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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcccagtgctacatcatgatgttttcctatccgtgttataatccctgtatcagtctctgatggccttgcttcctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAGGAGATGACAAACGCGGCGGACCCCTTCATTTTTCTGACACTTGTGAATC

Basic information

species Zea mays
transcript GRMZM2G073571_T01
intron # 14
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|21891652|gb|BQ744865.1|BQ744865
EST:     AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAG                         AGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
genomic: AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAGgttcccagtg ... cctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
EST: gi|60401555|gb|DN234362.1|DN234362
EST:     AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAG                         AGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
genomic: AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAGgttcccagtg ... cctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
EST: gi|3172014|gb|AJ006545.1|AJ006545
EST:     AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAG                         AGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
genomic: AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAGgttcccagtg ... cctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
EST: gi|58029614|gb|CX725041.1|CX725041
EST:     AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAG                         AGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
genomic: AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAGgttcccagtg ... cctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG
EST: gi|20208502|gb|BQ134591.1|BQ134591
EST:     AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAG                         AGAAAGAAGAAAACAATGTTCTGCTACTAGGACA-CACCTGCTTCCGTGAG
genomic: AAGAGGAACTGCTCGCGAACATCGACAGCAAGGAGATTGCCAGGGCTCAGgttcccagtg ... cctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatccgtgttataatccctgtatcagtctctgatggccttgcttcctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAGGAGATGACAAACGCGGCGGACCCCTTCATTTTTCTGACACTTGTGAATC
                            ctctgat  putative branch site (score: 4)
                                     ccttgcttcctgtt  putative PPT
       tgttataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcccagtgctacatcatgatgttttcctatccgtgttataatccctgtatcagtctctgatggccttgcttcctgttgcagAGAAAGAAGAAAACAATGTTCTGCTACTAGGACAACACCTGCTTCCGTGAGGAGATGACAAACGCGGCGGACCCCTTCATTTTTCTGACACTTGTGAATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG