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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccatcatatctgtatatgtttcactttcagaatattttaatgaattccttgatgcatgttcactcaaactgttcatgaagggcgtttttgtttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGA

Basic information

species Glycine max
transcript GLYMA09G25470.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G25470.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0050g00390.t01 (Vitis vinifera), 3'ss of exon 2
ccatcatatctgtatatgtttcactttcagaatattttaatgaattccttgatgcatgttcactcaaactgttcatgaagggcgtttttgtttat---tttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGA
   || || |   | ||     | | ||     ||| || | ||||   | | ||||        | | |    ||   ||  ||  || |  ||   || |||||| |||||||||||||| |||||||||||||||||| | ||||| |||||||||||||| || ||||||||||| || || |||   || || || ||
---tcttaccgcaaaattaccaaatatccactcattctatttaattaggtcacgcattgcttaaaagatttccaatagtggtagtccttatccatattttcagGAGAGAAGATATCACCAATCGAAGTGGATGCTGTCCTTTTATCACATCCAGACATTGCTCAAGCGGTTGCTTTTGGGGTTCCAGATGACAAATACGGCGA
















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|151402671|gb|EV272484.1|EV272484
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|9901943|gb|BE610911.1|BE610911
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|57574486|gb|CX547461.1|CX547461
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|151404838|gb|EV274652.1|EV274652
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58019816|gb|CX706558.1|CX706558
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58022445|gb|CX709186.1|CX709186
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|16348274|gb|BI973869.1|BI973869
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58024859|gb|CX711600.1|CX711600
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|21887240|gb|BQ740453.1|BQ740453
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTG
EST: gi|58014173|gb|CX700915.1|CX700915
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58022144|gb|CX708885.1|CX708885
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|14205719|gb|BG839397.1|BG839397
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|6567021|gb|AW234648.1|AW234648
EST:     TGGGTATNTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|10848061|gb|BF070618.1|BF070618
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|14011994|gb|BG726916.1|BG726916
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58021725|gb|CX708466.1|CX708466
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|151400171|gb|EV269985.1|EV269985
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58024760|gb|CX711501.1|CX711501
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|6134058|gb|AW132387.1|AW132387
EST:     GTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: GTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|15287484|gb|BI471375.1|BI471375
EST:     ATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: ATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|14011286|gb|BG726217.1|BG726217
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAT                         GAGAAAAGATATCACCAATATAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|193720866|gb|FK659030.1|FK659030
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATG
EST: gi|58021085|gb|CX707827.1|CX707827
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|163921451|gb|EH039795.1|EH039795
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58022820|gb|CX709561.1|CX709561
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAG-AAAGATTATCCCCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCA
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGA-TATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCA
EST: gi|15813760|gb|BI786035.1|BI786035
EST:     TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|58015129|gb|CX701871.1|CX701871
EST:     GGAGCTCATCAACCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: GGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
EST: gi|4303619|gb|AI443502.1|AI443502
EST:     TGGGTATNTGCATCTCGTGGGTCGGATCAAGAAGCTCATCANCCGAGGAG                         GAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG
genomic: TGGGTATTTGCATCTCGTGGGTCGGATCAAGGAGCTCATCAACCGAGGAGgtacattaat ... tttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttgatgcatgttcactcaaactgttcatgaagggcgtttttgtttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGA
 ccttgat  putative branch site (score: 5)
                                       tttttgtttatttt  putative PPT
                                       tttttgtttatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccatcatatctgtatatgtttcactttcagaatattttaatgaattccttgatgcatgttcactcaaactgttcatgaagggcgtttttgtttattttagGAGAAAAGATATCACCAATAGAAGTGGATGCTGTCCTTCTTTCACACCCAGACATTGCTCAGGCAGTTGCTTTTGGAGTGCCTGATCCAAAGTATGGGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG