ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcattctgttattatacttcactgtgatactttatttgttttttttttgcagcctaaccctattcaaacttgctgtttctttttcattctag

Basic information

species	Zea mays
transcript	GRMZM5G864319_T01
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G864319_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os06g01390.1 (Oryza sativa), 5'ss of exon 6

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcattctgttattatacttcactgtgatacttt----atttgttttttttttgcagcctaaccctattcaaacttgctgtttctttttcattctag
|||| || ||||||||||| ||||||||||| ||||||||||| ||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||  | ||||  ||||| ||  ||   |  |  ||||     ||   || |  |         ||||| |  |||| |   |   | ||  |    | |||
ATATCGGCGGAAAATTTGGTAGTGGTGCATACAACAGTATGGATAATGGAGTTCTGCGATTTGACCATGTGCGCATCCCAAGGGATCAAATGTTGATGAGgtttgtccattgggttatcatgttttgttcgggcacttgtcaaatacattctgataccttgatgtaaccattctcaagcacacccatgctactcg--tgtag

upper sequence: GRMZM5G864319_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA01G41600.1 (Glycine max), 5'ss of exon 6

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcattctgt-tattatac-ttcact-gtgatactttatttgttttttttttgcagcctaaccctattcaaacttgctgtttctttttcattctag-
|||||||    |||||||| | ||  ||||||||||  ||||||||||| |||||  ||||||||||||| || || |||||| |||||||||| |||||||   |  ||| |   |||| | | ||| || |    ||  || | | |||| |  |||     |  | || |  |  ||  || |   |     |   |  
ATATTGGGATGAAATTTGGAAATGCAGCATATAACACCATGGACAATGGAGTTCTAAGATTTGACCATGTACGAATTCCAAGGAATCAAATGTTAATGAGgtatttctattttacatattgtcccttctctagcctcaccataatgggttttatggtgctaataatgcataataca--ttaatgatctgtgggggtaaaata

upper sequence: GRMZM5G864319_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA11G03800.1 (Glycine max), 5'ss of exon 6

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcattctgt-tattatac-ttcact-gtgatactttatttgttttttt---tttgcagcctaaccctattcaaacttgctgtttctttttcattctag
|||||||    |||||||| | ||  || |||||||  ||||||||||| |||||  ||||||||||||| || || |||||| |||||||||| |||||||   |  ||| |   |||| | | ||| || |    ||  ||   | |||| |   | |      | |   || || ||    ||||     |   ||     
ATATTGGGATGAAATTTGGAAATGCAGCTTATAACACCATGGACAATGGAGTTCTAAGATTTGACCATGTACGAATTCCAAGGAATCAAATGTTAATGAGgtatttctattttacatattgtcccttctctagcctcaccataacggattttatggttctaataattcataatactcgaatgatctgtgggggtaaaatg----

upper sequence: GRMZM5G864319_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA14G14990.1 (Glycine max), 5'ss of exon 5

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcattctgt-tattatacttcactgtgatactttatttgttttttttttgcagcctaaccctattca-aacttgctgtttctttttcattctag----
|||||||    |||||||| | ||  ||||||||||  ||||||||||| |||||  ||||||||||||| || || |||||| |||||||||| |||||||   |  ||| |   |||| | | |      |   |   ||      |||| | |    ||||    ||||| ||    |   |  ||| |     ||     
ATATTGGGATGAAATTTGGAAATGCAGCATATAACACCATGGACAATGGAGTTCTAAGATTTGACCATGTACGAATTCCAAGGAATCAAATGTTAATGAGgtatttctattttacatattgtcccttctctagcctcaccataacggattttatggt--tctaat--aattcataatacacgaatgatttgtgggggtaaaatg

upper sequence: GRMZM5G864319_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv00s0389g00020.t01 (Vitis vinifera), 5'ss of exon 4

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcattctgttattatacttcactgtgatactttatttgttttttttt--tgcagcctaaccctattcaaacttgctgtttctttttcattctag
||||||||   |||||||| | ||| | ||| ||||| ||||||||||| ||| |  ||||||| ||||||||||| ||||||||||||||||||||| ||||  ||| |  | |     |  |||  | ||  | ||  || ||| |||     |   |  ||    |||      |     ||   | |    |  ||
ATATTGGTATGAAATTTGGAAATGGAGGATACAACAGCATGGACAATGGAGTTTTAAGATTTGATCATGTGCGCATTCCAAGGGATCAAATGTTGATGCGgtttgttcttcttctatgcctctttctttatgggatttctttagttgtttaaagattttgtatatggttatatggtgtcataattagctgtgttcttgag

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|78109870|gb|DV528286.1|DV528286

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCANCA-GTTACAAGGGAGGGGAAATATGTTCATTCAGATGT
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCA-CAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGT

EST: gi|78092061|gb|DV520435.1|DV520435

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTTACA-GGGAGGGG
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTT-ACAAGGGAGGGG

EST: gi|211453988|gb|FL038181.1|FL038181

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA

EST: gi|149089538|gb|EE178785.2|EE178785

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTTACA-GGGAGGGGGAATATGTTCATTCAGATGTCCCAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTT-ACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAA

EST: gi|32934681|gb|CF039493.1|CF039493

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA

EST: gi|213184355|gb|FM193741.1|FM193741

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA

EST: gi|78089952|gb|DV518326.1|DV518326

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA

EST: gi|211132734|gb|FL016682.1|FL016682

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA

EST: gi|211132737|gb|FL016685.1|FL016685

EST:     GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAG                         GCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA
genomic: GTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAA

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: 239

ATATTGGTGGAAAATTTGGCAGTGGTGCATATAACAGTATGGACAATGGTGTTCTGCGATTTGACCATGTGCGCATACCAAGGGATCAAATGTTGATGAGgttcattcat ... ttcattctagGCTTTCACAAGTTACAAGGGAGGGGAAATATGTTCATTCAGATGTCCCAAAGCAGCTGCTTTATGGGACAATGGTTTTTGTTCGCCAGACAATAGTCGCA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 861

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 856