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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacgatagacatcgttggatcggtgtcatgatgtctgagattacttgattacaagttgctgt...

Basic information

species Zea mays
transcript GRMZM2G048117_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os05g06700.2 (Oryza sativa), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtga---attttctgttataatgaatgtcatggtgtagacgatagacatcgttggatcggtgtcatgatgtctgagattacttgattacaagttgctgt
 |||| |||||||||||||| ||||| || |||||||||||||||||||||||||||||||| |||||   ||| ||||||| |  |  | | ||||  || |  ||  |  | | | |||   |  ||||       || ||      |||  ||   |   
GCTCTTGCTCGGATGAACAAAAAGGACTCGTGGCTGTTCTGGTGGACTCTTTACTTGACTgtaagtgatctattatctgttaaagagtgtttaatggaatatattatgtagctggatagatatattgcatgtaaagcaagtttgtagatttagcagaacc---

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA03G38940.1 (Glycine max), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattt---tctgttataatgaatgtcatggtgtag-acgatagacatcgttggat-cggtgtcatgatgtctgagattacttg----attacaagttgctgt------------------------------------------------------------------------------------------------------------------
||  |||| |||||||||||||| ||||||||||| |||||||| || |||||| | || || ||  ||  |   |  |||| |    |   ||||   | | |    ||   |   |  ||    | | |  |||  ||| |||  | |    || | |||  |  |                                                                                                                   
TCATTCGCCCGGATGAACAAGAAAGATTCATGGCTTTTCTGGTGAACGCTTTACCTTACAGTAAGAAAACATCGATTGGTTACACATTAGAGCATgtgatggcattccagttttttcttaatatcctttgaatatgcatgatatttttcggaaaatcaaaagaggggggagggggaggtaggacatagaatcattgggttctgccattgcttacattttgtataacccctcaccaaaaagtacggtctctggtaaataattttttttgtgtattcttttatag

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA10G28620.1 (Glycine max), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacgatagacatcgttggatcggtgtcatgatg---tctgagattacttgattacaagttgctgt-
||  | ||||||||||||||||||||||||||||| ||||||||||| || ||| | || || ||  | | |  |    || || |||  |||   |    | |        |||||||  |     | |    ||| |   |  ||| ||  ||| | | || 
TCATTGGCTCGGATGAACAAGAAGGATTCATGGCTTTTCTGGTGGACCCTGTACCTTACGgtaagatagtatgattgattactgcatgcaatgacattccagtt---ttctcttggatccttacagagttacaatctaaatgtggttg-ttctaagatccagta

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA19G41530.1 (Glycine max), 5'ss of exon 3
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacgatagacatcgttggatcggtgtcatgatgtctgagat--tacttgattacaagttgctgt
||  | ||||||||||||||||| ||||||||||| ||||||||||| |||||| | || || ||  ||  |    |  | |    |   |   |||    |     ||   ||   |   | || |   ||     ||  || ||  | | || |      
TCATTGGCTCGGATGAACAAGAAAGATTCATGGCTTTTCTGGTGGACGCTTTACCTTACAgtaagaaaacatcgattggtcacacgttagagcatgtgatggcattccaattttttcttaatatcctttggttatgtatggtattttttcaaaaatcaaa--

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G22720.1 (Glycine max), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacgataga-catcgttggatcggtgtcatgatgtctgagattacttgatt-acaagttgctgt
||  | |||||||||||||||||||| |||||||| ||||||||||| || ||  | || || ||  ||| |  |    || || |||   ||   |      | || | |    |  |    ||||  ||||  |   ||    |||  |  | | |  | 
TCATTGGCTCGGATGAACAAGAAGGACTCATGGCTTTTCTGGTGGACCCTGTATCTTACAgtaagataatatgattgactactgcatgctgtgacattcctctttgatccttacagagttacagtcaaaatgtg-gttgttgtcagatccagtaatagggg-

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT1G09330.1 (Arabidopsis thaliana), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacga--tagacatcgttggatcggtgtcatgatgtctgagattacttgattacaagttgctgt-
||| | ||||||||||||||||| || |||||||| ||||||||||| |||||| |  | || |||   |  | | | | | |  | ||    |  ||  | |  ||   |        ||    ||||  |||   |  ||| | ||| || ||        
TCTTTGGCTCGGATGAACAAGAAAGACTCATGGCTTTTCTGGTGGACACTTTACCTTGCAgtaagtatttcatatctaacacttca-gttgcagcataagctaattacttaaaacccattcacaatcat--tgtggaactttagtggatgactaggaataaga

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv07s0005g01960.t01 (Vitis vinifera), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacgatagacatcgttggatcggtgtcatgatgtctgagattacttgattacaagttgctgt-----
||  | ||||||||||||||||||||||| ||||| || ||||||||  ||||| | | ||| ||| ||| ||  ||| ||| |  ||    |   | | | |   ||||  |||   |    | ||  ||   || | ||   ||  |||| ||  ||      
TCATTGGCTCGGATGAACAAGAAGGATTCTTGGCTCTTTTGGTGGACAATTTACCTTAATgtaagtaaatattg-gttttaa-ggttgcagagtacttgcccagtaacatgattgttgcataattat--tgatggaaagtaga-gaagacaaatttatgcaagaa

upper sequence: GRMZM2G048117_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv14s0060g00830.t01 (Vitis vinifera), 5'ss of exon 4
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatg----aatgtcat-ggtgtagacg----atagacatcgttggatcggtgtcatgatgtctgagattacttgattacaagttgctgt
||  | ||||||||||||||||||||||||||||| ||||||||||| |||||| |  | |||||| ||  ||   | ||||      ||| || |  || |||       || ||  |  | ||||  |  |     |  |||| | || |  |  |||         
TCATTGGCTCGGATGAACAAGAAGGATTCATGGCTATTCTGGTGGACCCTTTACCTTGCGgtgagtaaagatttgatcataacctactaatatccttagtatagcttccatatggaagttctgggatatgcat-gcagttgctgaaaataatccaacacat--------

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|211413474|gb|FL176059.1|FL176059
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|32839933|gb|CD979614.1|CD979614
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|33094405|gb|CF054399.1|CF054399
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|60672360|gb|DN475121.1|DN475121
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|211290861|gb|FL430241.1|FL430241
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|32839755|gb|CD979436.1|CD979436
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGG
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGG
EST: gi|32839932|gb|CD979613.1|CD979613
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|91052363|gb|EB162781.1|EB162781
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|50330556|gb|CO525682.1|CO525682
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|60339225|gb|DN206198.1|DN206198
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|60350866|gb|DN217839.1|DN217839
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|211416025|gb|FL176073.1|FL176073
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|32842036|gb|CD981717.1|CD981717
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|6022585|gb|AW067397.1|AW067397
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|211251204|gb|FL468408.1|FL468408
EST:     GGATGAACAAGAAGGATTCATGGCTG-T-TGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|91052362|gb|EB162780.1|EB162780
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|15214476|gb|BI431014.1|BI431014
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|60672355|gb|DN475116.1|DN475116
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|16916458|gb|BM072850.1|BM072850
EST:     GGATGAACAAGAAGGATTCATGGCTGTTATGGTGCACTCTTTACTTGACT                         ACTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|37376939|gb|CF625036.1|CF625036
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|211413473|gb|FL176058.1|FL176058
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|32842107|gb|CD981788.1|CD981788
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|78023025|gb|DV491412.1|DV491412
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|60340121|gb|DN207094.1|DN207094
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|29945505|gb|CB815673.1|CB815673
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|45847886|gb|CN071829.1|CN071829
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACCCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|32840483|gb|CD980164.1|CD980164
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|5791395|gb|AI978187.1|AI978187
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|50332887|gb|CO528013.1|CO528013
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|16927665|gb|BM080734.1|BM080734
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|60400222|gb|DN233029.1|DN233029
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
EST: gi|62550396|gb|DN830816.1|DN830816
EST:     GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACT                         GCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT
genomic: GGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCT

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), 48 (downstream exon)
Score: 95

TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTAAGCATTGCAAACA


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 187

TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTAAGCATTGCAAACA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 211

TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTAAGCATTGCAAACA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 239

TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaat ... catgtttcagGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTAAGCATTGCAAACA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTCTCGCTCGGATGAACAAGAAGGATTCATGGCTGTTCTGGTGGACTCTTTACTTGACTgtgagtgaattttctgttataatgaatgtcatggtgtagacgatagacatcgttggatcggtgtcatgatgtctgagattacttgattacaagttgctgt

- - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - GGTGGA