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

gtatgctaccatcgctcgctccgttgttccggatttcgcttgcttatctggcggcttcgccggtgctgacgtattatttggtttggtggtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG

Basic information

species Zea mays
transcript GRMZM2G016817_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G016817_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g34640.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------gtatgctacca---tcgctcgctccg--ttgttccggatttcgcttgcttatctggcggcttcgccggtgctgacgtattatttggtttggtggtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
                                         ||  ||| ||    | || |  | ||   | | || ||| |||||  | |  || |  ||| | | | |   | |   |   ||| |||  |  | || | |||||||||||||||||||||||| |||||||| |
gtaatctctccccccgcccctctccctcccgcttccttactgttagcttccggatttgcgctgttcggtctctccctgatgtcgctgacgtgcctcgttgctgcccggcttggggctggtgtgttgttttctttttgtgtgtagATGTGGAGAAGTTCTACCAGCTCTGCGACCCAG
















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|211450061|gb|FL055705.1|FL055705
EST:     CCGCGATTTCCGC-GCCGCCGCGCGGNCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447942|gb|FL055689.1|FL055689
EST:     CCGCGATTTCCGC-GCCGCCGCGC-GGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|18963781|gb|BM660626.1|BM660626
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATG-GGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445815|gb|FL055672.1|FL055672
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|33090954|gb|CF050948.1|CF050948
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGCTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447949|gb|FL055696.1|FL055696
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450062|gb|FL055706.1|FL055706
EST:     CCGCGATTTCCGCGGCCG-CGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|69351460|gb|DR452142.1|DR452142
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGCGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450058|gb|FL055702.1|FL055702
EST:     CCGCGATTTCCGC-GCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450064|gb|FL055708.1|FL055708
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|32838714|gb|CD978395.1|CD978395
EST:     CATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445824|gb|FL055681.1|FL055681
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450059|gb|FL055703.1|FL055703
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|20301069|gb|BQ164012.1|BQ164012
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447945|gb|FL055692.1|FL055692
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443706|gb|FL055668.1|FL055668
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447948|gb|FL055695.1|FL055695
EST:     CCGCGATTTCCGCGNCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445820|gb|FL055677.1|FL055677
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447943|gb|FL055690.1|FL055690
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445822|gb|FL055679.1|FL055679
EST:     CGCGATTTCCGC-GCCGCCGCGC-GGCATTGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCCG
genomic: CGCGATTTCCGCGGCCGCCGCGCGGGCA-TGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGA-CCCCG
EST: gi|211443701|gb|FL055663.1|FL055663
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|20300963|gb|BQ163906.1|BQ163906
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|32838581|gb|CD978259.1|CD978259
EST:     TGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: TGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445814|gb|FL055671.1|FL055671
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443695|gb|FL055657.1|FL055657
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447946|gb|FL055693.1|FL055693
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445818|gb|FL055675.1|FL055675
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCGA
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCGA
EST: gi|211447937|gb|FL055684.1|FL055684
EST:     CCGCGATTTCCGC-GCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445823|gb|FL055680.1|FL055680
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTNGGAGAAGTTCTACCAGCTGTGCCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGT-GGAGAAGTTCTACCAGCTGTG-CGACCCCG
EST: gi|211445813|gb|FL055670.1|FL055670
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447938|gb|FL055685.1|FL055685
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443705|gb|FL055667.1|FL055667
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450060|gb|FL055704.1|FL055704
EST:     CCGCGATTTCCGCGGCCGCCGCGCGKGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|20301050|gb|BQ163993.1|BQ163993
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443697|gb|FL055659.1|FL055659
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447941|gb|FL055688.1|FL055688
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447944|gb|FL055691.1|FL055691
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450063|gb|FL055707.1|FL055707
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447947|gb|FL055694.1|FL055694
EST:     CCGCGATTTCCGC-GCCGCCGCGC-GGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445825|gb|FL055682.1|FL055682
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443696|gb|FL055658.1|FL055658
EST:     CCGCGATTTCCGC-GCCGCCGCGC-GGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445826|gb|FL055683.1|FL055683
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445812|gb|FL055669.1|FL055669
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447951|gb|FL055698.1|FL055698
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445817|gb|FL055674.1|FL055674
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450057|gb|FL055701.1|FL055701
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGNCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211445821|gb|FL055678.1|FL055678
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|20301051|gb|BQ163994.1|BQ163994
EST:     CGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|20301070|gb|BQ164013.1|BQ164013
EST:     GATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: GATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443700|gb|FL055662.1|FL055662
EST:     CCGCGATTTCCGC-GCCGCCGCGC-GGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211443703|gb|FL055665.1|FL055665
EST:     CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211447950|gb|FL055697.1|FL055697
EST:     CCGCGATTTCCGC-GCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|32837497|gb|CD977175.1|CD977175
EST:     GCGGCCGCCGGGCAGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: GCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
EST: gi|211450056|gb|FL055700.1|FL055700
EST:     CCGCGATTTCCGC-GCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACG                         ATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
genomic: CCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG

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), 45 (downstream exon)
Score: 327

GACCCCGGCGCCGGTGCACACTACTCCGCCCGTACCGCGGAGGAAGTCTTCCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG


Block sizes: 49 (upstream exon), 34 (downstream exon)
Score: 131

GACCCCGGCGCCGGTGCACACTACTCCGCCCGTACCGCGGAGGAAGTCTTCCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG


Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 99

GACCCCGGCGCCGGTGCACACTACTCCGCCCGTACCGCGGAGGAAGTCTTCCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG


Block sizes: 45 (upstream exon), 39 (downstream exon)
Score: 154

GACCCCGGCGCCGGTGCACACTACTCCGCCCGTACCGCGGAGGAAGTCTTCCGCGATTTCCGCGGCCGCCGCGCGGGCATGATCAAGGCCCTCACCAACGgtatgctacc ... gtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctggcggcttcgccggtgctgacgtattatttggtttggtggtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG
                    tgctgac  putative branch site (score: 154)
                            tattattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctaccatcgctcgctccgttgttccggatttcgcttgcttatctggcggcttcgccggtgctgacgtattatttggtttggtggtttgcgcagATGTGGAGAAGTTCTACCAGCTGTGCGACCCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG