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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctccactcacttatccttattagctattttagtactcgcatgatttctctttaagctatagtggttatttatcttctttatttcccttggtgctaatctaatagtttgtgagataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT

Basic information

species Glycine max
transcript GLYMA14G14000.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G000393_T01 (Zea mays), 3'ss of exon 5
gtttctccactcacttatccttattagctattttagtactcgcatgatttctctttaagctatagtggttatttatcttctttatttcccttggtgctaatctaatagtttgtgagataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT
||||        |  ||| | | | || || |  |  | ||  |         || |   |||  | || |||    || | ||||    | |     ||| ||||   || |       | |||    |||  |  ||  |||||   | |   |||   |    |||||| ||||||||||||||||| || || |||||||| || ||||||||    |||||||| ||| ||||||||
gttttgttctggatctatacctttgagttactgcatcattcttagttcagaatttaacaatatcattgtcattcccgttttctattatattagaaa--aatataatccatttt-------ccatctctcgtttta--ttgattatg--tatacctttttggacctgcagTGCAAATCGAGGTGATAGCTTGGACCGTAATATTGATGATGAAAATCGGCAGACAAAGGACTTCTTGATTCTT

upper sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G32120.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttctccactcacttatccttattagctattttagtactcgcatgatttctctttaagctatagtggttatttatcttctttatttcccttggtgctaatctaatagtttgtgagataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT
                                                          | | |  |  | | || | ||||| |||||  | |     ||| | | ||||| |           |||||  | |    | || |||    |  ||||||       ||||||||| |||||||||||| ||||| | || |||||||| ||||||||  |||| || || ||  ||||||||
----------------------------------------------------------gttttcctactcactt-tattcttcatttctttag-----aattttaaagttttt-----------catggtctaa----tgttaatgctttataaatttc-------cagTGCTAACCGAGGTGATAGCCTAGATAGAAAAATTGACGAAGAAAATCGTGCAACTAAAGACTTTTTGATTCTT

upper sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G25300.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttctccactcacttatccttattagctattttagtactcgcatgatttctctttaagctatagtggttatttatcttctttatttcccttggtgctaatctaatagtttgtgagataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT
                                               ||| ||    |  | || |  || ||| | |    ||  |  |  | |  | ||||  | ||    |  || ||  | ||||  |  |   || |||||  |   |  ||    | |  |||| | ||||||||||||||||||||||| || || |||||||||||||   ||| ||| |||||  ||||||||
----------------------------------------------gtttgtccactaatttta-tctttgtttgttta---tacgtatcaagcttttcatcttttcgtgctcgttatcaccct-atggactatag--tacttatgttc--ttgtttcaagaattccagTCCAAATCGAGGTGATAGCTTAGATCGAAAAATCGACGAGGAAAATCAAGCAAGAAAAGATTTTTTGATTCTT

upper sequence: GLYMA14G14000.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g06480.t01 (Vitis vinifera), 3'ss of exon 5
gtttctccactcacttatccttattagctattttagtactcgcatgat-ttctctttaagctatagtggttatttatcttcttta-tttcccttggtgctaatctaatagtttgtgagataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT
|||   |||| ||||||    |       ||||| ||| | | |||    |  ||||    | |  |  ||||  | ||   ||| |||  ||| |   ||     ||  |   |  | |     | || |    ||  ||  |  |  |  ||| ||        | ||||||||||||||||||||||||||||||||||||||| | ||||||||||   |||||||||||| ||||||||
gttgtcccacacacttaaatct-----tcatttt-gtatttgtatggcacttcctttcttttttcctccttataaaactagcttagtttatctttgcattacaagcattatgattatggtggattttataga---aagttttatcttaacttaattat--------ggcagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGATGTGGAAAATCGCTTGACAAAGGATTTCTTGATTCTT

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|120532999|gb|EH261132.1|EH261132
EST:     AAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG                         TGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCAC
genomic: AAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAGgtttctccac ... taattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCAC
EST: gi|120533853|gb|EH261986.1|EH261986
EST:     AAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG                         TGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCAC
genomic: AAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAGgtttctccac ... taattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCAC
EST: gi|26056275|gb|CA799189.1|CA799189
EST:     AAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAG                         TGCTAATCGAGGGGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCAC
genomic: AAAAAACTTGAAGAAAGAGGAGTGGTCATACGTTTTGTTATTGGTCGGAGgtttctccac ... taattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agataacaatcatgggttcaaacttatttatggccaaataatttctaattgacagTGCTAATCGAGGTGATAGCTTAGATCGCAATATTGACGAGGAAAATCGCACAACAAAGGATTTCCTGATTCTT
                                          ttctaat  putative branch site (score: 2)
                                         tttct  CT-rich tract
                                   aaataatttctaattg  TA-rich tract