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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaggtttcaacttctccctgactaatcatgcacaccaatgccctatttgttactattagggttgcattctctcactgtttactctttttttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG

Basic information

species Glycine max
transcript GLYMA02G17430.1
intron # 1
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|7639290|gb|AW733616.1|AW733616
EST:     AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATG                         CTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
genomic: AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATGgtagtagttc ... tttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
EST: gi|193406386|gb|FK373035.1|FK373035
EST:     AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATG                         CTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
genomic: AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATGgtagtagttc ... tttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
EST: gi|254324586|gb|GR834011.1|GR834011
EST:     CCTCTGCAACCACCGATTCCAACCATG                         CTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
genomic: CCTCTGCAACCACCGATTCCAACCATGgtagtagttc ... tttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
EST: gi|193581035|gb|FK535976.1|FK535976
EST:     AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATG                         CTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
genomic: AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATGgtagtagttc ... tttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
EST: gi|298174084|gb|HO017420.1|HO017420
EST:     AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATG                         CTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
genomic: AAACACACAGTTAGCACCGTCAACCTCTGCAACCACCGATTCCAACCATGgtagtagttc ... tttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttgttactattagggttgcattctctcactgtttactctttttttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG
                         ctctcac  putative branch site (score: 3)
                       ttctctcactgtttac  CT-rich tract
                                  tttactcttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacaggtttcaacttctccctgactaatcatgcacaccaatgccctatttgttactattagggttgcattctctcactgtttactctttttttgctgcagCTTCCCCTTTCCCTTCTCAAGACTGCCCAAGGCCACCCCATG

- - - - - - -ttctccc
- - - - - - - - - - - - - - - -gcacacc
- - - - - - - - - - - - - - - - - - - aatgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggttgc