Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA

Basic information

species Zea mays
transcript AC149818.2_FGT006
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g31000.1 (Oryza sativa), 3'ss of exon 4
gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
                  |   || | |    ||   |  | ||||  |||     |    |||   | || |    ||| | |     || | ||  ||    | |||    || ||| |||||||| || ||||||||||| |||||||||||||||||||| || || || ||||||||||| |||||||||||||| || |||||  |||||||||||||
-----------------gtgagataactctcgtccttgt-cattattagtacg-ggtacttgctgtttattctagcttctataaccctgggttgaatatt---tccatg---aatttttggcagATCTAGTTAATGTGTTCGAAGTCTTCCTTCCACAACTTCTATTGTACCCAAATCCTTCTGACCCATTAAATGGAGAGGCTGCTGCACTGATGATGCGTGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G07540.3 (Glycine max), 3'ss of exon 3
gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctcc-atgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
||||  ||  |  ||  | |  | |   |  || |  |    || ||| | ||   ||  |  |   |  |||| |  |   || | ||| |      | | ||  ||||  |    | || ||||||||||||||||||| ||||| || || |||||||||||  | ||||| ||||| || || || |||||||| || || || || || |||||||| ||
gtaatgttctttctttaaacctaatgagaaaatatttgg---ttttctatttaagttttccatttagaaattttttggttcattttcacatg------tctaaatatatgcat----tgtttcagATCTTGTCAATGTGTTTGAGGTGTTTCTACCACAACTTCTTCTGTATCCCAATCCATCAGACCCCTTAAATGGTGAAGCTGCAGCTTTAATGATGCGGGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G39370.1 (Glycine max), 3'ss of exon 3
gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactt-tgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
||||      || ||| || |  |||| || |  |  | |  ||   | ||          | |  || ||||| ||    || |    || | |  || |    | |  | |  | | || |||||||||| |||||||| ||||| || || || ||||||||| | ||||| ||||| || || || || |||||||| || || || || |||||||||||
gtaatgaaattcattaaattt--ttat-agaacatttgtggttttgttctaa---------gttttatattttg-acatatttgtttttggttcattttatatgtcaaaatctattttgttccagATCTTGTTAATGTGTTTGAGGTGTTTCTACCTCAACTTCTGCTGTATCCCAATCCATCAGACCCCTTGAATGGAGAAGCTGCCGCTTTAATGATGCGTGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G46940.1 (Glycine max), 3'ss of exon 4
gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactt-tgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA-
          |  | | ||    | ||||   | || | |    || |||       |   | || ||||||| || | ||  ||    |  ||   |  |   || |  | |  | | || |||||||||| |||||||| ||||| || || || ||||||||| | ||||| ||||| || || || || |||||||| || || || || ||||||||||| 
----------taatgaaat----tcattaaattttctgaggaacatttgtg-----gttttgttcaatgttttatattttgacatttttgttttggttcatatgccaaaatctactttgttccagaTCTTGTTAATGTGTTTGAGGTGTTTCTACCTCAACTTCTGCTGTATCCCAATCCATCAGACCCCTTGAATGGAGAAGCTGCAGCTTTAATGATGCGTGAT

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G03940.2 (Glycine max), 3'ss of exon 4
gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
||||  ||  |  |   | |    |   |  || |  |    || ||| | ||     ||   |||||  || | | | | ||    ||  || |  | |  |  |||  |   | ||||  |||||||||||||||||| ||||| || || |||||||||||  | ||||| ||||| || || || || || ||||| || || || || |||||||||||
gtaatgttctttctgttaaccatatgagaaaatatttg---tttttctattta-----agttttccat--ttagaatttttttggttcatcgtcacatgtctaaatataagcattgtttt--agATCTTGTCAATGTGTTTGAGGTGTTTCTACCACAACTTCTTCTGTATCCCAATCCATCAGACCCCTTGAACGGAGAAGCTGCAGCTTTAATGATGCGTGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 4
gtaag-attgatctttacatctcattattaggatc-tccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
||||| |   || |||| |     ||||||    | | |  ||| ||||  | |      | |   |  ||||     | ||  |  ||    ||||| ||      | ||     |   || |||| ||||| |||||||| ||||| || ||||| ||||||||  | || || ||| | || |||||||||||||| ||||| ||||| |||||||| || ||
gtaagcagcaatatttaaagaattttattacatgcatacttgccatatccatttgattcaaccttgctttgttactgccactacttaaaatttgttaa-ttcagttttctg---atttcctttcagACCTTGTTAATGTGTTTGAGGTGTTTCTTCCTCAACTTCTTCTGTACCCCAATGCATCAGATCCATTAAATGGTGATGCTGCTGCCTTGATGATTCGAGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: AT5G41340.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagattgatctttacatctcattattaggatctc---cgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatg--tgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
                       | |    ||| ||    | |  |||| | |  | | || |      ||| ||      ||||| | |     ||||||||     | ||  | |  | |||| |||| ||||| |||||||| |||   || ||||| || |||||  | ||||| || || || |||||||| |||||||| || |||||||| |||||||||||
----------------------gtaagggcgatatcaaatgtggtttattt-tgaatatttgggatcaaatgatt-----gctgttgtgat----ttaactttatgtttttggttcttctttttttcagACCTTGTGAATGTGTTTGAGACATTTCTTCCTCAGCTTCTTCTGTATCCAAACCCATCAGATCCATTGAATGGAGAAGCTGCTGCGTTAATGATGCGTGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagattgatctttacatctcattattaggatctccgcgcctt-atctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
                           || ||||    |   |  | |  |||||||  |  | |  |  |  |||    | || | |    ||||| | |||   | ||  |    || | |||| || || ||||||||||||   || ||||| ||||||||  | ||||| ||||| || |||||||| ||||| || |||||||| ||||||||||||||
--------------------------gtatgatcataacaaatggaacaatatacaag-atagttttaactcctgttagtttttgttat---gttaattatga---tttggatttagttattcagACCTGGTGAATGTGTTCGAGACATTTCTTCCGCAACTTCTTCTGTATCCGAATCCGTCAGATCCATTGAATGGTGAAGCAGCTGCATTGATGATGCGTGA

upper sequence: AC149818.2_FGT006 (Zea mays), 3'ss of exon 4
lower sequence: Vv15s0046g02280.t01 (Vitis vinifera), 3'ss of exon 4
--------------gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtg-----atattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
                    |||   ||    |   || | |||||  |||||  | | ||| |  | ||  | |    | |  ||| || | | | ||     |    ||| | | | |||||         | |||| ||||||| || || ||||| ||||| |||||||| |||||||| || ||||| || || || ||||||||||||||||| || || ||  | |||||||||||
gtaatgattaacaaactcatttggcattcttgttcgataaataggacttccgcatcgtttctctggagaaaaaacaaagc-tactttttagttt-taatggtttgagctactgttatcgtatgttgacacctgtgttttccagATCTGGTAAACGTGTTTGAGGTGTTCCTTCCGCAACTTCTTTTGTATCCCAACCCATCAGATCCATTAAATGGAGAGGCTGCAGCTCTAATGATGCGTGA

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|37375741|gb|CF624329.1|CF624329
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|32851059|gb|CD990740.1|CD990740
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|17929609|gb|BM266569.1|BM266569
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|40333900|gb|CK367970.1|CK367970
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211179976|gb|FL167738.1|FL167738
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|5757257|gb|AI964544.1|AI964544
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCCCAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|18164963|gb|BM334802.1|BM334802
EST:     TGGTGCAGTCTGTTTGGATGTCATCAGCCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCGCAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182372|gb|FL167740.1|FL167740
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|32934193|gb|CF039005.1|CF039005
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182381|gb|FL167749.1|FL167749
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182383|gb|FL167751.1|FL167751
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|5762192|gb|AI967240.1|AI967240
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|18162990|gb|BM332829.1|BM332829
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|76287409|gb|DV026977.1|DV026977
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211179974|gb|FL167736.1|FL167736
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGA
EST: gi|211182378|gb|FL167746.1|FL167746
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGT
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGT
EST: gi|78024698|gb|DV493085.1|DV493085
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|18163044|gb|BM332883.1|BM332883
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|91049729|gb|EB160147.1|EB160147
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|33103078|gb|CF063038.1|CF063038
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCGGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|50325069|gb|CO520195.1|CO520195
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|76287410|gb|DV026978.1|DV026978
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182375|gb|FL167743.1|FL167743
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182379|gb|FL167747.1|FL167747
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211541024|gb|FL000899.1|FL000899
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGT
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGT
EST: gi|211182373|gb|FL167741.1|FL167741
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182371|gb|FL167739.1|FL167739
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|37401744|gb|CF638239.1|CF638239
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATTTTGTCAATGTGTTGGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|32858241|gb|CD997922.1|CD997922
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|5686827|gb|AI939741.1|AI939741
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182385|gb|FL167753.1|FL167753
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTG
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTG
EST: gi|211179973|gb|FL167735.1|FL167735
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCCACAACTTCTGTTATATCCT
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCC-ACAACTTCTGTTATATCCT
EST: gi|211179975|gb|FL167737.1|FL167737
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182380|gb|FL167748.1|FL167748
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATA
EST: gi|5761910|gb|AI966883.1|AI966883
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|60359485|gb|DN226458.1|DN226458
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|211182382|gb|FL167750.1|FL167750
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACTTGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
EST: gi|50325068|gb|CO520194.1|CO520194
EST:     TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTG                         ATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA
genomic: TGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTA

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: 47 (upstream exon), 49 (downstream exon)
Score: 381

GTCTGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 484

GTCTGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 437

GTCTGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA


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

GTCTGGTTCAGTCTGTTTGGATGTCATCAACCAGACATGGAGCCCAATGTTTGgtaagattga ... tattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA
                                          tgatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagattgatctttacatctcattattaggatctccgcgccttatctgtatacaattagcgctccatgttttgtactctgttataacagggttaactttgaacctatgtgtgatattttgcagATCTTGTCAATGTGTTCGAGGTCTTCCTTCCACAACTTCTGTTATATCCTAATCCTTCTGATCCATTAAATGGAGATGCAGCTGCGTTGATGATGCGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC