ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTAGCTGATGCGAAGGATGTTATGGAAGCAGTTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatgttcattcaattggcctgtattactatttttatggtattattgtatactgtatgtttgcctcatcagtaccttgttatttgtgcgcaccactcatcag

Basic information

species	Zea mays
transcript	GRMZM2G175071_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G175071_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os01g16350.1 (Oryza sativa), 5'ss of exon 4

TTAGCTGATGCGAAGGATGTTATGGAAGCAGTTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatgttcattcaattggcctgtattactatttttatggtattattgtatactgtatgtttgcctcatcagtaccttgttatttgtgcgcaccactcatcag
 |||||||||| |||||||| ||||| | ||| |||| ||| |  |||||| |  ||||||||||||| |||||||||||||| |  ||  || |||||  |  | | |      || | | || |    | || |    | | ||    || |  |||    |                        
CTAGCTGATGCTAAGGATGTGATGGATGTAGTCCGGAATATTGAAGGTGTAAGCCTTCCTGTATTGACACCAAACCTTAAGgtaatataatttgattcagataacttttgagtacatatgtctgtttacctcgtttcacatttattctgttcgttggtaatcag------------------------

upper sequence: GRMZM2G175071_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv06s0009g02640.t01 (Vitis vinifera), 5'ss of exon 4

TTAGCTGATGCGAAGGATGTTATGGAAGCAGTTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatgttcattcaattggcctgtattactatttttatggtattattgtatactgtatgtttgcctcatcagtaccttg-ttatttgtgcgcaccactcatcag
||||| ||||| ||||||||||||||||||||||||| | ||| |||||   | || |||||  |||| || ||  | || ||||   ||  |      |       | |  || ||   |        ||| | | ||||||||  |     |    |  |    || ||||                
TTAGCAGATGCAAAGGATGTTATGGAAGCAGTTCGGAATTTGGAGGGTGCTAGATTACCTGTGCTGACACCTAATTTAAAAgtgagtaattgtttccagaaaaaggggaaaaaccatgagttcaaagcaattctgt-ctgtatgtgagggaatttctcatatcaactacttgtag--------------

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|76293872|gb|DV033440.1|DV033440

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCTAAACCTTAAG                         GGATTTGAAGCAGC
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGC

EST: gi|211148321|gb|FL359569.1|FL359569

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCTGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|149111653|gb|EE190797.2|EE190797

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|60401129|gb|DN233936.1|DN233936

EST:     TTCGGACTATTGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCTGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|71430395|gb|DR811445.1|DR811445

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|74237799|gb|DT645713.1|DT645713

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTG
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTG

EST: gi|149010241|gb|EE042063.2|EE042063

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|148969536|gb|EE020363.2|EE020363

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|76013106|gb|DT940276.1|DT940276

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCANGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|71772253|gb|DR970190.1|DR970190

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

EST: gi|74235239|gb|DT643153.1|DT643153

EST:     TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAG                         GGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA
genomic: TTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCA

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: 362

TTAGCTGATGCGAAGGATGTTATGGAAGCAGTTCGGACTATGGGGGGTGTACGTTTTCCTGTATTGACTCCAAACCTTAAGgtgaagtatg ... cactcatcagGGATTTGAGGCAGCTATTGCAGCAGGGGCAAAAGAAATCGCAATATTTGCATCAGCTTCTGAAGGATTTTCCAAGTCAAACATAAACTGCACCATTAAAG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 368

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 322