Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgataccagtgctgcgaagcttaagtttggcaaactatttgatacaagtttataacaacctttttttggggctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA

Basic information

species Oryza sativa
transcript LOC_Os01g53520.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g53520.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G002786_T01 (Zea mays), 3'ss of exon 4
gtaatgataccagtgc-tgcgaagcttaagtttggcaaactatttgatacaagtttataacaacctttttttggggctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA
||||| |      | | |  |  ||| |  |||  |    | || ||| |||||||  ||  |  |||| |  |     | |||||| |||||||| || |||||| | || || ||||||||||| ||||||||||||||||||||||||||||||||||||  ||| ||| | |||||||| ||
gtaataactgtgattcatctgttgctaacttttctcttggtgtt-gattcaagttttgaatgaaattttat--gcctccattgcagTCTTTGTGGCACTGTACACTATACCTGTTCTGTATGAGAAATATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTATGATCGAACTGAAGAAGTATTA

upper sequence: LOC_Os01g53520.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G031308_T02 (Zea mays), 3'ss of exon 4
gtaatgataccagtgctgcgaagcttaagtttggcaaactat-ttgatacaagtttataacaacctttttttggggctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA
|||||||   || | |  |      ||| |||  |      | ||||| |||||||  ||  |  |||| |  |     | | |||| |||||||| || |||||||| ||||| ||||||||||| ||||||||||||||||||||||||||||||||||||  || |||| | |||||||| ||
gtaatgaccgcaattcatctgctactaactttttctcttggtgttgattcaagttttgaatgaagttttat--gcctccatttcagTCTTTGTGGCACTGTACACTGTACCAGTTCTGTATGAGAAATATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTATGACTGAACTGAAGAAGTATTA

upper sequence: LOC_Os01g53520.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA20G30340.1 (Glycine max), 3'ss of exon 4
---------------------------------gtaatgataccagtgctgcgaagcttaagtttggcaaactat-ttgatacaagttta-taacaacctttttttggggctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA
                                   | || |||  || ||        || | || | |  |||| || ||   | |||  |||||     |   |  ||    || |||| |||||| | || | |||  ||||| | ||||||||||| ||||| ||| |||||||||| || |||||||||||   ||||||  | || ||| | ||
gtaagacttcatgcatcattgctcccattctttccattgttacgtgt-ctttatgttctatgattagaaggctatattaatggtattttcctaacactgaatccatttgggatgatacagTCTTTGTGTCACTGTTCACATTGCCACTGCTGTATGAGAAATATGAAGACCAGGTTGATGCATTAGGTGAGAAGGCAATGATTGAGATCAAAAAGCAGTA

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|218503591|gb|FG957184.1|FG957184
EST:     TCTGTCAGTTCTTGGCAGCAGCTGCAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33682758|gb|CF310997.1|CF310997
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|29663265|gb|CB659540.1|CB659540
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33691044|gb|CF319283.1|CF319283
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33693779|gb|CF322018.1|CF322018
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTTTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33692227|gb|CF320466.1|CF320466
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|86852784|gb|CI323093.1|CI323093
EST:     TTGGTACCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGAC
genomic: TTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTT-GTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGA-
EST: gi|8527575|gb|AU092390.1|AU092390
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|7608733|gb|AU090514.1|AU090514
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTNACTTTTTGACTTTGTNCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33683307|gb|CF311546.1|CF311546
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33661977|gb|CF292944.1|CF292944
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|29663264|gb|CB659539.1|CB659539
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33688039|gb|CF316278.1|CF316278
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTTTACACCGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|11564763|gb|AU165399.1|AU165399
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|8859759|gb|AU097077.1|AU097077
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|29688123|gb|CB684398.1|CB684398
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|8859167|gb|AU096485.1|AU096485
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33688286|gb|CF316525.1|CF316525
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|7608672|gb|AU090454.1|AU090454
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|88450633|gb|CI547133.1|CI547133
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|163922879|gb|EG712730.1|EG712730
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|3761280|gb|C98528.1|C98528
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTNCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|2311112|gb|C27267.1|C27267
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|286769|gb|D15576.1|D15576
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|5002965|gb|AU068074.1|AU068074
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|88275849|gb|CI396453.1|CI396453
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACCTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33687181|gb|CF315420.1|CF315420
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|29646748|gb|CB651755.1|CB651755
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|2312302|gb|C28457.1|C28457
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|218485421|gb|FG945032.1|FG945032
EST:     TCTGTCAGTTCTTGGCAGCAGCTGCAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|88264549|gb|CI368323.1|CI368323
EST:     TTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|58695411|gb|CK084098.1|CK084098
EST:     TCTGTCAGTTCTTGGCAGCAGCTGCAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|88975581|gb|CI021663.1|CI021663
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33688944|gb|CF317183.1|CF317183
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTNTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|3768343|gb|AU032370.1|AU032370
EST:     TCTGTCAGTTCTTGGTNGCAGCTGTAACTTTTTGACTNTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33689175|gb|CF317414.1|CF317414
EST:     TCTGTCAGTTCTTGGTAACAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33687270|gb|CF315509.1|CF315509
EST:     CTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: CTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33800224|gb|CF325977.1|CF325977
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|58686008|gb|CK074695.1|CK074695
EST:     TCTGTCAGTTCTTGGCAGCAGCTGCAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|11565255|gb|AU165891.1|AU165891
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|10794862|gb|AU108828.1|AU108828
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|218483599|gb|FG956155.1|FG956155
EST:     TCTGTCAGTTCTTGGCAGCAGCTGCAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33692771|gb|CF321010.1|CF321010
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33693971|gb|CF322210.1|CF322210
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|33680175|gb|CF308414.1|CF308414
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
EST: gi|89191020|gb|CI392873.1|CI392873
EST:     TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACCTTGTTCTACATAG                         TTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA
genomic: TCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACA

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: 70 (upstream exon), 75 (downstream exon)
Score: 132

GTGATCGCTGGACTCTGGATTCTGTCAGTTCTTGGTAGCAGCTGTAACTTTTTGACTTTGTTCTACATAGgtaatgatac ... ctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggcaaactatttgatacaagtttataacaacctttttttggggctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA
                       ttataac  putative branch site (score: 132)
               atacaagtttataa  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 
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gtaatgataccagtgctgcgaagcttaagtttggcaaactatttgatacaagtttataacaacctttttttggggctgaatgcagTTTTTGTGGCGCTCTACACTGTGCCAGTACTGTATGAGAAGTATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTGAGATTGAATTTAAGAAGTACTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT