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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgtgttcattcagtgctttgtgacaatccaatgaaccttgatcatcatcatcatcatctggtggtgcgttgctggtaaatgaggaacggatgcatcacccaccgacccttccttcatctgtgctgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC

Basic information

species Zea mays
transcript GRMZM2G141922_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141922_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g02130.1 (Oryza sativa), 3'ss of exon 7
gtacgcgtgttcattcagtgctttgtgacaatccaatgaaccttgatcatcatcatcatcatctggtggtgcgttgctggtaaatgaggaacggatgcatcacccaccgaccct-tccttcatctgtgctgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC
      || ||       ||     |  || |   ||    |  |||    |||  ||| | |   | |||   |   | |   || | |   |    || ||  |  | |  | |   |||| || ||      |||||  ||||||  |||||| ||||||||||||||||| ||||| |||| ||| |||||||| ||||| || || || ||||| ||  ||||||| ||||| |
------gtatttgagtgctgaacaatttcagtgttatctgtca-gattgggatc-ccataaacacattgtgtaatttagctttctgtgcatttgcatgatgactgaatggctgtgttgatcatttgggc------acagGTGAGCGACACGGAGCTTTGCTGCATCTGCTTCGACCAGGCTTGCACCATTGAGGTGCAAGACTGTGGACATCAAATGTGTGCACCGTGCACGCTGGCAC

upper sequence: GRMZM2G141922_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv06s0004g04550.t01 (Vitis vinifera), 3'ss of exon 7
gtacgcgtgttcattcagtgctttgtgacaatccaatgaaccttgatcatcatcatcatcatctggtggtgcgttgctggtaaatgaggaacggatgcatcacccaccgacccttccttcatctgtgctgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC
                                        | ||| || |  ||   || ||||  |  ||   || | ||  ||      |     ||  |     |     ||| ||  |   |  |  ||  |||||||| ||    ||||| |||||||| |||||||| |||| |||||  || || || || |||||||| ||||||||||||||    |||||||| || |
-------------------------------------cgtctttggtcctggtcccaattatcttctcctgttctgttagtctattcttg-caagaacaagaggtctcagttgttcattgtttgataatatcttgcagGCCAGTGAAACAGAGCTTTGCTGCATATGCTTCGATCAGGTGTGCACAATTGAAGTCCAAGACTGCGGTCACCAGATGTGCGCTCAATGCACACTAGCCC
















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|93281876|gb|EB674140.1|EB674140
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|93281101|gb|EB673365.1|EB673365
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|110194922|gb|EC876820.1|EC876820
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|71443636|gb|DR824686.1|DR824686
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATTTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|71433944|gb|DR814994.1|DR814994
EST:     CGCTTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCTTCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|71309634|gb|DR791095.1|DR791095
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78118579|gb|DV536963.1|DV536963
EST:     ATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: ATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78090470|gb|DV518844.1|DV518844
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|149105984|gb|EE291621.2|EE291621
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|148958063|gb|EC904246.2|EC904246
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATTTGTTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|148999310|gb|EE036244.2|EE036244
EST:     GATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: GATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|149064858|gb|EE286529.2|EE286529
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|149104510|gb|EE289959.2|EE289959
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|28568880|gb|CB280755.1|CB280755
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTG
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTG
EST: gi|78111207|gb|DV529604.1|DV529604
EST:     GCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: GCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|28987183|gb|CB351505.1|CB351505
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|94480421|gb|EB709379.1|EB709379
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|110950441|gb|EE170598.1|EE170598
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|28568926|gb|CB280801.1|CB280801
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|149085584|gb|EE175097.2|EE175097
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|149085674|gb|EE175188.2|EE175188
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|74241899|gb|DT649813.1|DT649813
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|71762078|gb|DR960015.1|DR960015
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|71435966|gb|DR817016.1|DR817016
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCAAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|86470518|gb|DY236888.1|DY236888
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|31558758|gb|CD527970.1|CD527970
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|28576075|gb|CB281967.1|CB281967
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|76284382|gb|DV023950.1|DV023950
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|148944541|gb|EC889663.2|EC889663
EST:     ATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: ATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78114492|gb|DV532881.1|DV532881
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78107652|gb|DV526070.1|DV526070
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78125595|gb|DV543979.1|DV543979
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|93016851|gb|EB642371.1|EB642371
EST:     AGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: AGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|148928439|gb|EE285212.2|EE285212
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|93283728|gb|EB675992.1|EB675992
EST:     ATGCCATTGAGGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: ATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|28987181|gb|CB351504.1|CB351504
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78116966|gb|DV535353.1|DV535353
EST:     ATTGAAGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATTTGCTTCGAGCAGGCGTGCAGCATC
genomic: ATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|93281877|gb|EB674141.1|EB674141
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|148935211|gb|EC879248.2|EC879248
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|149007599|gb|EE040247.2|EE040247
EST:     CGCTTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|78119873|gb|DV538257.1|DV538257
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|101396548|gb|EB820200.1|EB820200
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|74241429|gb|DT649343.1|DT649343
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC
EST: gi|88752562|gb|DY536703.1|DY536703
EST:     CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAG                         GCCAGCGACGGGGAGCTGTGCTGCATCTGCTTTGAGCAGGCGTGCAGCATC
genomic: CGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATC

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), 45 (downstream exon)
Score: 69

GGAGAGGGAGGAGAAGATCCTCAAGGGCATCACCAAGTATTCGCAGCCATCGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC


Block sizes: 49 (upstream exon), 44 (downstream exon)
Score: 29

GGAGAGGGAGGAGAAGATCCTCAAGGGCATCACCAAGTATTCGCAGCCATCGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 41

GGAGAGGGAGGAGAAGATCCTCAAGGGCATCACCAAGTATTCGCAGCCATCGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC


Block sizes: 49 (upstream exon), 44 (downstream exon)
Score: 46

GGAGAGGGAGGAGAAGATCCTCAAGGGCATCACCAAGTATTCGCAGCCATCGCCTACTTCGCCTTGCGAGCACGATGCCATTGACGAAGCGTCCTTGGAGgtacgcgtgt ... tgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaggaacggatgcatcacccaccgacccttccttcatctgtgctgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC
                                          tgctgac  putative branch site (score: 46)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcgtgttcattcagtgctttgtgacaatccaatgaaccttgatcatcatcatcatcatctggtggtgcgttgctggtaaatgaggaacggatgcatcacccaccgacccttccttcatctgtgctgactcacagGCCAGCGACGGGGAGCTGTGCTGCATCTGCTTCGAGCAGGCGTGCAGCATCGAGGTGCAGGACTGCGGGCACCAGATGTGCGCGGCGTGCACACTGGCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG