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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctcgtcatattgtgtgttaatagtatagaatttgaatatgaatttttctcatactcaagtttaactaatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCTTCTTTGAAGAAGCGCAAGCAGTTAACCATGGACGATTATGCAAGCACG

Basic information

species Glycine max
transcript GLYMA15G10370.1
intron # 23
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|58023312|gb|CX710053.1|CX710053
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|10238767|gb|BE807655.1|BE807655
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTNTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|5666622|gb|AI930658.1|AI930658
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTCGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|254334395|gb|GR844180.1|GR844180
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCC-AA---A                         AGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|57575241|gb|CX548216.1|CX548216
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|192313279|gb|FK005051.1|FK005051
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GTATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACTGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|31561349|gb|CD487187.1|CD487187
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|4290919|gb|AI441687.1|AI441687
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCC-AA---A                         AGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|31476136|gb|CD418164.1|CD418164
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCC-AA---A                         AGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|22934172|gb|BU551311.1|BU551311
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCC-AA---A                         AGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|18692734|gb|BM521582.1|BM521582
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|7796461|gb|AW781858.1|AW781858
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|6847014|gb|AW349304.1|AW349304
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCC-AA---A                         AGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|214005607|gb|DB984615.1|DB984615
EST:     GGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCC-AA---A                         AGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
EST: gi|7589626|gb|AW705396.1|AW705396
EST:     TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAA---A                         -GCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT
genomic: TGATGAGAGGGAGAGACAAGCTCGCAAAGAGAAGAAACTTGCCAAAGTTAgtttctcgtc ... aatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtatagaatttgaatatgaatttttctcatactcaagtttaactaatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCTTCTTTGAAGAAGCGCAAGCAGTTAACCATGGACGATTATGCAAGCACG
                                         aactaat  putative branch site (score: 2)
     agaatttgaatatgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttctcgtcatattgtgtgttaatagtatagaatttgaatatgaatttttctcatactcaagtttaactaatatttcagAGCATGACCCCATCGAAGCGTGCTTTGGCAAGACAGACAGAGAGTCCATCTTCTTTGAAGAAGCGCAAGCAGTTAACCATGGACGATTATGCAAGCACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA