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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatagtaaactgaagaatttacaaatcctaagatttcttttttccttaggggtttgttcccttttgtggtctaattatgcttttcttgtttttctagACCAGATGACACCCCTTGGGATGGAG

Basic information

species Glycine max
transcript GLYMA01G05080.1
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|22933973|gb|BU551112.1|BU551112
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG
EST: gi|14126011|gb|BG790449.1|BG790449
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG
EST: gi|19452681|gb|BM954091.1|BM954091
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG
EST: gi|19452497|gb|BM953907.1|BM953907
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG
EST: gi|151402063|gb|EV271876.1|EV271876
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG
EST: gi|19348294|gb|BM892826.1|BM892826
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG
EST: gi|11273919|gb|BF324308.1|BF324308
EST:     GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGG                         ACCAGATGACACCCCTTGGGATGGAG
genomic: GGGGCTCCCCAAGACAATAATATTATGCTTTGGAATGCAGTTATCTTTGGgtatgatagt ... gtttttctagACCAGATGACACCCCTTGGGATGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttaggggtttgttcccttttgtggtctaattatgcttttcttgtttttctagACCAGATGACACCCCTTGGGATGGAG
                          gtctaat  putative branch site (score: 3)
                                ttatgcttttcttgtt  CT-rich tract
                           tctaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatagtaaactgaagaatttacaaatcctaagatttcttttttccttaggggtttgttcccttttgtggtctaattatgcttttcttgtttttctagACCAGATGACACCCCTTGGGATGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA