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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctataagccactttcttgtattttttagctgaatgtggtgatttgaattatattataatgcttgtcccttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCACAACTCAAGCTCAACAAGTCAATGGATTTATTCCTGGATGGATGCTTTGA

Basic information

species Glycine max
transcript GLYMA13G06730.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G06730.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0083g01050.t01 (Vitis vinifera), 3'ss of exon 7
gtaatctataagccactttcttgtattttttagctgaatgtggtgatttgaattatattataatgcttgtcccttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCACAACTCAAGCTCAACAAGTCAATGGATTTATTCCTGGATGGATGCTTTGA---------------
    |  | |    ||||  |   ||   |   ||   | |  | ||| | |  |||    |||   | | | ||  |        |  |  || || || |||| || |||| |||  |||||| ||||  | | | | || ||| | |||||||||||||| ||||| ||||||||||||               
---gtaaacatttaacttggtgaaatccatcttctctttttaat-attagtaccatagctgaattagttttcttttatg-------ggatgaagATATAATCCTGCAGGCTCA-AGC--CAGCTATCTGCTCCGAGTAATGCCCAAAATGTCAATGGATTTATCCCTGGGTGGATGCTTTGAGTTTTGACATTTGTT
















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|193342788|gb|FK309064.1|FK309064
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|193714198|gb|FK655436.1|FK655436
EST:     CCCAAGGCTTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: CCCAAGGC-TTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|193355669|gb|FK322200.1|FK322200
EST:     CCCAAGGCTTTTTCCTAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCA
genomic: CCCAAGGCTTTTTCC-AGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAA-CCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCA
EST: gi|193354729|gb|FK323703.1|FK323703
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|193458862|gb|FK424623.1|FK424623
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|193609438|gb|FK564344.1|FK564344
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCT
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCT
EST: gi|208219106|gb|GE017922.1|GE017922
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|208134623|gb|GD932192.1|GD932192
EST:     TCCCAAGGCTTTTTCCAGCTTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|193413233|gb|FK375998.1|FK375998
EST:     TCCCAAGACTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|17020647|gb|BM091681.1|BM091681
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|193337688|gb|FK302055.1|FK302055
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|5677218|gb|AI938348.1|AI938348
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGGACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|11117964|gb|BF219557.1|BF219557
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
EST: gi|8284985|gb|BE022544.1|BE022544
EST:     TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGG                         TTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC
genomic: TCCCAAGGCTTTTTCCAGCCTTTGGAGTGCAACCCCACATTGCAGATAGGgtaatctata ... cttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttagctgaatgtggtgatttgaattatattataatgcttgtcccttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCACAACTCAAGCTCAACAAGTCAATGGATTTATTCCTGGATGGATGCTTTGA
                                      cttgtccctt  CT-rich tract
                  atttgaattatattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatctataagccactttcttgtattttttagctgaatgtggtgatttgaattatattataatgcttgtcccttggtacagTTCTGACTACAGGTACAACCCTGAAGCCTCAGAGCAGCAGCTAGCTGCCACAACTCAAGCTCAACAAGTCAATGGATTTATTCCTGGATGGATGCTTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA