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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agccgcattgtcataaaacattgtttttattgatgcattgtttggattcaactaaatttaccaactactttttcttttcttgatttgaactgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTGCTGAGCTATTGGCAGAAGAACTCAAGCTACGGGAGAACCAAGCCGTGGA

Basic information

species Glycine max
transcript GLYMA12G10290.1
intron # 2
splice site 3'
intron type U2

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|298173342|gb|HO016678.1|HO016678
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298174003|gb|HO017339.1|HO017339
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|151410131|gb|EV279939.1|EV279939
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298174754|gb|HO017863.1|HO017863
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTACAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298165646|gb|HO008617.1|HO008617
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|192333151|gb|FK026480.1|FK026480
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|27425103|gb|CA936623.1|CA936623
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|7640630|gb|AW734857.1|AW734857
EST:     AGGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: AGGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298163464|gb|HO012197.1|HO012197
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298189458|gb|HO037861.1|HO037861
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298165543|gb|HO011592.1|HO011592
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298181824|gb|HO025999.1|HO025999
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|209700165|gb|BW652996.1|BW652996
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|298166432|gb|HO009871.1|HO009871
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
EST: gi|26056279|gb|CA799193.1|CA799193
EST:     GGACTGAGCAACACTTCCTTCGGAG                         ATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG
genomic: GGACTGAGCAACACTTCCTTCGGAGgttggtttgt ... tgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcaactaaatttaccaactactttttcttttcttgatttgaactgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTGCTGAGCTATTGGCAGAAGAACTCAAGCTACGGGAGAACCAAGCCGTGGA
     actaaattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agccgcattgtcataaaacattgtttttattgatgcattgtttggattcaactaaatttaccaactactttttcttttcttgatttgaactgttattcagATTGTGCAAAGCCTGATCCAGAAGTGAGTGGAGACACTGAAAAGAATTTTGCTGAGCTATTGGCAGAAGAACTCAAGCTACGGGAGAACCAAGCCGTGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - aaaacatt
- - - - - - - - - - - - - - - tgatgca
- - - - - - - - - - - - - - - - - - -ttgtttg