ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGTATGGCTTCGACAAGGGCGACATCGGCCGCCTCTTCATCGCCGGCTTCGGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccaggggccgcgattcttttttttttccgtattccgaattccagtcccaatcccaatccagtgtgtgtgtgtgtgtgtcagtcagtgtgtgcctccttaaacctcactgacgattcttcgttcatgtctccctcgcccag

Basic information

species	Zea mays
transcript	GRMZM2G064563_T03
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G064563_T03 (Zea mays), 5'ss of exon 2
lower sequence: EDO98756 (Chlamydomonas reinhardtii), 5'ss of exon 4

AGTATGGCTTCGACAAGGGCGACATCGGCCGCCTCTTCATCGCCGGCTTCGGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccaggggccgcgattcttttttttttccgtattccgaattccagtcccaatcccaatccagtgtgtgtgtgtgtgtgtcagtcagtgtgtgcctccttaaacctcactgacgattcttcgttcatgtctccctcgcccag
                    |||||||||||||| |||||||| |||||||| ||||||||| ||||||||||| | ||||| ||||| |||||||| ||||  |  | ||  | ||| |          | ||      ||       ||||  |    || |  | | | | ||||       | || |   ||    |    ||  |                                    
--------------------GACATCGGCCGCCTGTTCATCGCGGGCTTCGGCTCCTCCATGATCTTCGGCACCGTGGTCGGGTCCCTGGCCGACAAGCAgtgagtgc-ggccctgcgctcagggcccggtccctcgccgcggg----ggtccaga----aagctggggagggggtgt-----caactcgggaagttgtccagcgaatgtagga--------------------------------

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|149105632|gb|EE291180.2|EE291180

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211429139|gb|FL408429.1|FL408429

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211385926|gb|FL097275.1|FL097275

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|32802659|gb|CD954895.1|CD954895

EST:     GATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTTACCTACTGCATCAGCTACATCCTCAGCTG
genomic: GATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211344703|gb|FL214763.1|FL214763

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211383298|gb|FL097268.1|FL097268

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|149086869|gb|EE176413.2|EE176413

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211385929|gb|FL097278.1|FL097278

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|93012444|gb|EB637964.1|EB637964

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211344698|gb|FL214758.1|FL214758

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|87156350|gb|DY401139.1|DY401139

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|101390561|gb|EB817215.1|EB817215

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211383301|gb|FL097271.1|FL097271

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|32804659|gb|CD956895.1|CD956895

EST:     GATCCCCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTTACCTACTGCATCAGCTACATCCTCAGCTG
genomic: GATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211383297|gb|FL097267.1|FL097267

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATT
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATT

EST: gi|211383300|gb|FL097270.1|FL097270

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|148971109|gb|EE021954.2|EE021954

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|149071690|gb|EE160082.2|EE160082

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

EST: gi|211344704|gb|FL214764.1|FL214764

EST:     GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACA                         GGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG
genomic: GGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTG

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), 48 (downstream exon)
Score: 81

AGTATGGCTTCGACAAGGGCGACATCGGCCGCCTCTTCATCGCCGGCTTCGGATCCTCCATGCTCTTCGGCACCATCGTCGGCTCCCTCGCCGACAAACAgtacgcccag ... cctcgcccagGGGCCGCAAGAGGGCCTGCGTCACCTATTGCATCAGCTACATCCTCAGCTGCATCACCAAGCACTCCCCCGAGTACAGGGTCCTCATGATCGGCCGCATC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 36

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 154