Skip to another splice site:
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 5'  3'   		3  
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 5'  3'   		5  
 5'  3'   		6  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acctacagtattaggagcatctgggagatgtcttatattgtgattgtggctgatcgtatgtacttgcatgatttggtcgctgtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG

Basic information

species Zea mays
transcript GRMZM2G143862_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 3'ss of exon 12
-------------------------------------------------------acctacagtattaggagcatctgggagatgtcttatattgtgattgtggctgatcgtatgtacttgca-tgatttggtcgctgtctt---ttt---tctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                                       ||   |  | |       || |  |     | ||   ||  ||    |      |  ||| ||||  | |||| || ||    ||||   |||   | ||| || ||||||||||||| || ||||| || ||||||||||| ||||||||||| |||||||||||  ||||||||||||||||||||||||
gtatgcacactatagttccctgtcacttgttggatacccagattggaacctaagaacgggctttgtggaagtgatgtttgcagcatgtttgtttacgaaccagcgcaggcagatgaacttctaatgatatgatcatgctcttatgtttgtatttttactcagGTTGGCAACCTCGCTGCTCCTGTGGAAGAATGGACCGTTGGTGGAACTGCATTGACATCGTTGATGGATGTTGAGAGGAGGCACG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G39380.2 (Glycine max), 3'ss of exon 12
-------------------------------acctacagtattaggagcatctgggagatgtcttatattg--tgattgtggctgatcgtatgtacttgcat--gatttggtcgctgtctttttt--------------ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                               |   |    |||||     |||   ||||   || || ||  ||||||||| | |   | | |  |   |   | |       ||   ||||||               |||| | ||||||| ||  |    ||||| |||||||||||||||||||||||||| ||| | || ||| ||||||| || |||||||| || |
gtttgtgcctatgctcttcacattatcttctaatcatcaaattagatatttcttctagattggttttaatgattgattgtggttcaaaatgtttggtaatactgggtccatcaactcaattttttgatttgctatgatattttgatcagGTTGGTAATTTATGTGCTCCTGTAGAAGAATGGACTGTTGGTGGAACTGCACTCACTTCATTGATGGACGTGGAGAGGAGACATG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 12
-------------------------------------------------acctacagtattaggagcatctgggagatgtcttatattgtgattgt---ggctgatcgtatgtacttgcatgatttggtcgct-gtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                                  |||| | |  |      |  ||   |   | | | |||||| ||||   |    || | |   ||   | |  ||   |   | || ||  |  || | | |||||| |||  |    ||||| |||||||||||||||||||||||||| ||| | || |||||||||||||| ||||||||||| |
gtttgtgcttctctacatgccttaatcttttgatatcttcttaaatatctcctagattggtgttgataattgattgtactttgaaattgtgcttgttttgcaatattgaagtcaccaacctagttatttaatttgttttgatatttggatcagGTTGCCAATTTATGTGCTCCGGTAGAAGAATGGACTGTTGGTGGAACTGCACTCACCTCACTGATGGATGTGGAGAGGAGGCATG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G01360.1 (Glycine max), 3'ss of exon 10
-------------------------------acctacagtattaggagcatctgggagatgtcttatattg--tgattgtggctgatcgtat------gtacttgcatgatttggtcg----------ctgtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                               |   |    ||||      |||   ||||   || || ||  ||| ||||| |||   | |       |||| |    ||    ||           |||   |  |  |||  | ||||||| ||  |    ||||| |||||||||||||||||||||||||| ||| | || ||| ||||||| || |||||||| || |
gtttgtgccaatgcttctcattatcttctctaatcatcaaattaaatatttcttctagattggttttaatgattgactgtggttgaaaatgtttcgtaatactggggccatcaactcaatttttggatctgctatgatatttttatcagGTTGGTAATTTGTGTGCTCCTGTAGAAGAATGGACTGTTGGTGGAACTGCACTCACTTCATTGATGGACGTGGAGAGGAGACATG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G01050.1 (Glycine max), 3'ss of exon 12
-------------------------------------------------acctacagtattaggagcatctgggagatgtcttatattgtgattgt---ggctgatcgtatgtacttgcatgatttggtcgctgtctttttt-ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                                  |||| | |  ||     |  ||   |   | | | |||||| ||||   |    || | |   ||   | |  ||   |   |  ||||     |||| | ||||||| ||  |    ||||||||| |||||||||||||||||||||| ||| | || ||| |||||||||| ||||||||||| |
gtttgtgcttctctacatgccttaatcttttgatatctacttaaatatctcctagattggtattgataattgattgtactttgaaattgtgtttgttttgtaatattgaagtcaccaacctagttctttaatttgctttgacattttgatcagGTTGGGAATTTATGTGCTCCAGTAAAAGAATGGACTGTTGGTGGAACTGCACTCACCTCAATGATGGATGTGGAGAGGAGGCATG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 12
---------------------------------------------------------acctacagtattaggagcatctgggag-atgtcttatattgtgattgtggctgatcgtatgtacttgcatgatttggtcgctgtcttt---tttctttgctt--agGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                                          |||  |   ||    | |  |   || |||||   | |     | |||| ||| | |      ||   |   ||   | || | ||    |   |||||||  |||| || ||  | |  |||||||| ||||||||||| || || ||||| |||||||| ||  |||||||||| |||||||| || |
gtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 12
--------------------------------------------------------------acctacagtattaggagcatctgggagatgtctta-tattgtgattgtggc--------tgatcgtatgtacttgcatga---tttggtcgctgtcttttttctttgctt-agGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                                                 | || |||      |  ||   |||  ||  | | |||| ||| |  |        |  | ||   ||  || |  |   ||| ||   ||| | |  || |  ||| ||||||| || ||  | |||||||| ||||||||||||||||||||||| || ||||| ||| | |||||||| |||||||| || |
gttggttcttcattccgcttaatcatttttgtactttttgatcagtcttccttttttttcatttttccaatatctcattctgcttatagagttcaaactcttgttattctatcgaaggttatagtagttaataactgaacaaactttttgtaattgtttctcatcatgtcttcagGTTGGGAATCTGTCTGCTCCAGTTGAAGAATGGACTGTTGGTGGAACTGCCTTGACTTCATTAATGGATGTGGAGAGGAGACATG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ13842 (Selaginella moellendorffii), 3'ss of exon 12
acctacagtattaggagcatctgggagatgtcttatattgtgattgtggctgatcgtatgtacttgcatgatttggtcgctgtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                         |  ||| |   |  |||    |  ||   | |  ||  ||     | |  |||    |||| || ||  |  | ||  |   | |||| |||||||| || || || |||||||||||| ||||||||||||||||  ||   |
-----------------------------------------gtctgtagtgaa--gtaccatccagctatagtgtgtgactaatgctctagttt--ccagGTGGGAAATTTGTCAGCCTCTTCAAAAGACTGGACTGTGGGAGGGACGGCATTGACATCATTGATGGATGTTGAGAGACGGAGAG

upper sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ12684 (Selaginella moellendorffii), 3'ss of exon 12
acctacagtattaggagcatctgggagatgtcttatattgtgattgtggctgatcgtatgtacttgcatgatttggtcgctgtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
                                         |  ||| |   |  |||    |  ||   | |  ||  ||     | |  |||    |||| || ||  |  |  |  |   | |||| ||||| || || || || |||||||||||| ||||||||||||||||  ||   |
-----------------------------------------gtctgtagtgaa--gtaccatccagctatagtgtgttactaatgctctagttt--ccagGTGGGGAATTTGTCAACCTCTTCAAAAGACTGGACCGTGGGAGGGACGGCATTGACATCATTGATGGATGTTGAGAGACGGAGAG

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|22521075|gb|BU079886.1|BU079886
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|24934232|gb|CA452450.1|CA452450
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|148933739|gb|EC877663.2|EC877663
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|8516679|gb|BE123404.1|BE123404
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|32945668|gb|CF050487.1|CF050487
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGTAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGGAGAATGGACTGTTGGTGGAACCAGC
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAA-CAGC
EST: gi|15079595|gb|BI388765.1|BI388765
EST:     GTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: GTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|32837934|gb|CD977612.1|CD977612
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|213170617|gb|FM193174.1|FM193174
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|78026256|gb|DV494643.1|DV494643
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|67021131|gb|CO449880.1|CO449880
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|32859024|gb|CD998705.1|CD998705
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|148934427|gb|EC878461.2|EC878461
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|149105031|gb|EE290510.2|EE290510
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|211286471|gb|FL080392.1|FL080392
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|31359777|gb|CD444134.1|CD444134
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|67023546|gb|CO452295.1|CO452295
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|37398696|gb|CF636665.1|CF636665
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGCCTGTTGGTGGAACACCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|4886023|gb|AI677143.1|AI677143
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|22521074|gb|BU079885.1|BU079885
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|211377905|gb|FL437238.1|FL437238
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|24767218|gb|CA402362.1|CA402362
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|67015451|gb|CO444200.1|CO444200
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|33102141|gb|CF062101.1|CF062101
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|78026598|gb|DV494985.1|DV494985
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|67024935|gb|CO453684.1|CO453684
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|211286472|gb|FL080393.1|FL080393
EST:     ATAGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|211182047|gb|FL030523.1|FL030523
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCA-CCTTGCGGCTCCAGTAG
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAG
EST: gi|4886138|gb|AI677258.1|AI677258
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|60343399|gb|DN210372.1|DN210372
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|60394144|gb|DN227014.1|DN227014
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|32849141|gb|CD988822.1|CD988822
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|67012343|gb|CO441092.1|CO441092
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|32847266|gb|CD986947.1|CD986947
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|67021107|gb|CO449856.1|CO449856
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|5108301|gb|AI740014.1|AI740014
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|149081933|gb|EE171094.2|EE171094
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|87155550|gb|DY400339.1|DY400339
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|71324861|gb|DR799137.1|DR799137
EST:     GACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: GACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|5018318|gb|AI714511.1|AI714511
EST:     ATGGTGCTGGTGCCCTTTTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|32839102|gb|CD978783.1|CD978783
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|3157350|gb|AA979972.1|AA979972
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|26558921|gb|CA831156.1|CA831156
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
EST: gi|211286477|gb|FL080398.1|FL080398
EST:     ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCG                         GTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA
genomic: ATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCA

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), 49 (downstream exon)
Score: 379

ATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 365

ATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 461

ATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 459

ATGCGGCCTTCCTACTAATTTTGATTCTAACTATTGCTATGCATTAGGCTATGGTGCTGGTGCCCTTCTCCAAAGTGGGAAGACAGGACTTATTTCGTCGgtacaatttc ... ctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggctgatcgtatgtacttgcatgatttggtcgctgtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
  ggctgat  putative branch site (score: 459)
                               tcgctgtcttttttct  putative PPT
                                       ttttttcttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acctacagtattaggagcatctgggagatgtcttatattgtgattgtggctgatcgtatgtacttgcatgatttggtcgctgtcttttttctttgcttagGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
acctaca
- - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - tgtgatt
- - - - - - - - - - - - - - - - - - - - - - - - gctgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatga