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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgctttctctttcttttcctgttttgatacaattcagtatatcttcttggcatttgaagttttacttttatctgtcttattgaagaaagttccagaggactaattttattacctatttcaaatcaaacttgctacatctataccctattgagtaatagtaaagcgaactgactttatttctttgaaaatatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAAAATTTTATTGCCAAG

Basic information

species Glycine max
transcript GLYMA20G36590.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36590.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os04g43650.2 (Oryza sativa), 3'ss of exon 4
gtacgctttctctttcttttcctgttttgatacaattcagtatatcttcttggcatttgaagttttacttttatctgtcttattgaagaaagttccagaggactaattttattacctatttcaaatcaaacttgcta-catctataccctattgagtaatagtaaagcgaactgactttatttctttgaaaatatgatt--agGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAAAATTTTATTGCCAAG
                                                                                                       ||  || |  |  |  ||   | ||  |||  |  || ||       | || || | || | | |      | ||    ||| ||||  |   | |  |||| ||| ||||||||||  |||| ||||| |||||||| |||||||||||||| |     || || |  |||
------------------------------------------------------------------------------------------------------gtacattca--atttgcttgctaccatgcttattttcagctcactttgaatgggtcacagcataacag--caatttc--ctctctgaattttgcactgcagGTGTGCATATCTAAAGGGTTAGGCGCTCCTGTTGGATCAGTTATTGTTGGTTCGACGGCCTTCATAGAAAAG

upper sequence: GLYMA20G36590.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0036g00520.t01 (Vitis vinifera), 3'ss of exon 5
gtacgctttctctttcttttcctgttttgatacaattcagtatatcttcttggcatttgaagttttacttttatctgtcttattgaagaaagttccaga---ggactaattttattacctatttca-aatcaaacttgctacatctataccc-tattgagtaatagtaaagcgaactgactttatttctttgaaaatatga-ttagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAAAATTTTATTGCCAAG
||| | || ||  |     |||    | |||    ||   | | |    ||||    |  | || | |  |||| | |  | |  || |   ||||        | ||| | |   || |||||   ||||| |     ||     |||     || || | ||   |    |        || | || |   |  | |||   |||| || || || || ||| | |||||||| ||||||  ||| |||||||||||||||| ||||||||| |||
gtatgattcctaatgggagtcc---ctagat---ttttgttctttgagtttggagaattgatttgttcccttatttataatttcaaaaattattccttgtttaaagtaaatgtgcaacttattttggaatcataaaaattaagcacataattacatcgatttatctcatctaggttcttgcttttatcatgttatgtgtgagccagGTATGTCTCTCAAAGGGTTTGGGTGCTCCCGTTGGAAGTGTGATTGTTGGTTCCAAAAGTTTTATTGCTAAG
















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|305377783|gb|HO652014.1|HO652014
EST:     CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC                         GTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
genomic: CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCCgtacgctttc ... atatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
EST: gi|193638359|gb|FK586727.1|FK586727
EST:     CACTTGGTGTTCCAGTGGATAGGCCTGTCCAGGCGGCTGATTCAGTTTCC                         GTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
genomic: CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCCgtacgctttc ... atatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
EST: gi|298168281|gb|HO014456.1|HO014456
EST:     CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGGTTCAGTTTCC                         GTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
genomic: CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCCgtacgctttc ... atatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
EST: gi|51335732|gb|CO979598.1|CO979598
EST:     CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC                         GTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
genomic: CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCCgtacgctttc ... atatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
EST: gi|15812814|gb|BI785089.1|BI785089
EST:     CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC                         GTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT
genomic: CACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCCgtacgctttc ... atatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctattgagtaatagtaaagcgaactgactttatttctttgaaaatatgattagGTTTGCCTATCTAAAGGTATAGGTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAAAATTTTATTGCCAAG
                       aactgac  putative branch site (score: 2)
                              tttatttctttgaaaa  TA-rich tract