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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgatactgcctgccttgttcattgtttttggttagatatcaccgttttcttgataggaactactaatcggacaacttgaaacacagttccctagcttcatctcgtgacctggttttgttttactaatcatagaaatactaatgcctgccctccggtaatgcagGTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTGGCGAAAAGTTATGTCTATGCTTCTCTCCATGCTGTCACACTAAGGATGT

Basic information

species Zea mays
transcript GRMZM2G376074_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|60345273|gb|DN212246.1|DN212246
EST:     TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAG                         GTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTG
genomic: TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAGgtgtgatact ... ggtaatgcagGTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTG
EST: gi|113783551|gb|DW906090.1|DW906090
EST:     TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAG                         GTACCTGATTG
genomic: TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAGgtgtgatact ... ggtaatgcagGTACCTGATTG
EST: gi|76284352|gb|DV023920.1|DV023920
EST:     TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAG                         GTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTG
genomic: TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAGgtgtgatact ... ggtaatgcagGTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTG
EST: gi|60345339|gb|DN212312.1|DN212312
EST:     TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAG                         GTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTG
genomic: TATATGGCTGCACATACCTGTTGGCATAAGCTAGTTAAGGTCTCTAGAAGgtgtgatact ... ggtaatgcagGTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggttttgttttactaatcatagaaatactaatgcctgccctccggtaatgcagGTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTGGCGAAAAGTTATGTCTATGCTTCTCTCCATGCTGTCACACTAAGGATGT
                           tactaat  putative branch site (score: 1)
                                       ccctccg  putative PPT
     tttgttttactaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgatactgcctgccttgttcattgtttttggttagatatcaccgttttcttgataggaactactaatcggacaacttgaaacacagttccctagcttcatctcgtgacctggttttgttttactaatcatagaaatactaatgcctgccctccggtaatgcagGTACCTGATTGCTTCAGAGGGTAGTCAATCATGTCAGTTCTAGCAGTCCTGGCGAAAAGTTATGTCTATGCTTCTCTCCATGCTGTCACACTAAGGATGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG