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

...cccatcacctttttctagcagatggcagaaatctgatacaattttcatgagacttgttctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

Basic information

species Zea mays
transcript GRMZM2G049811_T01
intron # 2
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 2
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 2
-----------cccatcacctttttctagcagatggcagaaatctgatacaattttcatgagacttgttctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA
            | |  ||  | ||  |  ||    || |  |||||  | ||  |  | |  | | || || || |      ||| |    |||||     |||| ||||| ||||||||||||||||| || ||||||||| |||| |||||||| ||||||||||| ||||| |  ||||| ||||| |||||||| ||||| || ||
taagacagataacaactacagtatttaaatag-caacatagctctgaacctatccttttaactcctcttgtgcacata-----actgatgcttttct-----tgttgtcagAGCTGGAGAAGCACATTGAGGATATGCATGTCTTGATCACCACCCCTTTCCACCCAGCCTATGTTAGCGCAGAAAGGATCAAGAAGGCAAAGAACCTCGA
















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:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|29576791|gb|CB616903.1|CB616903
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|149100379|gb|EE186450.2|EE186450
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|4887424|gb|AI677523.1|AI677523
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31349933|gb|CD434290.1|CD434290
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|6564067|gb|AW231689.1|AW231689
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|26457175|gb|CA828758.1|CA828758
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211357059|gb|FL000191.1|FL000191
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|91053366|gb|EB163784.1|EB163784
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|67010634|gb|CO439383.1|CO439383
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211216096|gb|FL000178.1|FL000178
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|149098748|gb|EE184760.2|EE184760
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|14202182|gb|BG835859.1|BG835859
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|67026013|gb|CO454762.1|CO454762
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|71426077|gb|DR807127.1|DR807127
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|21621269|gb|BQ619275.1|BQ619275
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|20301511|gb|BQ164454.1|BQ164454
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|67017826|gb|CO446575.1|CO446575
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|22542118|gb|BU092556.1|BU092556
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|213187016|gb|FM194126.1|FM194126
EST:     GCA-GGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211357069|gb|FL000201.1|FL000201
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|30705184|gb|CD058686.1|CD058686
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31359985|gb|CD444342.1|CD444342
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|32842760|gb|CD982441.1|CD982441
EST:     ACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: ACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211357065|gb|FL000197.1|FL000197
EST:     GCAGGGCCATCAGTACAT-GTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|20803413|gb|BQ294463.1|BQ294463
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211357060|gb|FL000192.1|FL000192
EST:     GCAGGGCCATCAGTACAT-GTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211357068|gb|FL000200.1|FL000200
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31353212|gb|CD437569.1|CD437569
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|94479817|gb|EB708775.1|EB708775
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211216095|gb|FL000177.1|FL000177
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211216102|gb|FL000184.1|FL000184
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31349338|gb|CD433695.1|CD433695
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|27575900|gb|CA998594.1|CA998594
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211359722|gb|FL000209.1|FL000209
EST:     GCAGGGCCATCAGTACAT-GTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31355918|gb|CD440275.1|CD440275
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211357058|gb|FL000190.1|FL000190
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|22543265|gb|BU093703.1|BU093703
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31351396|gb|CD435753.1|CD435753
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|32835994|gb|CD975672.1|CD975672
EST:     ACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: ACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|14204312|gb|BG837989.1|BG837989
EST:     CCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGYCCTGATTNNNNNNNNATYCC
genomic: CCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|29576980|gb|CB617092.1|CB617092
EST:     GCAGGGCCATCTTTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|24763747|gb|CA398918.1|CA398918
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|67025391|gb|CO454140.1|CO454140
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|31355079|gb|CD439436.1|CD439436
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|26557970|gb|CA830205.1|CA830205
EST:     GCAGGGCCATCAGCACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|116815949|gb|EC858643.1|EC858643
EST:     GCA-GGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGNNGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATT
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTG--GAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATT
EST: gi|31363497|gb|CD447854.1|CD447854
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|67026478|gb|CO455227.1|CO455227
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|5566797|gb|AI881663.1|AI881663
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211216097|gb|FL000179.1|FL000179
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|50333109|gb|CO528235.1|CO528235
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|5268910|gb|AI770874.1|AI770874
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|78120355|gb|DV538739.1|DV538739
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|56382562|gb|CV985231.1|CV985231
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|149090636|gb|EE179955.2|EE179955
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|149113219|gb|EE288254.2|EE288254
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|211216099|gb|FL000181.1|FL000181
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|5268578|gb|AI770542.1|AI770542
EST:     GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
EST: gi|15313110|gb|BI478566.1|BI478566
EST:     GCAGGGCCATCAATACATTGTCACCGATGACAAGGAAGGCCCCAACTGTG                         AACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC
genomic: GCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCC

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: 268

TTCGTCGGCTGCGTCGAGGGTGCACTCGGCATCCGCGGCTGGCTCGAGTCGCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 302

TTCGTCGGCTGCGTCGAGGGTGCACTCGGCATCCGCGGCTGGCTCGAGTCGCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 901

TTCGTCGGCTGCGTCGAGGGTGCACTCGGCATCCGCGGCTGGCTCGAGTCGCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 250

TTCGTCGGCTGCGTCGAGGGTGCACTCGGCATCCGCGGCTGGCTCGAGTCGCAGGGCCATCAGTACATTGTCACCGATGACAAGGAAGGCCCCAACTGTGgtcagtagcc ... ctgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgagacttgttctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA
                                             ctgttttc  CT-rich tract
                             taaatgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cccatcacctttttctagcagatggcagaaatctgatacaattttcatgagacttgttctgtacttgtttcgactaaatgatttctgtaactgttttcagAACTGGAGAAGCACATTGAAGACATGCATGTCCTGATTACCACCCCATTCCACCCAGCTTATGTCACTGCAGAGAGGATAAAGAAGGCGAAGAATCTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- catcacc
- - - - - - - - -gcagatg
- - - - - - - - - - - - - - - - ctgatac
- - - - - - - - - - - - - - - - - - - - - tttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtacttg