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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgagatgttcttttattgataaattgtgtaactatttttttatttgtttatagtctctaattgatttgatgttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG

Basic information

species Glycine max
transcript GLYMA08G44590.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G44590.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0194g00030.t01 (Vitis vinifera), 3'ss of exon 2
-------gtaagtttgag--atgttcttttattgataaattgtgtaactat------ttttttatttgtttatagtctctaattgatttgatgtttttt-cagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG
       || | ||  ||  || ||| |||  | ||    ||  |  || |        |||| |||||| | |   |||| ||    |||||| || | ||||  ||||||||||| | || || ||||| || ||||| |||||||| ||||||||||| || ||||||||||||||||| || |||||||||||||||||
gtgagtagtgatttgaagtaattttcattttgtaatgtgatgcttgcctttgaatggccttttgtttgttgacaaaatctattt---ctgatgtgttctgcagACCTGGTGAACAACCTTGGGACCATTGCAAGGTCTGGAACCAAGGAGTTCATGGAAGCTTTAGCTGCTGGTGCTGATGTGAGCATGATTGGACAGTTTGG

upper sequence: GLYMA08G44590.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0015g01090.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtttgagatgttcttttattgataaattgtgtaactatttttt---tatttg---------tttatagtctctaattg--atttgatgtt----ttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG
|||||    |   ||  |   ||  |||   | | | | |||||| |    |||||         ||||| ||| ||||||   || || ||||     |||||||||||||||||||| | ||||| |||||| |||| || ||||| ||||||||||||||| |||||||||||||||||||||| |||||||| ||||||||
gtaagcagaaatagtagtagcatgcatatggtttatcattattttataaacatttgaaactgatgtttat-gtccctaattattatctgctgttaatgctttcagATTTGGTGAACAACCTTGGTACCATTGCTCGATCAGGAACCAAAGAATTCATGGAAGCCCTGGCTGCTGGTGCTGATGTTAGCATGATTGGGCAGTTTGG

upper sequence: GLYMA08G44590.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ29061 (Selaginella moellendorffii), 3'ss of exon 2
gtaagtttgagatgttcttttattgataaattgtgtaactatttttttatttgtttatagtctctaattgatttgatgttttttc-agATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG
                          ||| ||       |    || |   |      |||   || |||  |     || |||| |||| | ||||||||| | || |||||||| || ||||| |||||||| ||||||||||||||||| ||||| || |||||    ||||| || ||||||||
-------------------------gtaagtttctagcttccagttcttcctagccggagttcttacttgtatgctcattctttctagATCTCGTGAACAACCTCGGCACAATTGCCAGGTCTGGCACCAAGGAGTTCATGGAAGCCTTGGCCGCTGGCGCCGATGTGTCCATGATCGGTCAGTTTGG

upper sequence: GLYMA08G44590.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ17594 (Selaginella moellendorffii), 3'ss of exon 2
gtaagtttgagatgttcttttattgataaattgtgtaactatttttttatttgtttatagtctctaattgatttgatgttttttc-agATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG
                          ||| ||       |    || |   |      |||   || |||  |     || | || |||| | ||||||||| | || |||||||| || ||||| |||||||| ||||||||||||||||| ||||| || |||||    ||||| || ||||||||
-------------------------gtaagtttctagcttccagttcttcctagccggagttcttacttgtatgctcattctctctagATCTCGTGAACAACCTCGGCACAATTGCCAGGTCTGGCACCAAGGAGTTCATGGAAGCCTTGGCCGCTGGCGCCGATGTGTCCATGATCGGTCAGTTTGG

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|298170259|gb|HO018883.1|HO018883
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|213593733|gb|DB971755.1|DB971755
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|213619460|gb|DB969439.1|DB969439
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|209711577|gb|BW676822.1|BW676822
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|213611019|gb|DB970946.1|DB970946
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|298181070|gb|HO022509.1|HO022509
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|9987184|gb|BE661292.1|BE661292
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|298181415|gb|HO022854.1|HO022854
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|24206330|gb|BU965583.1|BU965583
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|213600196|gb|DB970258.1|DB970258
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|209705290|gb|BW678457.1|BW678457
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGNGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|48575038|gb|CO036203.1|CO036203
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTAC
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTAC
EST: gi|213616683|gb|DB971222.1|DB971222
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|192323768|gb|FK015594.1|FK015594
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|298178040|gb|HO023889.1|HO023889
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|9987182|gb|BE661290.1|BE661290
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|208269662|gb|GE073036.1|GE073036
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGT
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGT
EST: gi|6667333|gb|AW278784.1|AW278784
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|208295524|gb|GE092697.1|GE092697
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         NTTTGGTGAACAACTTGGGT
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGT
EST: gi|213591365|gb|DB955713.1|DB955713
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|213587826|gb|DB959650.1|DB959650
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA
EST: gi|151407443|gb|EV277258.1|EV277258
EST:     TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTG                         ATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCTAGGAATTCA
genomic: TAACAATACACTGACCATTGTTGACAGTGGTATTGGCATGACCAAAGCTGgtaagtttga ... gttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtaactatttttttatttgtttatagtctctaattgatttgatgttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG
                                            tgttttttc  CT-rich tract
       tatttttttatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttgagatgttcttttattgataaattgtgtaactatttttttatttgtttatagtctctaattgatttgatgttttttcagATTTGGTGAACAACTTGGGTACAATTGCTAGATCTGGTACCAAGGAATTCATGGAAGCCTTGGCTGCTGGTGCTGATGTTAGTATGATTGGACAGTTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT