Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgttgtttttgcaaacctggagctatgcgatattagaaagtccttgctacattcaaatggtttgctgagaactaacagtttttccatacaaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA

Basic information

species Zea mays
transcript GRMZM2G115948_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G115948_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 3'ss of exon 9
--------------------tttgttgtttttgcaaacctggagctatgcgatattagaaagtccttgc---tacattcaaatggtttgctgagaactaacagtttttccatacaaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA---
                       | |||||||     ||  |   ||||| ||   |       ||||     |      ||    || |||| || | ||    ||||  |||||||| ||||||| ||| ||| ||||||||||||||||||||||||||||||||||||  ||||||||||    | | | | |   |    |   |||| ||||  |||   
gtatgtcatacagacttgatcaagctgttttttactgccacgta-tatgcaatgcaacttctgtcttgtgaacatgccataacaagttactgacaagttac----tttctgtacaaaatgcagAGTTCTAACCCCGGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAATTGTCTGTTGAC---ATTTGATAGTTTACTGTTCTAAGTGACACTCTTGAGCC
















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|60395022|gb|DN227891.1|DN227891
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|30087632|gb|CB885838.1|CB885838
EST:     TCCTCCAACAACATAGAAATAGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|5607822|gb|AI901489.1|AI901489
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|33092266|gb|CF052260.1|CF052260
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|18163469|gb|BM333308.1|BM333308
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|166660104|gb|EG310605.1|EG310605
EST:     AATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: AATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|32934147|gb|CF038959.1|CF038959
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|6952543|gb|AW424611.1|AW424611
EST:     TCCTCCAGCAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|71445139|gb|DR826189.1|DR826189
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|14208317|gb|BG841995.1|BG841995
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTTTTGGAAAAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|21331851|gb|BQ487232.1|BQ487232
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|149076955|gb|EE165612.2|EE165612
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|32830029|gb|CD969707.1|CD969707
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|32935438|gb|CF040250.1|CF040250
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|78123839|gb|DV542223.1|DV542223
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|44901282|gb|CK827827.1|CK827827
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|32930013|gb|CF034825.1|CF034825
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAACAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|30306694|gb|CD001367.1|CD001367
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|60350515|gb|DN217488.1|DN217488
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|32931688|gb|CF036500.1|CF036500
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGTTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|4624270|gb|AI615103.1|AI615103
EST:     ATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: ATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|60347867|gb|DN214840.1|DN214840
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|40335710|gb|CK369780.1|CK369780
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|74232754|gb|DT640668.1|DT640668
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|60346153|gb|DN213126.1|DN213126
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|166552211|gb|EG264346.1|EG264346
EST:     TTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|32935134|gb|CF039946.1|CF039946
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|5058832|gb|AI737308.1|AI737308
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|9951982|gb|BE638565.1|BE638565
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|5871220|gb|AW017691.1|AW017691
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATT
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATT
EST: gi|60356997|gb|DN223970.1|DN223970
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|166647724|gb|EG146838.1|EG146838
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AAGTTTTAAGCCCAGCAGAGATCAAGG
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagA-GTTTTAAGCCCAGCAGAGATCAAGG
EST: gi|60339671|gb|DN206644.1|DN206644
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|148987619|gb|EE031493.2|EE031493
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTTTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|9566411|gb|BE475920.1|BE475920
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTTCTTGGAAGAGGTGGAGTAAG
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTT-CTTGGAAGAGGTGGAGTAAG
EST: gi|89763964|gb|DY690939.1|DY690939
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|78022228|gb|DV490615.1|DV490615
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|5915175|gb|AW052816.1|AW052816
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|78118765|gb|DV537149.1|DV537149
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|30032061|gb|CB833912.1|CB833912
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|6952555|gb|AW424623.1|AW424623
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|211258486|gb|FL474162.1|FL474162
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|5608197|gb|AI901864.1|AI901864
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|60339580|gb|DN206553.1|DN206553
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|50322577|gb|CO517703.1|CO517703
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|9462069|gb|BE454045.1|BE454045
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|76918600|gb|DV167369.1|DV167369
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|211323464|gb|FL273343.1|FL273343
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
EST: gi|28985087|gb|BQ539334.2|BQ539334
EST:     TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAA                         AGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC
genomic: TCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGC

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), 47 (downstream exon)
Score: 542

ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 293

ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 245

ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 321

ATATGAGGGGCAAATTTCCTCCAACAACATTGAAATCGGAATTATTCGAGCTGATCGTGAGTTCAAgtaagttaca ... caaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctacattcaaatggtttgctgagaactaacagtttttccatacaaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA
                          aactaac  putative branch site (score: 321)
                                          atacaaaata  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgttgtttttgcaaacctggagctatgcgatattagaaagtccttgctacattcaaatggtttgctgagaactaacagtttttccatacaaaatacagAGTTTTAAGCCCAGCAGAGATCAAGGATTTCTTGGAAGAGGTGGAGTAAGCTGTCTGTTGATGATACTAGTTCGGACAACAATAGCAGTGTCACTTATGA

- tgttgtt
- - - - - - - - - ctggagc
- - - - - - - - - - - - - - - - - - - - - tccttgc
- - - - - - - - - - - - - - - - - - - - - - - - - -cattcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaactaa