ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag

Basic information

species	Zea mays
transcript	GRMZM2G015989_T02
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 5'ss of exon 6

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcat-cattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgctt-acggtgattttaattctattaccag-
 ||||||  ||||||||||||||| ||||| || ||||||||||||||||||||||| |||||||||||||||||| |||| ||||||||||| |||||||||||||||   |    || |  |||||| |||   |||| |   || | ||  |||    |||   ||   ||| | |  || | | | || || ||||||| |||   
TCTCTATGTTGTTGAGGGAATGCAATTTGATCGCGGCTATATTTCTCCCTACTTTGTAACTGACAGTGAAAAAATGTCAGTGGAGTATGAGAATTGCAAGgtttgatgcattctagaattcggtgtacttaaa---ctgt-gcattaaccag--atactcattt--gtgggctctatgcatttgatgctaatgttgattctatcacccag

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 5

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
 || |||  ||| ||||| ||||| ||||||||||| ||||||||||| |||||||| ||||||||||| |||||| | || || ||||||||||| ||||| |||   |   ||      || | |    || |   || |  | | ||  |       | ||||       | ||   ||||   |  | | || |         
TCTATATGTTGTCGAGGGGATGCAATTTGACCGTGGTTATATTTCTCCATACTTTGTTACTGACAGTGAGAAAATGGCCGTTGAATATGAGAACTGTAAGgtgtgacatttgtct-----gttttccctgtaacttgttattattttttaacatccttcatatttaa-----ttataactttacatggtatgttatgcag-------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G18760.2 (Glycine max), 5'ss of exon 5

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
 || |||  ||||||||| ||||| || |||||||| ||||||||||| ||||| || ||||||||||| |||||| | || |||||||||||||| |||||  ||   |   ||   |     | | ||  ||| | |  |   |||  ||  ||    |  ||||  ||| | || | | | | |   |  |             
TCTGTATGTTGTTGAGGGGATGCAATTCGACCGTGGTTATATTTCTCCATACTTCGTTACTGACAGTGAGAAAATGGCTGTTGAGTATGAGAACTGTAAGgtgagacatttgtctgt-tttccctgcgaattattattttttaacatcctgtg-tatt--tacttatagctt-tatatggt-atgtta--tgcag------------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT1G55490.2 (Arabidopsis thaliana), 5'ss of exon 6

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaa--aattctgtagt---gctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag-----
||||||    || || |||||||| ||||||||||| ||||| ||||| ||||||||||| ||||| || |||||| | |||||||  || || ||||||||  |||| |  | |  |||   |||  | |  |||| ||| |     |||| |||  |    || | ||   |  |  |||     ||| |  ||    || |  ||  |      
CCTCTACGTCGTAGAAGGAATGCAATTTGACCGTGGTTATATCTCTCCTTACTTTGTGACAGACAGCGAGAAAATGTCCGTCGAGTTCGACAATTGCAAGgta-gatg-tttcttgaatctgagtagaagatgaattttgttggcagactatttagccactaaagatatttatatatgagtataacaacgatctttaatgttttggtatgattgcag

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagt-ttttatgacttctgtacgcttacggtgattttaattctattaccag
||| ||   |||||| |||||||| ||||| ||||| ||||| ||||| |||||||| || |||||||| ||||||   |  || ||||||||||||||||| | ||        |  |  || |||    || |||  |  |||    |  ||  ||||| |||| |||||      | |||   |   || ||             
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattat--------tattgtttatacagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag------------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 6

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaa--attctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
||| |||  ||| || |||||||| ||||||||||| ||||| || || ||||||||||| |||||||| |||||| | || |||||||| || |||||||  | ||  | |  |         ||| ||||  ||  |||  ||| |  |||    |  ||||| ||      |||| |                             
CCTTTATGTTGTGGAAGGAATGCAATTTGACCGTGGTTATATCTCCCCATACTTTGTGACAGACAGTGAGAAAATGTCTGTTGAGTATGACAATTGCAAGg--taatttttctttattctgagctaccaaaatgatattgtgatgc-aaatagcctaacaagtttcta------ctgtgcag---------------------------

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv09s0002g03930.t01 (Vitis vinifera), 5'ss of exon 5

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct----ccccttcatcattgtactaaaaattctgtagtgctatctagt----aatagcagttttta-tgacttctgtacgcttacggtgattttaattctattaccag-----------------------
| | |||  ||| || |||||||||||||| ||||| ||||| ||||| ||||| || || |||||||| |||||| | || || ||||| || ||||||||  || ||     |  |  |||  || | | | | | |||  |  |  || |       | |   | || ||| |||||   ||    |  |  |   ||| ||| ||||                            
CTTGTATGTTGTGGAAGGAATGCAGTTTGATCGTGGTTATATCTCTCCTTACTTCGTCACAGACAGTGAGAAAATGGCTGTTGAATATGAAAATTGCAAGgtaagaggccaagacttcagcattttttttccatatagtctccaaggaaatatgaccctaagtgttacttgttactgactctggttttatctcccttcgttttattatattgatttttttgggacatctgtttatgcag

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
||| |||  |||||| |||||||| ||||||||||| ||||| || || |||||||| || || ||||| |||||| |||| || |  |||||||||||||||||    | | ||| || ||| ||  | |  |  | | || || |||   | | |   | ||| || |||    |  || ||    |||||  |  | |      
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttg-catttctctt-ataatt-taggagagctaatatggtact-tctgcaagttg-gttctttctggctttctaa--ctgaca--aattttgttcatgtag----

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S14_298V6.1 (Physcomitrella patens), 5'ss of exon 5

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag--
||| ||    || ||||| |||||||||||| | ||||| ||||| ||||| ||||||||||||   || || ||| | || |||||||| ||||||| |||   |||||||  || ||  || ||  ||    | || |    |||||  |  |  ||    ||   |      |  || | |    |||  ||     | |||    
CCTGTACGTGGTCGAGGGCATGCAGTTTGACAGAGGCTACATTTCCCCCTATTTTGTGACTGACCCAGAGAAGATGTCTGTGGAGTATGATAACTGCAGGgt---atgctcctatt-at--ttttaagaatgcctttggatgtttatctgcttgtgacatcgcttgaaagcggaatctgcgtgc---aattacaaactgctgaccgaca

upper sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S276_75V6.1 (Physcomitrella patens), 5'ss of exon 5

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtag-tgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag
| | |||   |||||||| ||||| || ||| | || || |||||||||||||||||||||||    || || |||   || ||||| || ||||||| ||| || |  |  | || | | |     |     ||  | |  |  ||| || |||  |   |  ||   || ||| | | | ||  |     | ||    | |     
CTTGTATGTGGTTGAGGGGATGCAATTCGACAGAGGATACATTTCTCCCTACTTTGTGACTGATCCCGAGAAGATGGATGTTGAGTACGACAACTGCAGGgtatgtttgtatctttaaccctctagttttttttttcgaaaatagtatttaataac-gtgatactt-ccacctcttttcacgtagagctgcct-aagagaact-----

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|32930585|gb|CF035397.1|CF035397

EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC

EST: gi|31355200|gb|CD439557.1|CD439557

EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCCAG                         CTTCTCCTTGTGGA
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGA

EST: gi|211451955|gb|FL157391.1|FL157391

EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC

EST: gi|211451956|gb|FL157392.1|FL157392

EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGAC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGAC

EST: gi|211451954|gb|FL157390.1|FL157390

EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC

EST: gi|78081967|gb|DV510379.1|DV510379

EST:     ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAG                         CTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC
genomic: ACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATC

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: 578

CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgct ... ctattaccagCTTCTCCTTGTGGACAAGAAAATTAACAATGCCAGAGATCTTATCACTATCCTGGAGGATGCTATTAGAAGTGGATATCCAATTCTAATAGTGGCAGAGG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 329

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 451