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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtatttttttttctttttataccaatggatattaaatacaatttccttgtatcaaatgttgtgccttggatgttgtattacatttctgaaaagaggttatgcatgtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGACGGCACTGTACCTGCAACATTCCAG

Basic information

species Glycine max
transcript GLYMA12G37130.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G37130.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv18s0001g06830.t01 (Vitis vinifera), 3'ss of exon 9
-----------------------------------------------gtaaagtatttttttttctttttatac-caatggatattaaatacaatttcct-tgtatcaaatgttgtgccttggat--------gttgta-ttacatttctgaaaag---aggttatgcatgtatgaa--cagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGACGGCACTGTACCTGCAACATTCCAG
                                               ||  | | ||||||  | ||||   |   |||| ||  |  || |  ||   | | |||      || |  ||  ||         ||| || ||| ||   ||  ||       || ||  |  |||||  |||||| ||||||| || |||||  |||||||||||||| ||||||||||||||||| | | |||||| |||||  | || ||||| ||||||
gtaagatttttttctctttttttaaaattgttatttttaaaatttaggtttaattttttttacttttttcgcatataatgaatgcttcattcttttggatatatattctgctttcttactgagagtcagcttggttctacttatatcattggcaattttgatttgtgtctcaatgaaatcagATCTTAAAGAGAGAAACAGCCCTAGCAACTGCAGCTGTTTATGATTCAATGTTTGCAGGAGAAGATGGCACCATTCCCGCAACCTTCCAG
















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|213593987|gb|DB981371.1|DB981371
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|6846254|gb|AW348544.1|AW348544
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|254345258|gb|GR855808.1|GR855808
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|192297062|gb|FG990333.1|FG990333
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|26057334|gb|CA800248.1|CA800248
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|15200173|gb|BI424211.1|BI424211
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|6071750|gb|AW101137.1|AW101137
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|15285724|gb|BI469615.1|BI469615
EST:     GGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: GGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|208246428|gb|GE050242.1|GE050242
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|51335049|gb|CO978915.1|CO978915
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
EST: gi|192299412|gb|FG992530.1|FG992530
EST:     AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAAT                         ATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG
genomic: AACATCTCCGTGCAATGGGTGAAACAAATGCTCTTTATCAAATGAACAATgtaaagtatt ... gtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgccttggatgttgtattacatttctgaaaagaggttatgcatgtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGACGGCACTGTACCTGCAACATTCCAG
                tattacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagtatttttttttctttttataccaatggatattaaatacaatttccttgtatcaaatgttgtgccttggatgttgtattacatttctgaaaagaggttatgcatgtatgaacagATCCTAAAGAGGGACACAGCGTTAGCAACTGCAGCTATTTATGATTCAATGTTTTCTGCAGAAGACGGCACTGTACCTGCAACATTCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG