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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGAAGTTGGTGTACCAGACCACTAAGAAGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtgtttattattttttgccttttcatatcccctttgaagaattaggaattaaggatcagtgattcattctgaaggatatgatttatatacttg...

Basic information

species Glycine max
transcript GLYMA09G37360.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G37360.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G28900.1 (Arabidopsis thaliana), 5'ss of exon 2
GAGGGAAGTTGGTGTACCAGACCACTAAGAAGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgta---tgtagtgtttattattttttgccttttcatatcccctttgaagaattaggaattaaggatcagtgattcattctgaaggatatgatttatatacttg
| || || ||| |||||||| || || |||||||| |||||||||||||||||||| ||||||||||| |||||||||||| | | | || | | | || || | || || | || | | ||| | |||| | | | | || | | |
GTGGAAAATTGACTTACCAGACGACGAACAAGAGAGCTAGTGGACCTAAGTGCCCTGTTACTGGCAAGAGAATCCAAGGGgtaatcttttctattcaatttcaaaaaagttggtgaattttgctgttagggttcgtgttttgagtttagttagattctctggatca-agaaattgtgcatt--

upper sequence: GLYMA09G37360.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G69620.1 (Arabidopsis thaliana), 5'ss of exon 2
GAGGGAAGTTGGTGTACCAGACCACTAAGAAGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtgtttattattttttgccttttcatatcccctttgaagaattaggaattaag-gatcagtgattcattctgaaggatatgatttatatacttg
|||| || ||| |||||||||||||||||||||||| ||||||||||| || || || || |||||| | || || || || ||| | || | ||| | || | | | | | ||| | || ||| |||| | | | | | | || |
GAGGTAAATTGACGTACCAGACCACTAAGAAGAGAGCTAGTGGACCTAAATGTCCCGTTACCGGCAAGCGTATTCAGGGTgttagtattcttcag-attcatattctctccgatttgagtctaaagttacatactttgtttgattttggattgacccatttgattgttttgaggttattct

upper sequence: GLYMA09G37360.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0108g00850.t01 (Vitis vinifera), 5'ss of exon 2
GAGGGAAGTTGGTGTACCAGACCACTAAGAAGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtgtttattattttttgccttttcatatcccctttgaagaattaggaattaaggatcagtgattcat-tctgaaggatatgatttatatacttg
|||| ||||||||||| |||| ||| |||||||| || | ||| || || ||||| || ||||| ||||| |||||||||||||| | | ||| ||| || | | || | | | || || | ||| | || | | | | | || | | || | | |
GAGGAAAGTTGGTGTATCAGAGCACCAAGAAGAGGGCCAATGGTCCCAAATGCCCAGTTACTGGGAAGAGAATCCAAGGGgtatgccttttctatgattattcgattcatc-tctggtcagtgtagtgagtgtgcttatgtgtcgatattgtgtgtgtatttgaacttacttttgcatgtt

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|208210860|gb|GE012621.1|GE012621
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTAAGACCTGCTGAATACAAGAGGTCTAGATTGCCTAGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|5175487|gb|AI759820.1|AI759820
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|21600798|gb|BQ611129.1|BQ611129
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAT
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|31460083|gb|CD402111.1|CD402111
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|33388640|gb|CA851847.1|CA851847
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|26059008|gb|CA801922.1|CA801922
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|41146454|gb|CK606665.1|CK606665
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|193577122|gb|FK536569.1|FK536569
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGT
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGT
EST: gi|151395042|gb|EV264913.1|EV264913
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|192328957|gb|FK019684.1|FK019684
EST:     GGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|16104974|gb|BI892714.1|BI892714
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|192309351|gb|FK000559.1|FK000559
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|23732890|gb|BU764623.1|BU764623
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|254349282|gb|GR860080.1|GR860080
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|192328154|gb|FK020415.1|FK020415
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
EST: gi|193538075|gb|FK494606.1|FK494606
EST:     AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGG                         ATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC
genomic: AGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtg ... taatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAAC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGGAAGTTGGTGTACCAGACCACTAAGAAGAGAGCAAGTGGACCTAAGTGCCCTGTCACTGGCAAGAGGATCCAAGGGgtatgtagtgtttattattttttgccttttcatatcccctttgaagaattaggaattaaggatcagtgattcattctgaaggatatgatttatatacttg

- - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccttt