ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GAAAATCCTGCTCGAGCCAATGGCCACATCTTCAATGTTGGGAATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccatatattgttgaccctgaccggtgtacttgttacttgtttctattgtaagccatctattgtgatcttgtcatgaggttctagtattttcgcaa...

Basic information

species	Zea mays
transcript	GRMZM2G063949_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 7

GAAAATCCTGCTCGAGCCAATGGCCACATCTTCAATGTTGGGAATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccatatattgttgaccctgaccggtgtacttgttacttgtttctattgtaagccatctattgtgatcttgtcatgaggttctagtattttcgcaa
|||||||||||||| |||||||| || ||||||||||| |||||||| ||||||||||| || |||||| | |||||  |||||||||||||||||   ||| ||  || |        |  ||  | | |   ||  |  |    |||| | |  || ||  || |||   |                    
GAAAATCCTGCTCGTGCCAATGGTCAAATCTTCAATGTCGGGAATCCTAACAATGAAGTCACTGTTAGGCAATTGGCTGAAATGATGACAGAGgtacatcat-tagcgtggcaatgtttctttgagcgtttctgttactcatgccctaagtcttacatggttgtcctgtacag--------------------

upper sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 7

GAAAATCCTGCTCGAGCCAATGGCCACATCTTCAATGTTGGGAATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccatatattgttgaccctgaccggtgtacttgttacttgtttctattgtaagccatctattgtgatcttgtcatgaggttctagtattttcgcaa
|| ||||||||  | || ||||| |||||||||||||| || || || |||||||| ||||| |||||| || | ||  |||||||||| |||||     |   |||| |     |    | || | |  | |  | | | | | | |  | || |||||   | ||      |   |  ||           
GATAATCCTGCCAGGGCTAATGGTCACATCTTCAATGTGGGCAACCCCAACAATGAGGTTACTGTTAGGCAGCTTGCAGAAATGATGACTGAGgtgaataagcgattggt----ttatttgatgcaatattgatctttatttttgggactctatatattgatgtttttcttccattcttcag-----------

upper sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 7
lower sequence: PP1S379_19V6.1 (Physcomitrella patens), 5'ss of exon 5

GAAAATCCTGCTCGAGCCAATGGCCACATCTTCAATGTTGGGAATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccat---atattgttgaccctgaccggtgtac----ttgttacttgtttctattgtaagccatctattgtgatcttgtcatgaggttctagtattttcgcaa
||||| |||||| |||||||||||||||||||||| || || || ||| |||| ||||| ||| |   |||| | ||  |  ||||||| || ||| | ||    |     || |   | |     |  |      ||  |     |||  |||  |  | ||||    | | |  |      ||||| ||  ||  || 
GAAAACCCTGCTAGAGCCAATGGCCACATCTTCAACGTCGGCAACCCGCACAACGAAGTGACCATCCAGGAGCTTGCTGAGCTGATGACTGATgtaagtcaccagaatccattcattttcatttcagctcagcacagtctcacaagtctggtgtgtggaagctatca-aaccctaacccacccttctattaacttt-cag

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|93281900|gb|EB674164.1|EB674164

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|40337281|gb|CK371351.1|CK371351

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|60356652|gb|DN223625.1|DN223625

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|32868566|gb|CF008248.1|CF008248

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|149086196|gb|EE175736.2|EE175736

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTTTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|7137694|gb|AW499223.1|AW499223

EST:     TCCGAACAATGAAGTTACCGTTAGGGAGTTTGGCCCAAATGATGACAGAG                         GTCTACACAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: TCCGAACAATGAAGTTACCGTTAGGGAGTT-GGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|211216490|gb|FL245940.1|FL245940

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|60353566|gb|DN220539.1|DN220539

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|149098033|gb|EE183980.2|EE183980

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

EST: gi|211213926|gb|FL245933.1|FL245933

EST:     ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAG                         GTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC
genomic: ATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGAC

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), 48 (downstream exon)
Score: 253

GAAAATCCTGCTCGAGCCAATGGCCACATCTTCAATGTTGGGAATCCGAACAATGAAGTTACCGTTAGGGAGTTGGCCCAAATGATGACAGAGgtatgccata ... gcacgagtagGTCTACGCAAATGTCTCAGGAGAGGCACCGCTGGATGAGCCCATGATTGACGTGAGCTCGAGTCAGTTCTACGGTGAAGGATACGATGATAGCGACAAGA

Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 92

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