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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAGTTTAGAAGTATTGCAAGCACCTGGCTTCTTACAAATTTTCTTCAATCCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtacttggtctgtgctggctagttatttacatactttctgggtcataggacgggaggatccccttcttttggtttggttcaagagaatgggcgggt...

Basic information

species Glycine max
transcript GLYMA03G07550.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G07550.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os05g39110.1 (Oryza sativa), 5'ss of exon 3
TAAGTTTAGAAGTATTGCAAGCACCTGGCTTCTTACAAATTTTCTTCAATCCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtacttggtctgtgctggctagttatttacatactttctgggtcataggacgggaggatccccttcttttggttt--ggttcaagagaatgggcgggt
||  ||| |||  || ||||  | ||||||  ||   ||||||   ||||| ||||||||||| |||||||| |||||||| || |||||||| || |||||   | |||  | |||       |  | |  |  | |||| |   |   |       |  |    ||  ||||  ||   || | ||   |||       |
TAGATTTGGAACCATGGCAACAATCTGGCTATTTGGCAATTTTGCGCAATCTTTCCTACAAAGTTCTGGTGCCTTTGAAGTTTACTGCAATGGAGATTTGgta--tgctttctatgtcagacacacctgtaaaacttctttttatctgccatttttacattacgggctaattttatttctaggattaaaccaattaaaaatt

upper sequence: GLYMA03G07550.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G173874_T01 (Zea mays), 5'ss of exon 3
TAAGTTTAGAAGTATTGCAAGCACCTGGCTTCTTACAAATTTTCTTCAATCCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtacttggtctgtgctggctagttatttacatactttctgggtcataggacgggaggatccccttcttttggtttggttcaagagaatgggcgggt
||  ||  |||  || ||||  | ||||||  ||   || |||  ||| ||||| ||||||||||||||||| |||||||| || |||||||| || |||||  |       | |  | ||     |||| |   | ||||   | | ||  || |  |    |    | | |  |    |  |       ||     | 
TAGATTCGGAACCATGGCAACAATCTGGCTATTTGGCAACTTTGCTCAGTCCTTTCTACAAAGCTCTGGTGCCTTTGAAGTTTACTGCAATGGAGATTTGgtatgcttcctatgttagatgcaaccttatcttttttcttttgtgttgatttgatgcaaaatgctttatatatcaggagtgccctctgttttgaaatagg
















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|192312787|gb|FK005413.1|FK005413
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|192315735|gb|FK011203.1|FK011203
EST:     CCTTCCTACAAAGCTTTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTTTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|31307127|gb|CD392330.1|CD392330
EST:     GAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: GAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|16345607|gb|BI971209.1|BI971209
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|6719567|gb|AW307214.1|AW307214
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|48575473|gb|CO036421.1|CO036421
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|22927852|gb|BU544991.1|BU544991
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|192315734|gb|FK011202.1|FK011202
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
EST: gi|10843518|gb|BF066807.1|BF066807
EST:     CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTG                         GTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG
genomic: CCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtactt ... gacatcatagGTTTTCTCCAAACTGAAAGAGAACAGATTTCCTGGTGAAATTGAGTTGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAAGTTTAGAAGTATTGCAAGCACCTGGCTTCTTACAAATTTTCTTCAATCCTTCCTACAAAGCTCTGGTGCTTTTGAAGTATATTGCAATGGCGACTTGgtgagtacttggtctgtgctggctagttatttacatactttctgggtcataggacgggaggatccccttcttttggtttggttcaagagaatgggcgggt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggcggg