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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttcctgtagaatttatttattatcttgttaactggattttttttggttcttaagagcgagtttaatgatatgatgtatgctatttttttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG

Basic information

species Zea mays
transcript GRMZM2G324540_T01
intron # 15
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|211013333|gb|FL464492.1|FL464492
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|211328788|gb|FL441397.1|FL441397
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|211328787|gb|FL441396.1|FL441396
EST:     CTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGATTTTGATTTTAGTGGAAACTATCCTTGCCATTGGTGGTTCAGATATA
genomic: CTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTAT-CTTGCCATTGGTGGTTCAGATATA
EST: gi|211125230|gb|FL005603.1|FL005603
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|16379531|gb|BI993008.1|BI993008
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCCATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|37394216|gb|CF634379.1|CF634379
EST:     AAATTTTAGGACTTTCTCTCCCTATGANTTAGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|32932206|gb|CF037018.1|CF037018
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|32835196|gb|CD974874.1|CD974874
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|32834072|gb|CD973750.1|CD973750
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|32931746|gb|CF036558.1|CF036558
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|13490541|gb|BG517305.1|BG517305
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|116828456|gb|EC857640.1|EC857640
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
EST: gi|32835644|gb|CD975322.1|CD975322
EST:     AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTG                         TGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA
genomic: AAATTTTAGGACTTTCTCTCCCTATGATTTGGACACGCCAACCAATACTGgtaagtaact ... ttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggttcttaagagcgagtttaatgatatgatgtatgctatttttttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG
                 gtttaat  putative branch site (score: 4)
                                   tgctatttttttcctt  putative PPT
                  tttaatgatatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcttcctgtagaatttatttattatcttgttaactggattttttttggttcttaagagcgagtttaatgatatgatgtatgctatttttttccttgcagTGGAATTTGATTTTAGTGGAAACTATCTTGCCATTGGTGGTTCAGATATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG