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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatttctcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatattttatga...

Basic information

species Glycine max
transcript GLYMA10G27570.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G27570.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os10g32970.1 (Oryza sativa), 5'ss of exon 1
CGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatag---aatttctcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatattttatga
|||| |||| ||||| ||| ||||| |||||||  ||||| || ||||| ||||| || ||||||| |||||||||||||||||| || ||||||||| ||||       ||    |  |||   || ||  |   |||    |   |  | ||        |   | | |  |  |       |   |||  ||  | ||  
CGTTCTGGTACGACATCCAGTCCAAGCCCAAGCCCGGCGCCGCGTGGGGGACCTCGCTCCGCAAGGCCTACACCTTCGACACCGTCGAGGAGTTCTGGGGgtacgtgccgatgaagcgccctaagcccttgcccgatcc--gtttcccggtcttcggatctgatctactttctgtgttttgatcctg-tctggtagctcatat

upper sequence: GLYMA10G27570.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G022019_T01 (Zea mays), 5'ss of exon 1
CGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgta---tagaatttc--------tcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatattttatga
| || |||| ||||| |||  | ||  |||||   || ||||| ||||| ||||| ||    |||| ||||||||||||||||||||| ||||||||| ||||   | |   | |         |||| |   ||  || | | |||  |  | ||   || | |  ||    | ||       ||   |||    |  |           
CCTTCTGGTACGACATCCAGACGAAGACCAAGTCCGGGGCTGCGTGGGGCACCTCCCTCAAAAAGGCCTACACCTTCGACACCGTTGAGGAGTTCTGGAGgtacgttggcgatgcgccggataccttcatggcccggttccctttcctgatcactcccgttctgatctggtctggatgccgtggtggtttct-gggtagtg----------

upper sequence: GLYMA10G27570.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv05s0049g01770.t01 (Vitis vinifera), 5'ss of exon 1
CGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatttctcttcctcctcctttttcttc--tcccaaatattcattttt--ttagatgaagggaatctaagcatgcaa-tctcaaatcttatattttatga
| || |||| ||| ||||| ||||| |||||||||||||| |||||||| ||||||||||||||||  ||||||||||| ||||| ||||| || |||||||||     |           || ||  ||||   |  | ||| ||   || |  || | |||  ||||   | ||| | || |     | |||  ||||     
CCTTCTGGTTCGATAACCAGTCCAAGCCCAAGCAAGGCGCGGCTTGGGGGACCTCTCTTCGCAAGGCTTACACCTTCGAAACCGTCGAAGAATTTTGGTGgtatctctctcgctcgttatttctttaatctttggtttcgaattttttcttctgtttggttgatcggaaaacacgcaggaaagtagtggaactttaattt-----

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|298169150|gb|HO020510.1|HO020510
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298167914|gb|HO013177.1|HO013177
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTC---TG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298194327|gb|HO040975.1|HO040975
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298167529|gb|HO012792.1|HO012792
EST:     ACCTCCCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|193385145|gb|FK351543.1|FK351543
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298176942|gb|HO026949.1|HO026949
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298164873|gb|HO010870.1|HO010870
EST:     ACCCCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298177859|gb|HO027412.1|HO027412
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298164697|gb|HO014342.1|HO014342
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATCCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|207823844|gb|GD794519.1|GD794519
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCG
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCG
EST: gi|298195261|gb|HO043789.1|HO043789
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|7146158|gb|AW508143.1|AW508143
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGGCAA-TCAATGCCGATT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTG-CAAATCAATGCCGATT
EST: gi|298174417|gb|HO014562.1|HO014562
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|10845486|gb|BF068605.1|BF068605
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298174019|gb|HO017355.1|HO017355
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGTAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298165203|gb|HO011252.1|HO011252
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298184604|gb|HO029817.1|HO029817
EST:     ACCTCTCTTTGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298195765|gb|HO044156.1|HO044156
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298173473|gb|HO016809.1|HO016809
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298176128|gb|HO015533.1|HO015533
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|298186722|gb|HO037355.1|HO037355
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAG
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAG
EST: gi|213609048|gb|DB962918.1|DB962918
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCT--AG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
EST: gi|5127027|gb|AI748763.1|AI748763
EST:     ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTG                         TTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT
genomic: ACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatt ... gctggtttagTTTGTATGATCAGGTATTCAAGCCCAGCAAGTTGCAAATCAATGCCGATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTTTTGGTGCGACAACCAATCCAAACCCAAGCAAGGCGCTGCTTGGGGAACCTCTCTTCGCAAGGTCTACACCTTCGACACCGTTGAAGAGTTCTGGTGgtatagaatttctcttcctcctcctttttcttctcccaaatattcatttttttagatgaagggaatctaagcatgcaatctcaaatcttatattttatga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA