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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattccacaattcatactgtttgcttgtattttctgtcttaatttattaagatgtaactgtttgagtaactgcaactataactgtgtcctgctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC

Basic information

species Zea mays
transcript GRMZM2G089317_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089317_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g07916.1 (Oryza sativa), 3'ss of exon 2
--cattccacaattcatactgtttgcttgtattttctgtcttaatttattaagatgtaactgtttgagtaactgcaactataactgtgtcctgctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC
  | ||   |      ||||||||  |      |  |        |   | |  ||  | |    |  | |    || | |   ||  | ||||||| ||||||||| | ||| ||||||| |||||||| ||  | ||||| |||||||| ||||||||||||||||| || |||||||||||  | || || ||||||||
gaccttttgcttgctgtactgttttttcaggggtaattaagatgctgggtgaattgggatt--cagtatgatgctaattctgtttggatgctgctcttgcagTGGTTAAGGCTATTGCCAACCCAGACCCAGCAGTTGAGCTGCCATTGACAGCTGAAAATGTTGAGATTGTATTGGATGAAGTTCGACCATACCTTATGGC
















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|148943917|gb|EC888997.2|EC888997
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314414|gb|FL115083.1|FL115083
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|26560055|gb|CA832290.1|CA832290
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211310361|gb|FL115055.1|FL115055
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314413|gb|FL115082.1|FL115082
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|78092999|gb|DV521373.1|DV521373
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211310364|gb|FL115058.1|FL115058
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|23199609|gb|BU582174.1|BU582174
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312389|gb|FL115071.1|FL115071
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314415|gb|FL115084.1|FL115084
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211310367|gb|FL115061.1|FL115061
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211310368|gb|FL115062.1|FL115062
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314419|gb|FL115088.1|FL115088
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312387|gb|FL115069.1|FL115069
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312386|gb|FL115068.1|FL115068
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211258469|gb|FL134883.1|FL134883
EST:     CTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312391|gb|FL115073.1|FL115073
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314418|gb|FL115087.1|FL115087
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|76290648|gb|DV030216.1|DV030216
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312381|gb|FL115063.1|FL115063
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314411|gb|FL115080.1|FL115080
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|67017852|gb|CO446601.1|CO446601
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312394|gb|FL115076.1|FL115076
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312382|gb|FL115064.1|FL115064
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211310362|gb|FL115056.1|FL115056
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312388|gb|FL115070.1|FL115070
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312390|gb|FL115072.1|FL115072
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|45568454|gb|CK986072.1|CK986072
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|148991275|gb|EE032745.2|EE032745
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|71433911|gb|DR814961.1|DR814961
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|76290647|gb|DV030215.1|DV030215
EST:     AGGCTTGTTGCGTCCTCCGCGCCCCCTGGGCTGTGGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: AGGCTTGTTGCGTCCTCCGCG-CCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312383|gb|FL115065.1|FL115065
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314410|gb|FL115079.1|FL115079
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314417|gb|FL115086.1|FL115086
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|78105215|gb|DV523633.1|DV523633
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211314409|gb|FL115078.1|FL115078
EST:     AGGCTTGTTGCGTCCTCCGCGCCCCTGRGCTGTCGACGAGCTRCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: AGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACG-GCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312395|gb|FL115077.1|FL115077
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTTGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|148954266|gb|EC899670.2|EC899670
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|29543552|gb|CB603934.1|CB603934
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312384|gb|FL115066.1|FL115066
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|148950763|gb|EC896363.2|EC896363
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211312393|gb|FL115075.1|FL115075
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|50324425|gb|CO519551.1|CO519551
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|149103365|gb|EE288750.2|EE288750
EST:     CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
EST: gi|211310363|gb|FL115057.1|FL115057
EST:     CAGCCTTGTTGCGTCCTCCGCGCCCCTGGGCCGTCGACGGCTGCGGCAAG                         TGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG
genomic: CAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTG

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 8 RNA-Seq libraries.


Block sizes: 41 (upstream exon), 25 (downstream exon)
Score: 6

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 35 (upstream exon), 47 (downstream exon)
Score: 16

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 27 (upstream exon), 33 (downstream exon)
Score: 4

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 42

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 43 (upstream exon), 43 (downstream exon)
Score: 6

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 36

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 40 (upstream exon), 30 (downstream exon)
Score: 4

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC


Block sizes: 41 (upstream exon), 49 (downstream exon)
Score: 17

GTGGGGGTTGCGTCGACGGCCGTGCGGGCTTGTTCCGCGCCCAGGCTTGTTGCGTCCTCCGCGCCCCTGGGCTGTCGACGGCTGCGACAAGgtcagttctt ... gctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaagatgtaactgtttgagtaactgcaactataactgtgtcctgctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC
                                         tcctgctct  CT-rich tract
                            aactataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cattccacaattcatactgtttgcttgtattttctgtcttaatttattaagatgtaactgtttgagtaactgcaactataactgtgtcctgctctagcagTGGTTCAAGCTGTTGCCAATCCAGACCCTGCGATCGAGCTTCCATTGACTGCTGAAAATGTTGAGATGGTGTTGGATGAAGTAAGGCCGTATCTTATGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
cattcca
- - - - - - catactg
- - - - - - - -actgttt
- - - - - - - - - - -tgcttgt
- - - - - - - - - - - - - - -ttttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcaac