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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttttatccatttattctgtcatcatcatcataagtagttgagtttttatgtgtgttgagtgaagtgttgacaatgcaatccaccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTGGATGGATTGGCCTCACGCTCTGCTGAGTACTACAAGCAAGGCGCTCGTT

Basic information

species Arabidopsis thaliana
transcript AT2G01140.1
intron # 2
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|164139866|gb|ES015555.1|ES015555
EST:     AAGTTGACAAG                         GGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
genomic: AAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
EST: gi|164208559|gb|ES085760.1|ES085760
EST:     TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTG-CAAG                         GGCTTGTNTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCC
genomic: TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCC
EST: gi|116486331|gb|EG528923.1|EG528923
EST:     TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAG                         GGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
genomic: TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
EST: gi|47831930|gb|CK121614.1|CK121614
EST:     TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAG                         GGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
genomic: TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
EST: gi|124762231|gb|EH852361.1|EH852361
EST:     TCGATTGCTTGCGCGATGCCAACATCATCCCTGGCATCAAAGTTGACAAG                         GGCTTGTCTCCCCTAGCCGGTTCC
genomic: TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCC
EST: gi|164037603|gb|ES131258.1|ES131258
EST:     CCAACATCGTCCCTGGCATCAAAGTTGACAAG                         GGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
genomic: CCAACATCGTCCCTGGCATCAAAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
EST: gi|116486329|gb|EG528921.1|EG528921
EST:     TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAG                         GGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG
genomic: TCGATTGCTTGCGCGATGCCAACATCGTCCCTGGCATCAAAGTTGACAAGgtatttttta ... caccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgagtttttatgtgtgttgagtgaagtgttgacaatgcaatccaccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTGGATGGATTGGCCTCACGCTCTGCTGAGTACTACAAGCAAGGCGCTCGTT
                             tgttgac  putative branch site (score: 3)
     agtttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttttatccatttattctgtcatcatcatcataagtagttgagtttttatgtgtgttgagtgaagtgttgacaatgcaatccaccgcgtagGGCTTGTCTCCCCTAGCCGGTTCCAACGAAGAGTCTTGGTGCCAAGGCTTGGATGGATTGGCCTCACGCTCTGCTGAGTACTACAAGCAAGGCGCTCGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG