ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

...agagctgttactagacactcatttctttcattagtgaatgtatgttttatggggacatctgattgcatgaactaatattccttctttttcaatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACTGGCGAGGAAATTAAGAACAAGAGGCAACTAAGCCAATACCTAAAGGCAC

Basic information

species	Zea mays
transcript	GRMZM2G022365_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G022365_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g42550.2 (Oryza sativa), 3'ss of exon 1

agagctgttactagacactcatttctttcattagtgaatgtatgttttatgggga-catctgattgcatgaactaatattccttctttttcaatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACTGGCGAGGAAATTAAGAACAAGAGGCAACTAAGCCAATACCTAAAGGCAC------------
     |||||| |   | |           || ||     ||||| ||      | ||| |||| |||| || ||| || | |  ||| |   | ||  |||||||||||||||||||||| ||||  ||||||||||||||||| |||||||| || || |||||||||||||| || || ||||| || || |||||||            
---aatgttacaaagaaat----------gtttgtaggcatatgtattgcattcatcatttgatagcatcaattaacatccttgatttctttctattgtagtttactccccagAGAGGGGGGAGATTTGAGATTGTTTTTGTTTCACCAACTGGAGAAGAGATTAAGAACAAGAGACAGCTGAGCCAGTATCTGAAGGCACACCCTGGAGGCC

upper sequence: GRMZM2G022365_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g42550.1 (Oryza sativa), 3'ss of exon 1

agagctgttactagacactcatttctttcattagtgaatgtatgttttatgggga-catctgattgcatgaactaatattccttctttttcaatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACTGGCGAGGAAATTAAGAACAAGAGGCAACTAAGCCAATACCTAAAGGCAC
     | ||  |  |   |           || ||     ||||| ||      | ||| |||| |||| || ||| || | |  ||| |   | ||  |||||||||||||||||||||| ||||  ||||||||||||||||| |||||||| || || |||||||||||||| || || ||||| || || |||||||
-tttattttgtttaatgttacaaagaaatgtttgtaggcatatgtattgcattcatcatttgatagcatcaattaacatccttgatttctttctattgtagTTTACTCCCCAGAGAGGGGGGAGATTTGAGATTGTTTTTGTTTCACCAACTGGAGAAGAGATTAAGAACAAGAGACAGCTGAGCCAGTATCTGAAGGCAC

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|149005216|gb|EE039763.2|EE039763

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023282|gb|FK980089.1|FK980089

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGAC-GG-KGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|148944008|gb|EC889091.2|EC889091

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149110044|gb|EE293857.2|EE293857

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211025737|gb|FK980109.1|FK980109

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTATTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|148930862|gb|EC873278.2|EC873278

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|148937746|gb|EC881952.2|EC881952

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|29946862|gb|CB816361.1|CB816361

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398923|gb|FK980068.1|FK980068

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211025738|gb|FK980110.1|FK980110

EST:     GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGG-TGGNACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAAC
genomic: GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGG-ACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAAC

EST: gi|211023288|gb|FK980095.1|FK980095

EST:     GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGAC-GGTKGNACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGT-GGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|148966450|gb|EE017457.2|EE017457

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149000297|gb|EE037453.2|EE037453

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023295|gb|FK980102.1|FK980102

EST:     GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGAC-GGTGGTACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAAC
genomic: GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGG-ACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAAC

EST: gi|211025732|gb|FK980104.1|FK980104

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020864|gb|FK980086.1|FK980086

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|22473420|gb|BU037900.1|BU037900

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211025733|gb|FK980105.1|FK980105

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCTCCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398927|gb|FK980072.1|FK980072

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|13557864|gb|BG549220.1|BG549220

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149090561|gb|EE179871.2|EE179871

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149014904|gb|EE044625.2|EE044625

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149084696|gb|EE174186.2|EE174186

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|71772270|gb|DR970206.1|DR970206

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398918|gb|FK980063.1|FK980063

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|74241419|gb|DT649333.1|DT649333

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020858|gb|FK980080.1|FK980080

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211025735|gb|FK980107.1|FK980107

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|71307049|gb|DR789680.1|DR789680

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023285|gb|FK980092.1|FK980092

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020854|gb|FK980076.1|FK980076

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAG
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAG

EST: gi|148943632|gb|EC888696.2|EC888696

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398926|gb|FK980071.1|FK980071

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149037734|gb|EE155396.2|EE155396

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398925|gb|FK980070.1|FK980070

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023289|gb|FK980096.1|FK980096

EST:     ASTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|21810014|gb|BQ668332.1|BQ668332

EST:     AGTAGGTCG-GTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|71318878|gb|DR796197.1|DR796197

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023286|gb|FK980093.1|FK980093

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149014410|gb|EE044011.2|EE044011

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023283|gb|FK980090.1|FK980090

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023290|gb|FK980097.1|FK980097

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|148948808|gb|EC894211.2|EC894211

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023281|gb|FK980088.1|FK980088

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGAC-GGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|6031585|gb|AI668487.2|AI668487

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020853|gb|FK980075.1|FK980075

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020856|gb|FK980078.1|FK980078

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149110922|gb|EE294420.2|EE294420

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|29130386|gb|CB381090.1|CB381090

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|148972841|gb|EE023837.2|EE023837

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|16380034|gb|BI993276.1|BI993276

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|149009406|gb|EE041436.2|EE041436

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398921|gb|FK980066.1|FK980066

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|37416263|gb|CF645782.1|CF645782

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020852|gb|FK980074.1|FK980074

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211025736|gb|FK980108.1|FK980108

EST:     AGTANGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|31354425|gb|CD438782.1|CD438782

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211023291|gb|FK980098.1|FK980098

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211020865|gb|FK980087.1|FK980087

EST:     GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGAC-GGTGGAACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAAC
genomic: GTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGG-ACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAAC

EST: gi|29945183|gb|CB815511.1|CB815511

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAA-                         TTTACTCCCCAGAAAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|211398917|gb|FK980062.1|FK980062

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

EST: gi|13557863|gb|BG549219.1|BG549219

EST:     AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAG                         TTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT
genomic: AGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACT

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: 704

CTCGCCCACCATGGCGACGCCCGGCGAGCAGCAGGCACCGGCTGCGGCGGAGTAGGTCGTGTCCGTCGAGATGCCTGCACCCGACGGGTGGACCAAGAAGgtacggtggg ... aatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACTGGCGAGGAAATTAAGAACAAGAGGCAACTAAGCCAATACCTAAAGGCAC

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 379

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 328

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 461

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

tttatggggacatctgattgcatgaactaatattccttctttttcaatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACTGGCGAGGAAATTAAGAACAAGAGGCAACTAAGCCAATACCTAAAGGCAC

                        aactaat  putative branch site (score: 461)
                              tattccttctttttca  CT-rich tract
                        aactaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agagctgttactagacactcatttctttcattagtgaatgtatgttttatggggacatctgattgcatgaactaatattccttctttttcaatgttacagTTTACTCCCCAGAGAGGGGGAAGATCCGAGATTGTTTTTGTTTCGCCAACTGGCGAGGAAATTAAGAACAAGAGGCAACTAAGCCAATACCTAAAGGCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - -tgttact
- - - - - - - - - - - - -tttcatt
- - - - - - - - - - - - - - - - - - -atgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatga