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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag

Basic information

species Zea mays
transcript GRMZM2G155384_T02
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G155384_T02 (Zea mays), 5'ss of exon 21
lower sequence: LOC_Os02g05340.1 (Oryza sativa), 5'ss of exon 21
ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagt--atatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag
||||||||| ||||||||||| ||||||||||| ||||||||||| ||||||||||||||||||||||| || |||||||||||||| ||||||||||||||||||  ||| ||| || | |||  |||   | |  |  |  | |     | || ||| | | |   ||     | |||  |||||     |||  | |||     |    
ATTGGGTTTCATTGGTGCTGGTACAAACAATGCTAGAATAGCTGGTATGCTTCGCAATCTTTCAAGTTACTATTACAAAGAAGCTGCGCATCTGTTTTGTgtaagttaataaatccacaatgatccttttaaacctgtgctccatt--ctgttgtacctggttgtatataatgcgtacatatattgacaaaattttgcatgtattcag----

upper sequence: GRMZM2G155384_T02 (Zea mays), 5'ss of exon 21
lower sequence: GLYMA12G13410.1 (Glycine max), 5'ss of exon 21
ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag
 |||||| |||| |||||||| || ||||||||  |||| ||||||||||||||||||||||| |||||||||||||| ||  |    | ||| || ||||||||  |     ||         | |      | | || | |||||     ||||   ||||  ||||      || |||||      ||||| | | |   | |    
CTTGGGTCTGATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCTAGTTATTACTACAAGGATACCAGCCTTCTATTCTGTgtaagctttctctaa-------gctctcctcctccttattttctaat-----ttccactgttt--ttatgg---tcacccatt---ttcttttaccttatctatag----

upper sequence: GRMZM2G155384_T02 (Zea mays), 5'ss of exon 21
lower sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 21
ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag
 |||||| | || |||||||| || ||||||||  |||| |||||||||||||||||||||||||||||||||||||| ||  |    | ||| || || |||||  |     ||         |||  | ||||| || | |||||     | |  || |||  |  | |      | | || | |   | ||| |             
CTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCAGCCTTCTATTCTGCgtaagctttctctaa-------gcttt--cctcctt-attttctaatt----tccactgtttttatggtcaccaattttcttttaccttatctatag-------------

upper sequence: GRMZM2G155384_T02 (Zea mays), 5'ss of exon 21
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 21
ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag
 ||||||||||| ||||| || || ||||||||  |||| ||||||||||| || ||||||||||| ||||||||||||||||||   | |||||| |||||||  ||   ||    |  |  |||       ||  || | ||   | |  | |  ||| |||  ||||  |||   ||| | ||   |||   |   |  |  |    
CTTGGGTTTGATAGGTGCGGGTACCAACAATGCTCGAATTGCTGGCATGCTCCGTAATCTTTCAAGCTATTACTACAAAGAAGCTAGCCTTCTGTTCTGTgtaaagat---tcttttattacctttaaattctctagattttctttcattcatccaatgggttctatatattttcacaccaat-attgttttggccacttgtgcag----

upper sequence: GRMZM2G155384_T02 (Zea mays), 5'ss of exon 21
lower sequence: PP1S414_22V6.1 (Physcomitrella patens), 5'ss of exon 21
ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag
 |||||  | ||||| ||||| || || |||||| |||| ||||||||||||||||| ||||| || || || ||||| ||  |    | ||| || |||||| |  | || |     |   ||| ||     ||| || |  | ||    |     |   ||  || |     | |    |   | | | |||  ||  | |  |    
TTTGGGACTTATTGGAGCTGGGACTAATAATGCCCGAATTGCTGGCATGCTTCGCAACCTTTCTAGCTACTATTACAAGGACCCAAGCCTTCTATTCTGTgtacgcctctacccttt-ctgcattctg---ctcttaattttttcattcctgcagaataactttctttttgagactactattccttacatattaatgtcgttgcag----

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|32925632|gb|CF030444.1|CF030444
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32925375|gb|CF030187.1|CF030187
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32926108|gb|CF030920.1|CF030920
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|166695594|gb|EG314197.1|EG314197
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGG
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGG
EST: gi|32928954|gb|CF033766.1|CF033766
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32925553|gb|CF030365.1|CF030365
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|18384394|gb|BM417593.1|BM417593
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTCGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|211100370|gb|FL070848.1|FL070848
EST:     ATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: ATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32928817|gb|CF033629.1|CF033629
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32867559|gb|CF007241.1|CF007241
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32929670|gb|CF034482.1|CF034482
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGGTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|6021421|gb|AW066349.1|AW066349
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTTCACCTCGGAAAGGGCTTGGTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32925086|gb|CF029898.1|CF029898
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32925292|gb|CF030104.1|CF030104
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32849654|gb|CD989335.1|CD989335
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|211100371|gb|FL070849.1|FL070849
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCYT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32908274|gb|CF013087.1|CF013087
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|211100368|gb|FL070846.1|FL070846
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTTCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32841969|gb|CD981650.1|CD981650
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32926755|gb|CF031567.1|CF031567
EST:     TTCGCAATCTTTCAAGGTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGGTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|211100372|gb|FL070850.1|FL070850
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTTCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32841970|gb|CD981651.1|CD981651
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
EST: gi|32926620|gb|CF031432.1|CF031432
EST:     TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGT                         GTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT
genomic: TTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatat ... tcgtcgtcagGTTAGAATTGCCCAGGGCCTTGTCCACCTCGGAAAGGGCTTGTTGACCCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGGGTTTGATTGGTGCTGGCACAAACAATGCCAGAATAGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAAGAAGCTGCTCATCTGTTTTGTgtaagtatatatcaacgacgatattttggcatccttcatgtactaataatggttccttggtttcgttataagttccatccattgatccgttttatcgtgttcgtcgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT