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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaatttaactagatctacatatcatttcctcagatccgaaccttgctaaccccaatctaatctaatctcacccgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA

Basic information

species Glycine max
transcript GLYMA10G34310.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os09g04110.2 (Oryza sativa), 3'ss of exon 1
-----------gtaacaaatttaactagatctacatatcatttc--ctcagatccgaaccttgctaaccccaa--tctaa----tctaatctcacccgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
           ||   |  | |    | | ||       | | |   |  |||  | |  |    || |  |   |||||    |||    |     |||||||| |||||||| || ||||||||||| ||||||   ||||||||||||||||| || |  || ||||| |||||||| ||||||||||| ||||||||
tgttccgcctggttgtatttctggg-atagctgtgggctaatacgattgggatatggaattgttgaatcgtagattctaagatttctgtgatgcattgcagGTGATGATTACAAGATTAAGGTGTGGAATTACAAGACACACCGCTGCCTCTTCACACTTCATGGGCACCTTGACTACATTCGCACCGTGCAATTCCACCA

upper sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g50340.1 (Oryza sativa), 3'ss of exon 1
-------gtaacaaatttaactagatctacatatcatttc--ctcagatccgaaccttgctaacc-ccaatctaatctaatctcacc---------cgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
       ||  |   |   | | | ||     |  | |     |  ||| || |       |||  |  | ||| |||||  |  |           |||||||| |||||||| || ||||||||||| ||||||   ||||||||||||||||| || |  || ||||| ||||| || ||||||||||| ||||||||
catactggtgtccggtcgtatt-gctcggtggactaatatgattgggatgcggaatggttgaacttctgaactattctaagatttctgtgatgcattgcagGTGATGATTACAAGATTAAGGTGTGGAATTACAAGACACACCGCTGCCTCTTCACACTTCACGGGCACCTTGACTATATTCGCACCGTGCAATTCCACCA

upper sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g50350.1 (Oryza sativa), 3'ss of exon 1
------------gtaacaa-atttaactagatctaca--tatcatttcctcagatccgaaccttgctaaccccaatctaatctaatctcaccc---gcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
             |||||       |   ||| |  |  | ||||    | |||||  |    | || | | |     | | |    | |  |   |||||||| |||||||| || ||||| ||||| ||||||   ||||| ||||||||||| || |  |||||||| |||||||| ||||| ||||| ||||||||
tgtattgttggcataacagtggcccatatgatttggaactgtcataaaataagatcgaacaactcctgaactcttctaagttttccgtgatgcattgcagGTGATGATTACAAGATTAAGGTATGGAATTACAAGACACACCGTTGCCTCTTCACGCTTCATGGCCACCTTGACTACATTCGCACGGTGCAATTCCACCA

upper sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 1
lower sequence: AC155622.2_FGT004 (Zea mays), 3'ss of exon 1
-------------------gtaacaaatttaactagatct--acatatcatttcctcagatccgaaccttgctaaccccaatctaatctaatctcacccgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
                   ||  ||| | ||  ||||  |  |||| |||          | |  | |||   |   || |  || | | || | |   ||||||||||||||||| || ||||| ||||| ||||||   || |||||||| ||||| || |  || |||||||||||||| ||||| ||||| ||||||||
tagcttcctgtttaccgtggtggcaa-tctagttagactttgacatttcacgattgagcttacagatcttctaagatcctagttactgtgatgtaat--gcagGTGACGATTACAAGATTAAGGTCTGGAATTACAAGACTCAACGCTGCCTATTCACACTTCATGGGCACCTCGACTACATTCGCACTGTGCAATTCCACCA

upper sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G149406_T01 (Zea mays), 3'ss of exon 1
-------------gtaacaaatttaactagatctacatatcatttcctcagatccgaaccttgctaacccc-----aatctaatctaatctcacc-cgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
             | ||| |||  | |       ||||  || ||  | |  |   |   ||   || |       | |||  |    | | |||  |||||||| ||||| || || ||||| ||||| ||||||   ||||||||||||||||| || |  || || || |||||||| ||||||||||| ||||| ||
aatccatactaatgcaactaatacatccttcggcacattacaattgtt-acttttaagatttatgaatcttctaagattctggtactgttttaccatgcagGTGATGATTATAAGATTAAGGTCTGGAATTACAAGACGCACCGCTGCCTCTTCACACTTCATGGGCATCTTGACTACATTCGCACCGTGCAATTCCATCA

upper sequence: GLYMA10G34310.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ32142 (Selaginella moellendorffii), 3'ss of exon 1
-------------------gtaacaaatttaactagatctacatatcatttcctcagatccgaaccttgctaaccccaatctaatctaatctcacccgc---agGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
                    | ||  ||  | | | || |   |   ||   |  |  ||    | || || |  |    || |    ||| |  |      |||||| || ||||| |||||||||||||||||||||       | ||||| ||||| || ||||||||  | || |||||||| || || |||||||| ||
gtaagatttccttgctttcctcaccgatcgatcgacattt-tgttcgatcgaccgatttctttgctttcctgagtcgctgctgaaaggatcccttctttttaagGTGATGACTACAAGATCAAGGTGTGGAACTACAAGACGAGGAGATGCCTGTTCACGCTGCTGGGCCATTTGGATTACATCCGGACAGTCCAGTTCCATCA

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|209700398|gb|BW664411.1|BW664411
EST:     CGTCCGCGGCGTCCATTTCCACCACTCCCAACCCCTCTTCGTCTCCGGAG                         GTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCT
genomic: CGTCCGCGGCGTCCATTTCCACCACTCCCAACCCCTCTTCGTCTCCGGAGgtaacaaatt ... tcacccgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCT
EST: gi|193609061|gb|FK561645.1|FK561645
EST:     CGTCCGCGGCGTCCATTTCCACCACTCCCAACCCCTCTTCGTCTCCGGAG                         GTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCT
genomic: CGTCCGCGGCGTCCATTTCCACCACTCCCAACCCCTCTTCGTCTCCGGAGgtaacaaatt ... tcacccgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttcctcagatccgaaccttgctaaccccaatctaatctaatctcacccgcagGTGACGATTACAAAATCAAGGTGTGGAACTACAAGCTCCACCGCTGCCTCTTCACCCTCCTGGGCCACCTCGACTACATCCGCACCGTGCAGTTCCACCA
                                           tctcaccc  CT-rich tract
                                   taatctaat  TA-rich tract