAAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
genomic: TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAGgtgagtgtcc ... gccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
EST: gi|50337134|gb|CO532260.1|CO532260
EST:     TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAG                         AAGGATGGGAAGACATCAGATCATCGCAACTAC-TTGATGCTCAG
genomic: TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAGgtgagtgtcc ... gccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
EST: gi|76910426|gb|DV163864.1|DV163864
EST:     TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAG                         AAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
genomic: TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAGgtgagtgtcc ... gccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
EST: gi|50325601|gb|CO520727.1|CO520727
EST:     TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAG                         AAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
genomic: TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAGgtgagtgtcc ... gccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
EST: gi|50336105|gb|CO531231.1|CO531231
EST:     TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAG                         AAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
genomic: TTCCAGACGTTAGCATACCTGGTGACAGGGCTCCATTGGTTTCATCAAAGgtgagtgtcc ... gccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatgagctttgcttctgattatctcacttatcttgttttgtttgccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG
                      atctcac  putative branch site (score: 3)
                                     ttttgttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgagttttgctgcgtgcagttaccaatttattcaccgttgaggatcatgagctttgcttctgattatctcacttatcttgttttgtttgccattgtagAAGGATGGGAAGACATCAGATCATCGCAACTACTTTGATGCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA