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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttgttcatctgacaattgcaatatatttgctttgattttcataaattatcattcaagttatcttacggttttgatttgattttttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG

Basic information

species Zea mays
transcript GRMZM2G044027_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 3'ss of exon 7
gtaaatttgttcatctgacaattgcaatatatttgctttg-attttcataaattatcattcaagttatcttacggttttgatttgattttttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
|||  | ||||| | | |||| | || || ||||    |  |||||| |||  ||      |||||  |||||    |||| |||||||  |  ||||||||||||||| || ||||| |||||||||||||| ||||| || |||||||| |||||||||||||||||||||||||
gtacgtctgttc-tatcacaaatacactacatttatcctatattttcttaatctagtgca-aagttcacttac----ttgaattgatttacttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGTTTGACTATCACAGGCAGCATGGCATTG

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA12G06980.2 (Glycine max), 3'ss of exon 6
gtaaatttgttca-tctgacaattgcaatatatttgctttgattttcataaattatcattcaagttatctta-cggttttgatttgattttttctat-cagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
  |   |  |  | | | | |  | |  ||| | | |||| ||  | ||   ||   ||     || | | |   |  |  |  | |   | | |   |||||||  |||| |||||||||||||| |||||||| ||||| ||  ||||||| || ||||| |||||||| || || |
-aatgatcatcgactttaatatataccttatctgtccttttatcatgatctcttgatatgttgcttttatcaatagcctaaacataaaaatgtgtgcacagGAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCACGGAATCG

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 7
--gtaaatttgttcatctgacaattgcaatatatttgctttgatt--ttcataaattatcattcaagttatcttacggttttgatttgattttttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
  | || || |     |   | | |  |||||||    | | |||   || |  | | |   |  |   ||          | |    || | |   | |||||||  |||| |||||||||||||| |||||||| ||||| ||  ||||||| || ||||| ||||||||||| || |
taggaatttggaatgaccatcgactttaatatataccatatcattatctcttggaatgttgctttatcaatagcctaaacataa--aaatatgtatgaacagGAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCG

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaaatttgttcatctgacaattgcaatatatttgctttgattttcataaattatcattcaagttatcttacggttttg--atttgattttttctat--cagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
               |   | |    |  |||  ||||| | ||    || ||||| | |  || |  | ||  | ||   | ||| ||| |  |||   ||| || ||||||||||||||||| || |||||||| || |||||  ||||||| ||||| |||||||| ||||| ||||
--------------gtaggagtaaacacttatcagcttttaattct-caacttatc-tgcgtgtcaattcacattcttataacttggtttctattatgatagGTGTTAGGAGCTGTTATGATGAAGGCAAGCGTGTTGCTGAGACCTTGATGTTTGACTACCACAGGCAACATGGAATTG

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 7
-gtaaatttgttcatctgacaattgcaatatatttgctttgattttcataaattatcat--tcaagttatcttac-ggttttgatttgattttttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
  ||   ||  || |||  |  ||  || ||    |   || | || | ||||||| |   |  ||    || || |    |  | | | ||    || |||| ||  ||||||| ||||||||||| |||||||| || |||||  ||||||| || ||||| ||||| ||||| || |
aatactgttactcttctttctcttttaaaattgaagacatg-tcttgagaaattatgagaatttagcaccctcactgaagatagtctcacttgactta-cagGTGTGCGGAGCTGCTATGATGAGGGGAAGCGTGTGGCTGAGACTTTGATGTTTGATTATCATAGGCAACATGGGATAG

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv13s0019g00840.t01 (Vitis vinifera), 3'ss of exon 7
--gtaaatttgttcatctgacaattgcaatatatttgctttgattttcataaattatcattcaagttatcttacggttttgatttgattttttctat--cagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
  | | | |      | || |   |    ||  |||   | |      | | |   |   || |  |||  | |  | |   ||   || | | |||  ||||||||||||| || ||||||||||| ||||| || || || || |||||||| || ||||||||||||||||| || |
tagcagactgacatttttggcggctctgttaattttatgtaggaaa--aaagaccttttctctaactatgattctatatgccttccgttatatatattacagGAGTCAGGAGTTGCTATGATGAGGGAAAGCGAGTGGCTGAAACTCTGATGTTTGATTATCACAGGCAGCATGGAATAG

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------gtaaatttgttcatctgacaattgcaatatatttgctttgattttcataaattatcattcaagttatcttacggttttgatttgattttttctatc----agGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
                    |   ||| |   |   ||    |  |  | || ||   | | | ||| |  ||||||| |   |   ||     || |  |   || || | |     |||||| || ||||| ||||| ||||| |||||||| || ||||| || ||||| ||||| || |||||||||||| |||
gtaaatccaactcacgttacacgcttggtgcaccatcacgctctgtgcagtttctg-aactctgatacacaatcattctacacaaaatattaccttaacgttgcttcttgtcttgtgtagGAGTAAGAAGCTGCTATGACGAGGGAAAGCGTGTTGCTGAGACTCTTATGTTTGACTACCATAGGCAGCATGGCGTTG

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|149089880|gb|EE179165.2|EE179165
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148944203|gb|EC889294.2|EC889294
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32841175|gb|CD980856.1|CD980856
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|14206834|gb|BG840512.1|BG840512
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148961007|gb|EE011707.2|EE011707
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32909997|gb|CF014809.1|CF014809
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|6194647|gb|AW146751.1|AW146751
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32841101|gb|CD980782.1|CD980782
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|211032180|gb|FL277400.1|FL277400
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148970766|gb|EE021510.2|EE021510
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32850262|gb|CD989943.1|CD989943
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCCGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|6020952|gb|AW065880.1|AW065880
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|67016223|gb|CO444972.1|CO444972
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32850632|gb|CD990313.1|CD990313
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|21987903|gb|BQ779431.1|BQ779431
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148930565|gb|EE285203.2|EE285203
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32850126|gb|CD989807.1|CD989807
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGAGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149097828|gb|EE183755.2|EE183755
EST:     GCTTGAGCATCCTCAACCCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32850554|gb|CD990235.1|CD990235
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|13149594|gb|BG319916.1|BG319916
EST:     CTTGAGCARCCTCCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: CTTGAGCATCCT-CAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|71442898|gb|DR823948.1|DR823948
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149107237|gb|EE189120.2|EE189120
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149081449|gb|EE170575.2|EE170575
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|213173372|gb|FM186537.1|FM186537
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|40337515|gb|CK371585.1|CK371585
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148951041|gb|EC896695.2|EC896695
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149066780|gb|EE286922.2|EE286922
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32850616|gb|CD990297.1|CD990297
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148960534|gb|EE011139.2|EE011139
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32840343|gb|CD980024.1|CD980024
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149089846|gb|EE179125.2|EE179125
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32840626|gb|CD980307.1|CD980307
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGGTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149097834|gb|EE183762.2|EE183762
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32849033|gb|CD988714.1|CD988714
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|149097829|gb|EE183756.2|EE183756
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|67013235|gb|CO441984.1|CO441984
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148945878|gb|EC891170.2|EC891170
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|148956701|gb|EC902571.2|EC902571
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|213192508|gb|FM182601.1|FM182601
EST:     GCTTGAGCATCCTCAAACCGAGGGCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|211427695|gb|FK999882.1|FK999882
EST:     ACTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
EST: gi|32165003|gb|CD670321.1|CD670321
EST:     GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTG                         GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT
genomic: GCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGT

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: 469

GATTTTGTTGACATCAACATCTGAAGTTTATGGTGATCCGCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 855

GATTTTGTTGACATCAACATCTGAAGTTTATGGTGATCCGCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1057

GATTTTGTTGACATCAACATCTGAAGTTTATGGTGATCCGCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1434

GATTTTGTTGACATCAACATCTGAAGTTTATGGTGATCCGCTTGAGCATCCTCAAACCGAGGCCTACTGGGGCAATGTTAACCCAATTGgtaaatttgt ... tttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcataaattatcattcaagttatcttacggttttgatttgattttttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG
                                          ttttttctatc  CT-rich tract
                               ttttgatttgattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatttgttcatctgacaattgcaatatatttgctttgattttcataaattatcattcaagttatcttacggttttgatttgattttttctatcagGAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT