Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacataccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcag

Basic information

species Zea mays
transcript GRMZM2G064988_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064988_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g02960.3 (Oryza sativa), 5'ss of exon 4
CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacata--ccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataa----cacttt-------aaatcttatca-----gttatgattattttttcag
 |||||||||||||||||||| |||||||| ||||| || || |||||||| ||||| ||||| ||||||||||| || ||||| ||||||||||||||||||  |  |||||| | | |   |||  |||| || |||   ||||||   |  | ||  ||    ||     || ||     |   | |  |||| |         || |||   ||    | || |   ||   || | | | | |||       |||       | |||| ||||     ||| || |||| ||| |||
TCACCAAAATGAAGAGTTTGCCGTGAGAGGAAAGGAGCCGAAAGATGAAGTGCAGATATACACGTGGAAGGATGCCACACTCCGAGAGCTCACTGATCTTgtaatt--tttcta-atattgtgctttcttgt-cctctttggggaaaatgaaattttaccta-gttttatactacttaacaaactagaaatcaacaaaatttgactagtctga-tgatgataagtggggtttggcactacgtttgactaaatgttgtttttagatggagatctgatcagcacagttttggttatgttt-cag

upper sequence: GRMZM2G064988_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA03G02240.1 (Glycine max), 5'ss of exon 2
CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacataccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcag
|||    |  ||||| ||||| || ||||| || || || || || || |||||||||||||| |||||||| || || ||||| || ||||| |||||||||  | ||   |     || |  ||   |    |||| ||         |   | ||||  |  ||| | |    | |    |    | |     |    |   |                                                                              
CCATTCCATGGAAGACTTTGCCGTCAGAGGCAAAGAGCCCAAAGACGAGGTTCAGATTTACACCTGGAAGGACGCTACTCTCCGAGAACTCACCGATCTTgtaatttctcaatttgacctaatgtttcgttcttcactccatttttttccttcctttattgcc--ctttatgcttatggttcactcactcactgtgttttgcgaag------------------------------------------------------------------------------

upper sequence: GRMZM2G064988_T03 (Zea mays), 5'ss of exon 3
lower sequence: AT2G45640.2 (Arabidopsis thaliana), 5'ss of exon 3
CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtccttt-ctac--agacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacataccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcag
 ||    | |||||| | ||| |||||||| || |||||||||||||||||||| || ||||| ||||| ||||| |  || |||||||| || ||| | ||||||| | | | |   ||| |||  |||  ||    |    |    |||      |   || | | |||       ||||  |   || ||  || ||                                                                                       
TCATACTAGTGAAGATTATGCTGTGAGAGGCAAAGAACCAAAGGATGAAGTTCAAATCTACACTTGGAAAGATGCCAGTCTTCGCGAGCTAACAGATTTGgtatgtcttctaccattaagatttagattgggtgcttgagacaacaataaagcagcttgctttgagaacttttcttgtgtagttttgtttttacaaatat---------------------------------------------------------------------------------------

upper sequence: GRMZM2G064988_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv15s0048g01290.t01 (Vitis vinifera), 5'ss of exon 3
CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtc-ctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacataccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcag
 |||   || ||||| |||||||||||||||||||| || |||||||| || || |||||||||||||||||||| || || || ||| | |||||||| ||||||  ||   |   ||  | |||  | |     | |   |       |  || ||  |  ||   ||  |||   |  |||  |    ||  | ||| |||                                                                                 
TCACTCCAAGGAAGACTTTGCAGTGAGAGGGAAGGAGCCCAAGGATGAGGTCCAAATTTACACATGGAAGGATGCTACTCTTCGTGAGTTAACTGATCTGgtatgtagctactttttgagctgactgatctagtgtattgttactttttgagttgactgatc-cagtatgttgaa-acaatgtgttt----attccttactactct-------------------------------------------------------------------------------

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|22819373|gb|BU499463.1|BU499463
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|74243421|gb|DT651335.1|DT651335
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|74243422|gb|DT651336.1|DT651336
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|9028651|gb|BE238691.1|BE238691
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211327564|gb|FL371063.1|FL371063
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|78544086|gb|DV621584.1|DV621584
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|26557837|gb|CA830072.1|CA830072
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|5608284|gb|AI901951.1|AI901951
EST:     ATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: ATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211291291|gb|FL447804.1|FL447804
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|76284202|gb|DV023770.1|DV023770
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|60348995|gb|DN215968.1|DN215968
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|8665349|gb|BE186165.1|BE186165
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|28910088|gb|CB331256.1|CB331256
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|113701690|gb|EE679194.1|EE679194
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|37394446|gb|CF634497.1|CF634497
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|33096101|gb|CF056095.1|CF056095
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211199113|gb|FL383377.1|FL383377
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|8665340|gb|BE186156.1|BE186156
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|4885900|gb|AI677020.1|AI677020
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCCCTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|60399890|gb|DN232700.1|DN232700
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|9028622|gb|BE238662.1|BE238662
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|22552497|gb|BU102336.1|BU102336
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|31558542|gb|CD527754.1|CD527754
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|15499296|gb|BI595809.1|BI595809
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|21843145|gb|BQ703726.1|BQ703726
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|20802464|gb|BQ293514.1|BQ293514
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|60291853|gb|DN190092.1|DN190092
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|20301244|gb|BQ164187.1|BQ164187
EST:     CACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: CACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|86470083|gb|DY236453.1|DY236453
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|37396964|gb|CF635776.1|CF635776
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|60347753|gb|DN214726.1|DN214726
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|50322625|gb|CO517751.1|CO517751
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|31664335|gb|CD573060.1|CD573060
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|60343137|gb|DN210110.1|DN210110
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|26456052|gb|CA827635.1|CA827635
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211136465|gb|FL473223.1|FL473223
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGNTTTGTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|101396763|gb|EB820307.1|EB820307
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|18178204|gb|BM379414.1|BM379414
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|101396473|gb|EB820163.1|EB820163
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|87157278|gb|DY402067.1|DY402067
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|30087735|gb|CB885941.1|CB885941
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211045986|gb|FL421700.1|FL421700
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211327957|gb|FL398348.1|FL398348
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAKCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211426706|gb|FL073219.1|FL073219
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211126711|gb|FL428261.1|FL428261
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAGGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|101396475|gb|EB820164.1|EB820164
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|15427138|gb|BI542960.1|BI542960
EST:     ATGGAAGGATGCGACCCTCCGCGAGCTCCCTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: ATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 191

CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 113

CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 139

CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 88

CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACCAAAATGAAGAGTTTGCAGTGAGAGGGAAGGAACCAAAGGATGAAGTTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacataccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA