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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATAGAGCACCTGAGCTTATATTTGGAGCAACTGAATATACTACAGCTATTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggttgttgatgggagctcctttgattctgtggtttagtatatgtaaaaatgaagtttgtttcttttttatttttccag

Basic information

species Glycine max
transcript GLYMA03G38850.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38850.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
TTATAGAGCACCTGAGCTTATATTTGGAGCAACTGAATATACTACAGCTATTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt-gttgatgggagctcctttgattctgtggtttagtatatgtaaaaatgaagtttg--tttcttttttattttt-ccag
||| || || |||||||||||||||||||||||||| || |||||||||||||| || ||||| |  || || ||  |||||||| | |||||||||||||| ||| |||  ||||||   |    |       ||   | ||  ||   |  || |    ||    | | | ||  ||||||  |||
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtttattgatgctggtcgttgcagaagtgca-tctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag
















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|192296807|gb|FG993105.1|FG993105
EST:     TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAG                         CCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
genomic: TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt ... atttttccagCCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
EST: gi|17519874|gb|BM188916.1|BM188916
EST:     TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAG                         CCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
genomic: TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt ... atttttccagCCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
EST: gi|15285595|gb|BI469486.1|BI469486
EST:     TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAG                         CCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
genomic: TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt ... atttttccagCCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
EST: gi|21888144|gb|BQ741366.1|BQ741366
EST:     TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAG                         CCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
genomic: TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt ... atttttccagCCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
EST: gi|10843182|gb|BF066495.1|BF066495
EST:     TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAG                         CCCTTGTTCCCCGGTGAGAGTGGAGT
genomic: TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt ... atttttccagCCCTTGTTCCCCGGTGAGAGTGGAGT
EST: gi|208199154|gb|GD999479.1|GD999479
EST:     TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAG                         CCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG
genomic: TTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt ... atttttccagCCCTTGTTCCCCGGTGAGAGTGGAGTTGATCAGCTTGTTGAGATCATCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATAGAGCACCTGAGCTTATATTTGGAGCAACTGAATATACTACAGCTATTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggttgttgatgggagctcctttgattctgtggtttagtatatgtaaaaatgaagtttgtttcttttttatttttccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT