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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catagaggatgtaatcctctataatctattttccagtggtattttttttgttaatgttattgttattttgttgttgtcattgtcattattattatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAAAAATAGTTAGCAAG

Basic information

species Glycine max
transcript GLYMA10G04480.1
intron # 3
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|298172859|gb|HO019843.1|HO019843
EST:     TAAGGGAGGAGTGCGCATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGT
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGT
EST: gi|298184950|gb|HO030163.1|HO030163
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCC
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCC
EST: gi|298176586|gb|HO023173.1|HO023173
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|17518793|gb|BM187835.1|BM187835
EST:     TTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|61241640|gb|DN591031.1|DN591031
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|19347335|gb|BM892215.1|BM892215
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|15000418|gb|BI321232.1|BI321232
EST:     GGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: GGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|209712883|gb|BW679160.1|BW679160
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|192308759|gb|FG999784.1|FG999784
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|151397308|gb|EV267181.1|EV267181
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
EST: gi|151409274|gb|EV279082.1|EV279082
EST:     TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTG                         GGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA
genomic: TAAGGGAGGAGTGCACATTGTTAAGACTGACCAGGTTGAAGACATAGCTGgtaatgcatg ... attatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgttaatgttattgttattttgttgttgtcattgtcattattattatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAAAAATAGTTAGCAAG
   tgttaat  putative branch site (score: 3)
                                              ttatttc  putative PPT
     ttaatgttattgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catagaggatgtaatcctctataatctattttccagtggtattttttttgttaatgttattgttattttgttgttgtcattgtcattattattatttcagGGAAGATGCTTGGACAGATACTAGTTACCAAACAGACTGGTCCTCAGGGAAAAATAGTTAGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - gaggatg
- - - - - - - - - - - - - - - -tccagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtc