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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctctatgagggcctgaatgcaagttacctatgggttttctttgatataattgttgcattattatattttcaaatattgacatgctgacctgccttgtacaacctaaattcag

Basic information

species Zea mays
transcript GRMZM2G094123_T01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094123_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os12g25710.2 (Oryza sativa), 5'ss of exon 12
GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct---atgagggcctgaatgc---aagttacctatg-----ggttttctttgatata---attgttgcattatt----atattttcaaatattgacatg---ctgacctgccttg-taca----acctaaattcag
||| |||||||  |||| ||  ||||||||||||| || || |||||||| || ||||||||||| |||||||| |||||||| || ||||||||||||  |        |  ||   |||||   || |  |||  |       | |  |||| |       ||  ||||||  |    |  | |||    ||  || ||   || ||||    || | |     ||| ||||||||
GAAGTTGAGAAGGATGTGAAGGCTCGGACAAAAGGTGACCTGGGAGCTGCCAAGACATTGTGTACACCATTTGAACAGCCAGATCTCCCAGAAGgtatgctttgcaggcaatagctaaaatgccacaaatagcctgggttcacaatctcttttgctcggtcttttactgcatttcttgcaacgtattcttccatgcacttgtaactaaccttttctgatgcggtgcaccaaaattcag
















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|62525869|gb|DN828517.1|DN828517
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAA-GCCAGCGAAAAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60358761|gb|DN225734.1|DN225734
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60353211|gb|DN220184.1|DN220184
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60347786|gb|DN214759.1|DN214759
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|24766734|gb|CA401881.1|CA401881
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|50325822|gb|CO520948.1|CO520948
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|78075729|gb|DV504163.1|DV504163
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTTTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|45568355|gb|CK986025.1|CK986025
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5739769|gb|AI947345.1|AI947345
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|211072969|gb|FL236337.1|FL236337
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60347846|gb|DN214819.1|DN214819
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5762122|gb|AI967170.1|AI967170
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6742646|gb|AW313461.1|AW313461
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|78075730|gb|DV504164.1|DV504164
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|31354358|gb|CD438715.1|CD438715
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|76286941|gb|DV026509.1|DV026509
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5922251|gb|AW055540.1|AW055540
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|211378923|gb|FL475780.1|FL475780
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGGTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60339891|gb|DN206864.1|DN206864
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6654144|gb|AW267549.1|AW267549
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|78021806|gb|DV490193.1|DV490193
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|91055004|gb|EB165422.1|EB165422
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6466787|gb|AW191447.1|AW191447
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60353004|gb|DN219977.1|DN219977
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|60348773|gb|DN215746.1|DN215746
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5922253|gb|AW055542.1|AW055542
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6501100|gb|AW202473.1|AW202473
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6539051|gb|AW225190.1|AW225190
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|37387552|gb|CF630973.1|CF630973
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5296270|gb|AI782950.1|AI782950
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5791178|gb|AI977970.1|AI977970
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5804624|gb|AI979594.1|AI979594
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|71332072|gb|DR802940.1|DR802940
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|12968572|gb|BG265518.1|BG265518
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|91055003|gb|EB165421.1|EB165421
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTTTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6526838|gb|AW216107.1|AW216107
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|24769247|gb|CA404376.1|CA404376
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|5847095|gb|AW000174.1|AW000174
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|6827734|gb|AW331377.1|AW331377
EST:     AGCTGCGAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG
EST: gi|91052461|gb|EB162879.1|EB162879
EST:     AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAG                         GTACCCTGTGCTTTGCATTTGGAAAGCCAGCGAAGAAGTGGTCGTTTTGGG
genomic: AGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGG

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), 48 (downstream exon)
Score: 348

GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGGGCCGCAGCTACTGATTGCCTGTGCTGGGATTATTTCCGGATTCAGTTCT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 356

GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGGGCCGCAGCTACTGATTGCCTGTGCTGGGATTATTTCCGGATTCAGTTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 440

GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGGGCCGCAGCTACTGATTGCCTGTGCTGGGATTATTTCCGGATTCAGTTCT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 263

GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctct ... ctaaattcagGTACCCTGTGCTTTGCATCTGGAAAGCCAGCGAAGAAGTGGTCGTTCTGGGGCCGCAGCTACTGATTGCCTGTGCTGGGATTATTTCCGGATTCAGTTCT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAATTGAGAAAAATGTAAAAACTCGGACAAAAGGGGAACTTGGAGCTGCAAAAACATTGTGTACTCCATTTGAGCAGCCAGAACTTCCAGAAGgtatggctctatgagggcctgaatgcaagttacctatgggttttctttgatataattgttgcattattatattttcaaatattgacatgctgacctgccttgtacaacctaaattcag

- - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG