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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG

Basic information

species Zea mays
transcript GRMZM2G144995_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g22880.1 (Oryza sativa), 3'ss of exon 2
---tgcaaaattttggctgctgggcttatgcatagtgtatca-aattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
    | ||||| |||  || || ||||| |   |   | ||  ||        || |  || |  |  | | |||||| | || ||||  |    | | | ||| | || |||||||||||||| |||||||||||||| ||||||||||||||||| |||||||||||||||||||| || ||||||||||||||||| ||||
caaagaaaaatcttgtatg-tgtgcttaagttcaaaatctcgtaaagaaaaaatgta--tgtacacccgtt-tgcttattctggttttgtgtgatttactttagAAATCGGACTTGGAGAAGGCGCAGCTTGGCCTGGGTCATAGCTACAGCAGGGCGAAGGTGAAGTTCAATGTGAACCGCGTTGACAACATGGTGATTCAGG

upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G03150.1 (Glycine max), 3'ss of exon 2
--------tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
        | |   ||     ||  || | || || ||   | |      | | || |  |  |   |  || || |  |   |||||  | |      |  |   ||  |   || ||||| ||||| || ||||| ||||| ||||| ||||||||||| ||||||||||| ||||| || ||||| ||||||||||| || || |
gttagtgtttcctcatgcctccttttgtgtttctgtatccaggacacctgtatcttatttatatcactaatttatatattgtttttgtgctgcttg-atttttcacagTCTGGAGATTTGGAAAAGGCACAACTTGGTCTGGGACATAGTTACAGCAGGGCAAAGGTGAAGTTTAATGTTAACCGTGTAGACAACATGGTTATTCAAG

upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G11560.1 (Glycine max), 3'ss of exon 2
-----tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatg--------tgcttaatttgtttttcc-----gatggtgat-tgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
          | |  || ||  || | || |||| |         |   ||||||  ||    ||  ||            |  |||| || |||||       ||| |   | |||||      || ||||| ||||| || ||||| ||||||||||| |||||||| || |||||||| |||||||| || ||||||||||||||||| || || |
gttagcatttactcctgcctcgtgtgtttttgcagaagcagaatcaccgtgttgtataggaatatatttcgcaagttattttatttaaattattttttttccttgattgaattctgtagTCCGGGGATTTGGAAAAGGCACAACTTGGTCTGGGGCATAGTTACAGCAGAGCAAAGGTGAAATTCAATGTTAACCGTGTTGACAACATGGTCATTCAAG

upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G13770.1 (Glycine max), 3'ss of exon 2
--------tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
        | |   ||      |  || | || ||  |   | || |   | |  | |     |   |  || || |   || ||| | |      || |  |   ||  |   || || || ||||| || ||||| ||||||||||| |||||||| || ||||||||||| ||||| || ||||||||||||||||| || || |
gttagtgtttcctcatgcctctttttgtgtttctgtgtgcaggataactgtgtcctatttttatcactaatttatatatatattttttatgctgcttgattttcacagTCTGGAGATTTAGAAAAGGCACAACTTGGTCTGGGGCATAGTTACAGCAGAGCAAAGGTGAAGTTTAATGTTAACCGTGTTGACAACATGGTTATTCAAG

upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT1G56110.1 (Arabidopsis thaliana), 3'ss of exon 2
tgcaaaattttggctgctgggcttatgcata-gtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgat-----tgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
              || ||  ||  |   || |||| | |||| || ||||    |||  |   | || || ||  | |  |  |   |   |  |     |||||  |  |||  | || ||  | ||||||||  | |  || ||||||||||| |||||||||||||||||||| || || || || |||||||| || || |
-------------gtg-tgatctcctttctatgtgtttaaaatctttttgtctgtttgcttatctcatatggtttgtgttctcataaaaaatttctgtttatgtagCCTGGTGATCTTGAAAAATCTCAGCTTGGATTAGCTCACAGCTACAGCAGAGCCAAGGTGAAGTTCAATGTTAACCGAGTGGATAACATGGTTATTCAAG

upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G12860.1 (Arabidopsis thaliana), 3'ss of exon 2
tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
              ||      ||||   |  | || | |||          | ||   ||||    ||||| ||| |  | |||   |  | || ||||  |  ||| ||||| || || || ||||| || |  |||||||||||||| || ||||||||||||||||| || || || || |||||||| || || |
-------------gtgtgttttttatttttgat-tacctaatacctacacatatttt--tgctattcgtgctcaatatcatcttct--ttataat-gtagCCTGGTGATTTGGAAAAAGCTCAACTTGGACTAGCTCATAGCTACAGCAGAGCAAAGGTGAAGTTCAATGTTAACCGGGTGGATAACATGGTTATTCAAG

upper sequence: GRMZM2G144995_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 2
----------------------tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
                        |||||| |  ||| |||   || ||  || |  | ||| |   |    |  | |   | |||       |   ||    | |    |  |  ||||||  |   ||| | || |||||||| ||||| ||||| || || |||||||| || ||||||||||||||||||||  | || || || ||||| || ||||
gtttgctttatttattttttccctcaaaatat--gcttctgcctttttgtgtattacaacaattaaagggtaggcggtattttctttgcaatttctcttatagtatttatttttccttgtagCCTGGAGACCTAGAAAAGGCCCAACTTGGTCTGGGACACAGTTACAGCAGAGCAAAGGTGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGG

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|31998165|gb|CD661961.1|CD661961
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|60343903|gb|DN210876.1|DN210876
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|61117658|gb|DN558619.1|DN558619
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|22472694|gb|BU037174.1|BU037174
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|19351456|gb|BM895988.1|BM895988
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|31998583|gb|CD662142.1|CD662142
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|149046499|gb|EE048023.2|EE048023
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211115646|gb|FK987583.1|FK987583
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|29544497|gb|CB604877.1|CB604877
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|19272593|gb|BM888849.1|BM888849
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|60347459|gb|DN214432.1|DN214432
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|61117659|gb|DN558620.1|DN558620
EST:     GTGTCCGCCTCCACTTCGACCGTTTCATCAACCATCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: GTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|22491398|gb|BU051321.1|BU051321
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|148969192|gb|EE019938.2|EE019938
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|28931181|gb|CB334542.1|CB334542
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|31997862|gb|CD661811.1|CD661811
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211115650|gb|FK987587.1|FK987587
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211115644|gb|FK987581.1|FK987581
EST:     TGCTC-GCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTG
EST: gi|148964049|gb|EE015199.2|EE015199
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|31612233|gb|CD568855.1|CD568855
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|31406046|gb|CD484778.1|CD484778
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|78118785|gb|DV537169.1|DV537169
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|31406428|gb|CD485160.1|CD485160
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|87152426|gb|DY397215.1|DY397215
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|149009676|gb|EE041608.2|EE041608
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|31406129|gb|CD484861.1|CD484861
EST:     TGCTCCGCGG-GTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|26557378|gb|CA829613.1|CA829613
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211115642|gb|FK987579.1|FK987579
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGNGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211115640|gb|FK987577.1|FK987577
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|67016760|gb|CO445509.1|CO445509
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211115647|gb|FK987584.1|FK987584
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAA                         GATTCTGACTTGGAGAAGGCCCAGC
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGC
EST: gi|29130492|gb|CB381196.1|CB381196
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|149094663|gb|EE180207.2|EE180207
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211114861|gb|FK987574.1|FK987574
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|211114856|gb|FK987569.1|FK987569
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACCGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|148948613|gb|EC894142.2|EC894142
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|61117656|gb|DN558617.1|DN558617
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|22521190|gb|BU080001.1|BU080001
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
EST: gi|148932756|gb|EE285396.2|EE285396
EST:     TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAG                         GATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG
genomic: TGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGG

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: 48 (upstream exon), 49 (downstream exon)
Score: 458

CTCCGAGGTCACCGGCATTCCCTGCCAGAGCAACGAATTCGTCCAGGAGCTGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 181

CTCCGAGGTCACCGGCATTCCCTGCCAGAGCAACGAATTCGTCCAGGAGCTGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 199

CTCCGAGGTCACCGGCATTCCCTGCCAGAGCAACGAATTCGTCCAGGAGCTGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 90

CTCCGAGGTCACCGGCATTCCCTGCCAGAGCAACGAATTCGTCCAGGAGCTGCTCCGCGGTGTCCGCCTCCACTTCGACCGTTTCATCAACGAGCTTAAGgtatcgcgtt ... gtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG
                        gcttaat  putative branch site (score: 90)
                          ttaatttgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcaaaattttggctgctgggcttatgcatagtgtatcaaattttgttgtgaagttggatgcttgatgtgcttaatttgtttttccgatggtgattgtagGATTCTGACTTGGAGAAGGCCCAGCTTGGCCTGGGGCATAGCTACAGCAGGGCCAAGGTGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGG

- - - - - - gctgctg
- - - - - - - - - - - - atgcata
- - - - - - - - - - - - - - - -gtgtatc
- - - - - - - - - - - - - - - - - - - - - tttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgctt