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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcaacttctgtcctgtgtttctccctcttgttagttaggtctgatgaacttgctatgatttgatatttaatcaaattttgttaaaaaaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCAGTGCGGGTAGGACAAGCAGTTGATGTGGTTGGGCAAGCGGGTCGGCCCA

Basic information

species Arabidopsis thaliana
transcript AT2G20580.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 23
gtgagttcaacttctgtcctgtgtttctccctcttgt--tagttaggtctgatgaacttgctatgatttgatatttaatcaaattttgttaaaaaaatgtat-agCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCAGTGCGGGTAGGACAAGCAGTTGATGTGGTTGGGCAAGCGGGTCGGCCCA
    |||  | |   ||    | || |||  ||  ||  |||     ||   |   |    | | |    ||  | | | | ||||||| ||     || || ||||||||||| ||||||| |||||||| ||| ||||||| ||||||||||| || || || |||||||| || ||||| ||||| ||||| ||||| || |
----gtttgattggagtttcat-ttcctctttccagtcatagactcttccccttcccccattttaaacc-attctcagttatattttgt-aatttgttgcatcagCCAAGGATGTTGTTGACTGTGGATGAGAACTTGAAGCCTCTGTCAGTGCCTGTTCGTGTTGGACAAGCCGTAGATGTTGTTGGACAAGCAGGTCGTCCGA

upper sequence: AT2G20580.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 23
gtgagttcaacttctgtcctgtgtttctccctcttgttagttaggtctgatgaacttgctatgatttgatatttaatcaaattttgttaaaaaaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCAGTGCGGGTAGGACAAGCAGTTGATGTGGTTGGGCAAGCGGGTCGGCCCA
    |||  |      | |  |   |||  |   |  |||     ||   |   |    | | |    ||  | | | | ||||||| |        || ||||||||||| ||||||| |||||||| ||| ||||||| || |||||||| || || || |||||||| || ||||| ||||| ||||| ||||| || |
----gtttgatcgagtttcatttcctctttcctgtcatagactcttccccttcccccattttaaacc-attctcagttatattttgtaatttgttgctacagCCAAGGATGTTGTTGACTGTGGATGAGAACTTGAAGCCTCTATCAGTGCCTGTTCGTGTTGGACAAGCCGTAGATGTTGTTGGACAAGCAGGTCGTCCGA
















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|124717181|gb|EH808583.1|EH808583
EST:     TGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCA
genomic: TGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCA
EST: gi|124966488|gb|EL040589.1|EL040589
EST:     TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTG
genomic: TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTG
EST: gi|116466338|gb|EG508930.1|EG508930
EST:     TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
genomic: TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
EST: gi|164096339|gb|EL999355.1|EL999355
EST:     CCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGACGAAAACCTGAAGCCACTGTCAGTGCCA
genomic: CCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
EST: gi|124884459|gb|EH963361.1|EH963361
EST:     AAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
genomic: AAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
EST: gi|86081058|gb|DR376815.1|DR376815
EST:     TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGACGAAAACCTGAAGCCACTGTCAGTGCCA
genomic: TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
EST: gi|116437639|gb|EG480231.1|EG480231
EST:     CGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGATGAAAACCTGAGGCCACTGTCAGTGCCA
genomic: CGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
EST: gi|116466449|gb|EG509041.1|EG509041
EST:     TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAA                         CCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA
genomic: TACTCGGGAAGTACCATTATGTGCTGTACTTCCTCGTTTTGGCGATGCAAgtgagttcaa ... aaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatgaacttgctatgatttgatatttaatcaaattttgttaaaaaaatgtatagCCAAGGATGATGTTGACAGTGGATGAAAACCTGAAGCCACTGTCAGTGCCAGTGCGGGTAGGACAAGCAGTTGATGTGGTTGGGCAAGCGGGTCGGCCCA
                       atttaat  putative branch site (score: 4)
                atttgatatttaatca  TA-rich tract