ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag

Basic information

species	Zea mays
transcript	GRMZM2G059381_T01
intron #	19
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: AT5G27600.1 (Arabidopsis thaliana), 5'ss of exon 19

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatct-taaggttgttgatctggatgcag----------------
|||||||| || ||||| || ||||||||||| ||||| ||||||||||| || ||||| ||| | || || |  ||| || | || || || ||  | |||||     | |  |  |      ||  |     |||| | | ||  | |    ||  | | | |    |||                
AAGAACATATTTAAGTTGGCGCAAGGAGAATATATAGCACCAGAGAAGATCGAAAATGTTTATACCAAATGTAGATTCGTTTCGCAGTGTTTCATTCACGgtaa--gcaaagactctactcacactatacatggcttcttcttcacttgtgctatttctcaaccgagc-cagaatgtctctattatag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 5'ss of exon 19

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaa--ggttgttgatctggatgcag
||||||||||| ||||| || |||||||| ||||||||||||||||| ||||||||||| |||||||| ||||| ||  |||| || |||||| |||||||||| |   |||   |  |   |           | || | | | |  | |  | || ||  ||||     ||
AAGAACATTTTTAAGTTGGCACAAGGAGAGTACATAGCTCCAGAGAAAATTGAGAATGTATATGCTAAATGCAAATTTGTTGCCCAGTGCTTTGTATATGgtaagaaaaatgagattttacaaatctctc-tttcatcttttgcctgctgactgcttatttctctgatgatag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: Vv14s0128g00720.t01 (Vitis vinifera), 5'ss of exon 19

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatg---ctttcatctgagctgaaagcaccttcgt---gtacatcttaa-ggttgttgatctggatgcag
|||||||| |||||| | || || || ||||| ||||| |||||||| ||||||||||| ||||| |||||||| ||  || | ||||| ||||| ||||||||     |||    || | |      ||    | ||   |    || |   ||   |  || | |  ||  |  ||
AAGAACATCTTCAAGCTGGCACAGGGTGAATATATAGCACCAGAGAAAATTGAGAATGTATATGCCAAGTGCAAATTTGTTTCCCAATGTTTTATCTATGgtaaggcagatggagtttacttgcagattgggccctccccagctaagttctctttgctgactgcttaattgattttag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S408_23V6.1 (Physcomitrella patens), 5'ss of exon 21

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag--------------------------------
||||| || || ||||| ||||||||||| ||||| || || |||||||| |||||||||||   |    |    |||||  | || || |  ||| |||||| | |||||  ||| |   |||  |||  |  | |    |      |||    ||||     | || ||                                
AAGAATATCTTTAAGTTGGCTCAAGGAGAGTACATTGCCCCGGAGAAGATCGAGAATGTCTACCTTCGCAGTCGTTTCATAACACAGTGTTACATACATGgta-tgttcattttttaaatggag--gaactcttcatttcttgtggtctaaacaagttgcaactggtgtagatgacttaagatttttttttcatctgaaatga

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S33_126V6.1 (Physcomitrella patens), 5'ss of exon 22

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgag----ctgaaagcaccttcgtgtacatcttaaggttgttga-----tctggatgcag---------------------
||||| || |||||||| ||||| ||||| ||||| || || |||||||||||||| |||||        |   ||||||||| || ||||||||  |||||    ||||| |  | |   |||    |      ||   ||     |||||    || |||||       ||| | | |                     
AAGAATATCTTCAAGTTGGCTCAGGGAGAGTACATTGCGCCCGAGAAGATTGAGAACGTCTACCTGCGAAGTCGGTTCATTGCACAGTGCTTTATTCATGgtg-cgttcattcaattaatggaggcatcccttctcattgtctcagtcatctgcttgtggttgaaacaccatggttactggggttgtgggtgctttaagag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: PP1S12_178V6.2 (Physcomitrella patens), 5'ss of exon 21

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag----------------------------------------------------------------------------------------------------
||||||||||||||||||||||||||||||||||| || || || |||||||||||  | |||  |    |   ||| ||| | || || ||  ||||||||    |||||   || |||   | |   | |   ||  ||            || ||  | ||   | |                                                                                                     
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATTGCACCGGAAAAGATTGAGAACATTTATCTTCGCAGTCGGTTTATTTCGCAGTGTTTCGTATATGgtg-cgttcat---ttaatcgacggtcgcatctttttaatgattgcacgttactttttcgtgtgacggaaacgtgtagcaactggtgttacgtatactggaaaaactaccaactcattgaaatccaatcattcttaccaatcgtataattggttggtggtgaattgcacag

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: EFJ33980 (Selaginella moellendorffii), 5'ss of exon 20

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcaccttcgtgtacatcttaaggttgttgatctggatgcag
||||||||||| ||| | || || || ||||||||||| ||||||||||||||||||||||||  |||  |||||||| ||||||| || ||  | || ||| | |   ||  | |  | ||    |  |||   || |   |||  |     |  | |||    |     
AAGAACATTTTTAAGCTTGCACAGGGTGAATACATAGCGCCAGAGAAGATTGAGAATGTCTATCATAAAAGCAAGTTCGTTGCTCAGTGTTTCGTCTACGgtgagaacaattttgttttgtgtctagcgagcggttttg-acacaattc----tcttcgattgtaacag--

upper sequence: GRMZM2G059381_T01 (Zea mays), 5'ss of exon 19
lower sequence: EFJ37488 (Selaginella moellendorffii), 5'ss of exon 20

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattcatgctttcatctgagctgaaagcac-cttcgtgtacatcttaaggttgttgatctggatg-cag-------------------------------------------------------
||||||||||| ||| | || || || ||||||||||| ||||||||||||||||||||||||   ||  |||||||| ||||||| || ||  | || ||| | |   ||  | |  | ||    |  ||  | | | | | |    |   ||| | |||   | ||| ||                                                        
AAGAACATTTTTAAGCTTGCACAGGGTGAATACATAGCGCCAGAGAAGATTGAGAATGTCTATCAAAAAAGCAAGTTCGTTGCTCAGTGTTTCGTCTACGgtgagaacaattttgttttgtgtctagcgagtccacctggcgaaaggatc--ggtcgctgaatagcatggcaaagttttctccctatgtgtgactcggttttgacacaattctcttcgattgtaacag

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|60399365|gb|DN232179.1|DN232179

EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG

EST: gi|33090935|gb|CF050929.1|CF050929

EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG

EST: gi|60395514|gb|DN228384.1|DN228384

EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG

EST: gi|58030032|gb|CX725459.1|CX725459

EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCATCTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCNGGG-
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACC-GGAT

EST: gi|93283329|gb|EB675593.1|EB675593

EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG

EST: gi|32847207|gb|CD986888.1|CD986888

EST:     TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATG                         GTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG
genomic: TGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATG

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: 45 (upstream exon), 46 (downstream exon)
Score: 72

AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTCATTGCTCAATGCTTTATATATGgtaatattca ... ctggatgcagGTGATAGTTTCAACTCTTCCCTAGTTGCCATTGTAGCAGTCGAACCGGATGTGTTGAAGGCTTGGGCTGCATCAGAAGGAATCCAG

Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 190

Block sizes: 46 (upstream exon), 47 (downstream exon)
Score: 66