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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC

Basic information

species Oryza sativa
transcript LOC_Os01g14950.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
-----------gtgtgtgccaacacaatattattttcattat----ctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
               ||||  |  | || || |  | |  ||    | | |        || |||||| |||| | |     | |||||  ||||   |||||||||| ||||| || ||||| || ||||| ||||| ||||||||||| || |||||||||| ||| ||||| ||||||||||| || ||||||||||||||||
tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcat----gagctttataattc--ttttgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
  || ||   |   ||||| |   | ||   ||| |        || |||||| |||| | |       |||||  ||||   |||||||||||||||| || ||||| || ||||| ||||| ||||||||||| || |||||||||||||| ||||||||||||||||| || ||||||||||||||||
--gtatgttgatttaatataaaccttatatcctgttgttgctggatgaaaatgaatttctcatca----gctttgtaattc--ttttgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 3
-----gtgtgtgccaacacaatattattttcattatctggta-ggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
     || |    |    || |   | |||  || | ||||   ||    || | | | | | | ||  | |||| ||||     |   |||  ||||| || ||||||||||| || |||||||| |||||||| ||||| |||||||| ||||| || |||||||||||||| || || |||||||| ||||| |
gttttgttttattccctgcattggaagttt--ttgtgtggtgtagtgttgatgacatttgttgtgttgat-tggttctttg----tttgtttgctagTTTGAGGCTGCGTGGGCTCTCACAAACATAGCATCTGGAACTTCTGAGAATACCAAGGTGGTGATTGATCATGGGGCAGTTCCGATATTTGTCAAGCTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
      |     ||     ||||||  ||||    |  ||    ||   |||  |||  |||  ||| || |  |  ||| ||| ||| |||| || || || |||||  | ||||| || || ||||| || || || || || ||||||||||||||||| |||||||| ||||| || |||||||| |
------gtttgtacttgtctattttgtttattcaattagt---gatttgaat--attgcttatggtgatgttggtctattgaatgttgcagTTTGAGGCAGCCTGGGCTTTGACAAATATAGCTTCTGGGACGTCTGAAAACACCAAGGTTGTCATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 3
--gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
   ||  ||||       | ||  | | ||| | |  |   ||    |  | ||  |||  | | |   ||   ||    ||   || | ||||| || ||||||||||| || ||||||||||||||||| ||||| ||||| || ||||| || |||||||||||||| || || |||||||| ||||| |
gtttgaatgccttttttcttttcatcttatt-tgtttttccttgtggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 4
gtgtgtgccaacacaatattatttt---cattatctggtagg--ttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
    ||   ||  |  | ||  |||     |||| || |     ||    || | ||  |||  ||| |   || |  |||  ||   || | ||||| || ||||||||||| || ||||||||||||||||| ||||| ||||| || ||||| || |||||||| ||||| || || |||||||| ||||| |
----gtttgaattcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgt-cacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA15G15480.1 (Glycine max), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatgg-atttattactgtggt-gcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
  || |  |   |     |   ||  |   | | ||    |  | |  | |||| |||| ||    || | | || |   ||   ||   ||||| || ||||||||||| || || |||||||||||||| ||||| |||||||| ||||| || |||||||||||||| || || |||||||| || || |
--gttttgctctattccctgcattggaagttttagtgtagtgtagtgtagatgggatttgttgtgttgattggttctttgtttgtttggttagTTTGAGGCTGCGTGGGCTCTCACGAACATTGCATCTGGAACTTCTGAGAATACCAAGGTGGTGATTGATCATGGGGCGGTGCCGATATTTGTCAAACTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
|| |||       |  | || ||||  | |  | ||   |||||           ||  |||  ||| || || |  |||  || ||| |||| || || || |||||  | ||||| || || ||||| || || || || ||||||||||| |||||||| |||||||| ||||| || |||||||| |
gtttgtatttgt-ctgttttgtttt--tgaattagtgatttcaat---------gttacttatggtgatgtttgtctattgcatgttgcagTTTGAGGCAGCTTGGGCTTTGACAAATATAGCTTCTGGAACGTCTGAAAACACAAAGGTTGTGATTGATCACGGGGCTGTCCCAATTTTCGTGAAGCTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT4G16143.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
|| ||    | |   || |   | ||||  | || |||  |    |    ||  | | ||||||   |||  | ||  | |    ||  |||| || ||||| |||||| | ||||||||||| ||||| ||||| |||||||||||||| |||||||| ||||| ||||| || || |||||  | ||  
gtttggtggatcgttatgtatctgtcatattttgctagaattgtcttctgat--actaattacttgtgtgtgtgtgtgtga----tttcagTTTGAGGCTGCTTGGGCATTGACAAACATTGCTTCTGGGACTTCAGAGAATACAAAGGTGGTCATTGAACATGGTGCTGTTCCGATTTTTGTTCAACTAT

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatgg-atttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
  || ||  |  | |   |   |       | |      |||| ||  | |||  ||||      |   || || |     ||||  ||||||| ||||| || ||||| || ||||||||||| ||||| || || || || || ||||| || ||||||||||||||||| ||  | |||||||| ||||
--gtatgttatgataccctccctcatggcttttaaattattcatattgatatgatattttcagacgatttgattatttgaaaaatcctgtagTTTGAAGCAGCATGGGCTCTCACAAACATTGCTTCTGGGACATCTGACAACACTAAGGTGGTAATTGATCATGGGGCTGTCCCGGTGTTTGTGAAACTTC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaa-atggatttattactgtggtgcttt---------tgaattaaattttgt--agTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
|| ||  | |   |  | |||||    || |  | |   || |||| ||  ||  || |  | || |  || |||         ||| || |||||| |  |||| || ||||| ||||| || ||||||||||| ||||| || || || || || |||||||| || |||||||| || || || || |||||||||||||
gtttgaactag-gctgt-ttattcctgtttttagatccatttaaatgaagcatttatatgctcctcttttgttttgttatttactgatttgaattttatttagTTTGAGGCTGCTTGGGCTCTCACAAACATTGCTTCTGGAACATCAGAAAACACCAAGGTTGTAATAGATCATGGAGCAGTTCCGATTTTTGTGAAGCTTC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaat---aaaaatggatttattact-gtggtgcttttgaattaaattttgt--agTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
|| || |      |  | |||  ||  || | ||||   |   | |     |  | | || | ||||  |     |  ||  || ||||||||  |||| || || || ||||| || ||||||||||| ||||| || || || ||||| ||||| || ||||||||||| || || ||||||||||||||||| |
gtttgggattgttctttgttacatt-gttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ38593 (Selaginella moellendorffii), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
                   |||   |||| | |      | |         | |  |  ||| |  || | |||  ||| |      | ||||||||||||| ||||| |||||||| ||||| || |||||||| ||  | || | ||| || ||  | ||||| ||||| || || || ||| ||||||
------------------gtatgcccattttttt-----tccttgcggtgtttgggtcgttaata-ggagtttt--aatga------gcagTTCGAAGCTGCCTGGGCTCTTACAAATATTGCGTCCGGCACTTCCGATCACACGACGGTGGTTATAAACCATGGAGCTGTGCCTATCTTCGTGCAGCTTC

upper sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ31557 (Selaginella moellendorffii), 3'ss of exon 3
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
                   |||   |||| | |  |     |         | |  |  ||| |  || | |||  ||| |      | ||||||||||||| ||||| |||||||| ||||| || |||||||| ||  | || | ||| || ||  | ||||| ||||| || || || ||| ||||||
------------------gtatgcccattttttttt----ccttgcggtgtttgggtcgttaata-ggagtttt--aatga------gcagTTCGAAGCTGCCTGGGCTCTTACAAATATTGCGTCCGGCACTTCCGATCACACGACGGTGGTTATAAACCATGGAGCTGTGCCTATCTTCGTGCAGCTTC

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|58682672|gb|CK071359.1|CK071359
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58690748|gb|CK079435.1|CK079435
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|33678037|gb|CF306276.1|CF306276
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTC
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTC
EST: gi|29662761|gb|CB659036.1|CB659036
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58668036|gb|CK056722.1|CK056722
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58608932|gb|CK036965.1|CK036965
EST:     TGCGTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58669030|gb|CK057716.1|CK057716
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|88369398|gb|CI580420.1|CI580420
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCC-AGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACA
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACA
EST: gi|86851083|gb|CI311301.1|CI311301
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29622103|gb|CB627114.1|CB627114
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|218497818|gb|FG965121.1|FG965121
EST:     CCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGNGCACTTCGGAGAA
genomic: CCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTG-GCACTTCGGAGAA
EST: gi|58657036|gb|CK045716.1|CK045716
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29677816|gb|CB674091.1|CB674091
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58676728|gb|CK065415.1|CK065415
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58676970|gb|CK065657.1|CK065657
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29662174|gb|CB658449.1|CB658449
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29680121|gb|CB676396.1|CB676396
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29640361|gb|CB645370.1|CB645370
EST:     ATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: ATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29643710|gb|CB648717.1|CB648717
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58684235|gb|CK072922.1|CK072922
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29633763|gb|CB638772.1|CB638772
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACT
EST: gi|29629650|gb|CB634659.1|CB634659
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|33795122|gb|CF323434.1|CF323434
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29676485|gb|CB672760.1|CB672760
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|66912883|gb|CX099731.1|CX099731
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29681891|gb|CB678166.1|CB678166
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58675322|gb|CK064009.1|CK064009
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58695850|gb|CK084537.1|CK084537
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58680439|gb|CK069126.1|CK069126
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58670840|gb|CK059526.1|CK059526
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|58689500|gb|CK078187.1|CK078187
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
EST: gi|29677719|gb|CB673994.1|CB673994
EST:     TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAG                         TTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT
genomic: TTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAAT

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 1 RNA-Seqlibrary.


Block sizes: 66 (upstream exon), 75 (downstream exon)
Score: 125

AGAGGAGCCCTCCAATTGAAGAGGTTATTCAATCAGGCGTTGTTCCTAGATTCGTGCAGTTTCTTACCAGAGAGGATTTCCCCCAGCTACAGgtgtgtgcca ... aattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
      aaataaaaatggattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC