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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataccgggatggcggtcttttcttccctggccgagttttaggtaggctcataagcattcagctctgtggttgtgatgaaattgcacctataacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT

Basic information

species Zea mays
transcript GRMZM2G019999_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019999_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os07g36470.1 (Oryza sativa), 3'ss of exon 6
-ataccgggatggcggtcttttcttccctggccgagttttaggtag-gctcataagcattcagctctgtggttgtgatgaaattgcacctataacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT
   |     |||     | |   ||  |||      ||||| |||| |  |  || |||  |  | | | |   | |     |      |  |  || ||||||||| || || || ||||||||||| ||||||||    ||||| || |||||||| || |||||||| ||||||||||| |||||||||||||| || |
ttcaaacaaatgaaaaccctaatttatctgtaatttttttaagtagtggactcaaacat--aaatattttgaaataacaccgtcaactttcaatttttgcagATTCTACGTGTGCTTATGACAATCATCGACACATCGGCCGACACGACTGCTCTTGCTGTCGCCTGCTATGACCTCTCACAGTTCCTTCAGTACCACCCTT
















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|149005181|gb|EE039721.2|EE039721
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|24765080|gb|CA400241.1|CA400241
EST:     AATTTTGAAGAAAATGATTTCCAG                         ATTCTGAGAGTTCTCATGCCAATCATTGACACATCAAGTGACACCACCGCT
genomic: AATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|78080157|gb|DV508569.1|DV508569
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5525563|gb|AI861456.1|AI861456
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18171940|gb|BM347328.1|BM347328
EST:     AACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: AACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|60401227|gb|DN234034.1|DN234034
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|32851781|gb|CD991462.1|CD991462
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGTGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5847532|gb|AW000611.1|AW000611
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|6095647|gb|AW120314.1|AW120314
EST:     CAAGTTTCTGGCGTGAGAGCATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTNTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|149089827|gb|EE179105.2|EE179105
EST:     CAAGTTTTTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTTTCATGACAATCATTGACACATCAAGTGACACCCCCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|6056757|gb|AW091162.1|AW091162
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|17931119|gb|BM268079.1|BM268079
EST:     CAAGTTTCTGGCGTGAGAACATTACCAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5804594|gb|AI979564.1|AI979564
EST:     CAAGTTTTTGGCGTGAGACCATTACCAATTTTGAAGAAAATGATTTCCAG                         ATTTTGCGAGTTCTCATGCCAATCATTGCCCCATCAAGTGACNCCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18176630|gb|BM351563.1|BM351563
EST:     AACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: AACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18170622|gb|BM340462.1|BM340462
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|13198137|gb|BG354171.1|BG354171
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18172557|gb|BM347945.1|BM347945
EST:     AACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: AACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|148949226|gb|EC894668.2|EC894668
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5525725|gb|AI861618.1|AI861618
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5804492|gb|AI979462.1|AI979462
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|6021608|gb|AW066536.1|AW066536
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTTTGCGAGTTCTCATGCCAATCATTGACCCATCAAGTGANNNNNNNGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5915146|gb|AW052787.1|AW052787
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|16922374|gb|BM075552.1|BM075552
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18168708|gb|BM338548.1|BM338548
EST:     TTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCGCCGCT
genomic: TTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|37390466|gb|CF632463.1|CF632463
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|40336209|gb|CK370279.1|CK370279
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|12968772|gb|BG265718.1|BG265718
EST:     CAAGTTTCTGGCGTGAGAACATTANCAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5846782|gb|AI999865.1|AI999865
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|76909294|gb|DV163314.1|DV163314
EST:     CAAGTTTTTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTTTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCCCCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5929113|gb|AW056405.1|AW056405
EST:     ATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCNCCGCT
genomic: ATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5901299|gb|AW042399.1|AW042399
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|60397303|gb|DN230119.1|DN230119
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5325216|gb|AI783407.1|AI783407
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5296243|gb|AI782923.1|AI782923
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|149089817|gb|EE179093.2|EE179093
EST:     CAAGTTTTTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTTTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18175302|gb|BM350665.1|BM350665
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|6653953|gb|AW267358.1|AW267358
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|60350326|gb|DN217299.1|DN217299
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|5762099|gb|AI967147.1|AI967147
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|148970034|gb|EE020954.2|EE020954
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18170660|gb|BM340500.1|BM340500
EST:     GGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: GGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|89247015|gb|DY618801.1|DY618801
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|6020588|gb|AW065621.1|AW065621
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|18170707|gb|BM340547.1|BM340547
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|78022792|gb|DV491179.1|DV491179
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|61119705|gb|DN560666.1|DN560666
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|32851780|gb|CD991461.1|CD991461
EST:     CAAGTTTCTGGCGTGAGAACATTACCACTTTTGAAGAAAATGATTTCCAG                         ATTCTGCGTGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT

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), 47 (downstream exon)
Score: 252

ACAGCAAGTTCTTCTTGGTCATCTGGACTGGTCTCCAATGCACAAAGATCCAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 323

ACAGCAAGTTCTTCTTGGTCATCTGGACTGGTCTCCAATGCACAAAGATCCAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 314

ACAGCAAGTTCTTCTTGGTCATCTGGACTGGTCTCCAATGCACAAAGATCCAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 379

ACAGCAAGTTCTTCTTGGTCATCTGGACTGGTCTCCAATGCACAAAGATCCAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAGgtacaccttg ... aacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcataagcattcagctctgtggttgtgatgaaattgcacctataacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT
                                         ctataac  putative branch site (score: 379)
                             atgaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataccgggatggcggtcttttcttccctggccgagttttaggtaggctcataagcattcagctctgtggttgtgatgaaattgcacctataacttggcagATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAATTCCTTCAGTACCATCCAT

- - - - - - - - - - - ttccctg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgcacc