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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttgtgcctgaattccagatgcggagcaatccgatctatctatgacacaaactttgaagatgcattctcattaattgaattcttcctttgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG

Basic information

species Zea mays
transcript GRMZM2G049811_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G049811_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 1
tgcttgtgcctg-aattccagatgcggagcaatccgatctatctatgacacaaactttgaaga--tgcattctcattaattgaattcttcctttgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG
|| |     |||  ||   |  | ||| |       |  | ||  |  |   |||| ||||||   | || |   ||  ||   |||   || ||    |||||| ||  |||||||||||||||| || || ||||||||||||| ||| ||||| ||||||||||| |||||||||||||||||||| ||||| || ||||
tgatctcttctgtgatgtgaatttcggtgtctgaacaaatctcagttgctgcaactctgaagaatggtataccttttggtt---ttccctctctgaatcgcagACATCAGCAGGCAGCAAGAAGATCGTGGGTGTGTTCTACAAGGGCGGCGAGTACGCCGACAAGAATCCCAACTTCGTCGGCTGCGTGGAGGGCGCTCTCG
















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|71769169|gb|DR967106.1|DR967106
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|29576791|gb|CB616903.1|CB616903
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|149100379|gb|EE186450.2|EE186450
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31349933|gb|CD434290.1|CD434290
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|6564067|gb|AW231689.1|AW231689
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|26457175|gb|CA828758.1|CA828758
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211357059|gb|FL000191.1|FL000191
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|91053366|gb|EB163784.1|EB163784
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|67010634|gb|CO439383.1|CO439383
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211216096|gb|FL000178.1|FL000178
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|149098748|gb|EE184760.2|EE184760
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|14202182|gb|BG835859.1|BG835859
EST:     CCGCCGCTAGG-AGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|67026013|gb|CO454762.1|CO454762
EST:     CCGCTGTTACGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|71426077|gb|DR807127.1|DR807127
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|21621269|gb|BQ619275.1|BQ619275
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|20301511|gb|BQ164454.1|BQ164454
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|67017826|gb|CO446575.1|CO446575
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTC-AGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|22542118|gb|BU092556.1|BU092556
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211357069|gb|FL000201.1|FL000201
EST:     CCGCCGCTA--SAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|30705184|gb|CD058686.1|CD058686
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31359985|gb|CD444342.1|CD444342
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211357065|gb|FL000197.1|FL000197
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|20803413|gb|BQ294463.1|BQ294463
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211357060|gb|FL000192.1|FL000192
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211357068|gb|FL000200.1|FL000200
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|21843277|gb|BQ703858.1|BQ703858
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31353212|gb|CD437569.1|CD437569
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|94479817|gb|EB708775.1|EB708775
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211216095|gb|FL000177.1|FL000177
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211216102|gb|FL000184.1|FL000184
EST:     CCGCCGCTA--SAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31349338|gb|CD433695.1|CD433695
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|27575900|gb|CA998594.1|CA998594
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211359722|gb|FL000209.1|FL000209
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31355918|gb|CD440275.1|CD440275
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211357058|gb|FL000190.1|FL000190
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|22543265|gb|BU093703.1|BU093703
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31351396|gb|CD435753.1|CD435753
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|29576980|gb|CB617092.1|CB617092
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|24763747|gb|CA398918.1|CA398918
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|67025391|gb|CO454140.1|CO454140
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31355079|gb|CD439436.1|CD439436
EST:     CCGCCGCTCGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|26557970|gb|CA830205.1|CA830205
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|31363497|gb|CD447854.1|CD447854
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|67026478|gb|CO455227.1|CO455227
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|5566797|gb|AI881663.1|AI881663
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211216097|gb|FL000179.1|FL000179
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|50333109|gb|CO528235.1|CO528235
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|5268910|gb|AI770874.1|AI770874
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|78120355|gb|DV538739.1|DV538739
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|56382562|gb|CV985231.1|CV985231
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|149090636|gb|EE179955.2|EE179955
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|149113219|gb|EE288254.2|EE288254
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|211216099|gb|FL000181.1|FL000181
EST:     CCGCCGCTA--SAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGGTGTTCTACAAGGCCTDGGGA
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCC-GGGGA
EST: gi|5268578|gb|AI770542.1|AI770542
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCAC                         ACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG
EST: gi|15313110|gb|BI478566.1|BI478566
EST:     CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCT-ANGGGCCG-GCAC                         ACGTCTACAGGCAGCAAAAAGATAGTCGGGG-GTTCTACAAGGCCGGGGAG
genomic: CCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAG

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), 49 (downstream exon)
Score: 265

CCTTCTCCCTGATCCTCCTTTGGCTTCGCGGTTCATGGCGATGTGGAGGGCCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 231

CCTTCTCCCTGATCCTCCTTTGGCTTCGCGGTTCATGGCGATGTGGAGGGCCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 884

CCTTCTCCCTGATCCTCCTTTGGCTTCGCGGTTCATGGCGATGTGGAGGGCCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 164

CCTTCTCCCTGATCCTCCTTTGGCTTCGCGGTTCATGGCGATGTGGAGGGCCGCCGCTAGGCAGCTGGTCGACCGGGCGCTCGGCTCAAGGGCCGCGCACgtaatccaat ... tgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacacaaactttgaagatgcattctcattaattgaattcttcctttgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG
                         cattaat  putative branch site (score: 164)
                                    ttcttcctttgttctg  putative PPT
                          attaattgaattctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcttgtgcctgaattccagatgcggagcaatccgatctatctatgacacaaactttgaagatgcattctcattaattgaattcttcctttgttctgcagACGTCTACAGGCAGCAAGAAGATAGTCGGGGTGTTCTACAAGGCCGGGGAGTATGCCGACAAGAACCCCAACTTCGTCGGCTGCGTCGAGGGTGCACTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
tgcttgt
- - - -gcctgaa
- - - - - - - - -cagatgc
- - - - - - - - - - - - - - - - - - - - - - - acacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcattc