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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttatcttattgacataatgtggtccttctggtcaatttgttctgtcttgcagtagtttagaaaaactctttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTAAAGAGATACAACAACGTTCAATTAGATGGGAAACCAATGAAGATTGAAA

Basic information

species Glycine max
transcript GLYMA12G07010.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G07010.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g04340.t01 (Vitis vinifera), 3'ss of exon 3
gtatcttatcttatt-gacataatgtggtccttctggtcaatttgttctgtcttgcagtagtttagaaaaactctttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTAAAGAGATACAACAACGTTCAATTAGATGGGAAACCAATGAAGATTGAAA
||||||||||   || | | || | ||||||||||| | | ||  || ||||| || || |||||||||||||||||||  ||||| || ||||| || || || || |||||||  ||||||||| | ||||| |||||||||||||| |||||  | |||||||| |||||||| || ||||
gtatcttatcaagtttggcctagtatggtccttctgatgatttctttgtgtctcgctgtggtttagaaaaactctttttcttagGGAACGGCAGAGGTTGTCTTCTCCCGACGAGGAGATGCTGTAGCAGCTGTCAAGAGATACAACAATGTTCAGCTTGATGGGAAGCCAATGAAAATAGAAA
















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|193410354|gb|FK379337.1|FK379337
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|208299428|gb|GE097611.1|GE097611
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGT
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGT
EST: gi|193649919|gb|FK594508.1|FK594508
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|209713847|gb|BW684040.1|BW684040
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|213588375|gb|DB967861.1|DB967861
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCACAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|207822592|gb|GD795227.1|GD795227
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|193599737|gb|FK551560.1|FK551560
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|15284976|gb|BI468867.1|BI468867
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|207702259|gb|GD683014.1|GD683014
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGACGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
EST: gi|14126268|gb|BG790706.1|BG790706
EST:     TGACTTGAAACGGCATGCGGTTCATTATG-CTAGGAGTGGCAGATCAAAG                         GGTTCAGTAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGT
genomic: TGACTTGAAACGGCATGCGGTTCATTATGAC-AGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGT
EST: gi|24205347|gb|BU964600.1|BU964600
EST:     GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAG                         GGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA
genomic: GTGACTTGAAACGGCATGCGGTTCATTATGACAGGAGTGGCAGATCAAAGgtatcttatc ... tttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttctggtcaatttgttctgtcttgcagtagtttagaaaaactctttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTAAAGAGATACAACAACGTTCAATTAGATGGGAAACCAATGAAGATTGAAA
                                          ctcttttt  CT-rich tract
                                tttagaaaaactcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcttatcttattgacataatgtggtccttctggtcaatttgttctgtcttgcagtagtttagaaaaactctttttaatagGGTACAGCAGAAGTAGTATTTTCACGACGAGCTGATGCTGTATCTGCTGTAAAGAGATACAACAACGTTCAATTAGATGGGAAACCAATGAAGATTGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA