ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TATCAACTCCATCGTTTATCCCTGGACGTCCATTCCTCTCCTGGCTTACTGTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatatggtatcgtcattaaaacaaagaagagttatggctctattttttgagtttagtcttagcgtcaattttttttttgttgaaattgcag

Basic information

species	Zea mays
transcript	GRMZM2G177631_T01
intron #	11
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G177631_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os07g14850.1 (Oryza sativa), 5'ss of exon 12

TATCAACTCCATCGTTTATCCCTGGACGTCCATTCCTCTCCTGGCTTACTGTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatatggtatcgtcattaaaacaaagaagagttatggctctattttttgagttta-gtcttagcgtcaattttttttttgttgaaattgcag
||| ||||| ||||| ||||||||||| |||||||| || |||||||||||||||||||||||||| ||| ||||||| |||||||||||||| ||||||||||  ||    ||| ||        | |   |   || ||     || || |||||||  |||| |   | |  |  |||||  || ||| |||||
TATTAACTCTATCGTATATCCCTGGACATCCATTCCACTTCTGGCTTACTGTACCTTGCCTGCCATATGCTTGCTCACTGGGAAGTTTATCACTCCAGAGgtaagcat----tattgt-------gctacataattttgtg-----atcttctgagtttctgtctgaatcttacatcatttttatttcaaactgcag

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|32848162|gb|CD987843.1|CD987843

EST:     ACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTGGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: ACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|32928702|gb|CF033514.1|CF033514

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTGGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|32928613|gb|CF033425.1|CF033425

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTGGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|32928987|gb|CF033799.1|CF033799

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTGGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|211063664|gb|FL415621.1|FL415621

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|32928305|gb|CF033117.1|CF033117

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTGGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|67031384|gb|CO460133.1|CO460133

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTGGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|211489038|gb|FL096937.1|FL096937

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|211366969|gb|FL429347.1|FL429347

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

EST: gi|76285795|gb|DV025363.1|DV025363

EST:     GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAG                         CTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC
genomic: GTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCC

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: 47 (upstream exon), 49 (downstream exon)
Score: 264

TATCAACTCCATCGTTTATCCCTGGACGTCCATTCCTCTCCTGGCTTACTGTACCTTGCCTGCCATCTGCCTGCTCACGGGGAAGTTTATCACACCAGAGgtaaatatat ... gaaattgcagCTTACCAATGTCGCCAGTATCTGGTTCATGGCACTTTTCATCTGCATCTCCGTGACCGGCATCCTGGAAATGAGGTGGAGTGGCGTGGCCATCGACGACT

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 305

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 406