ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatatatattgactttttcttttctaatttatctctgcttttagacccattttctattttgttgaagacaggtta...

Basic information

species	Zea mays
transcript	GRMZM2G086015_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatatatattgactttttcttttctaatttatctctgcttttagacccatt--ttctattttgttgaagacaggtta--
||||||| |||||||||||||||||||| |||||||||||||||||| | || | ||||||  | |||||| ||||||||||||||||||||||||||| ||| ||   |  |  |||| | ||||| |   ||    || || | || |  |   | | |   |||  |||  ||  ||   |||  |   |     |||   
TACTTCTTAGTTTGATTGAGTACAAGACACTTGTGATGCGTGGGGATATTGAACGTGCAAATGATATTTTACCATCCATACCAAAGGCGCAATATAATAAgttagttgctgact-tttgatccaaaaca---atgagtttcttttattttggtacctgtttctctttgaacctgttgatttggtttcttaataattttgttcct

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os06g05180.4 (Oryza sativa), 5'ss of exon 1

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatatatattgactttttcttttctaatttatctctgcttttagacccatt--ttctattttgttgaagacaggtta--
                      |||||| |||||||||||||||||| | || | ||||||  | |||||| ||||||||||||||||||||||||||| ||| ||   |  |  |||| | ||||| |   ||    || || | || |  |   | | |   |||  |||  ||  ||   |||  |   |     |||   
----------------------CAAGACACTTGTGATGCGTGGGGATATTGAACGTGCAAATGATATTTTACCATCCATACCAAAGGCGCAATATAATAAgttagttgctgact-tttgatccaaaaca---atgagtttcttttattttggtacctgtttctctttgaacctgttgatttggtttcttaataattttgttcct

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatatatattgactttttctt----ttctaatttatctctgcttt-tagacccattttctattttgttgaagacaggtta
| ||| | || ||||||||||||||||| |||||||||||||| ||||||||    || ||  ||||| || |||| || || || | |||  |||| ||||  |   ||| |   ||||| ||| | |   ||||| ||| | |     |    |  |||   || | | |  |   |||    || || |||   ||||  | 
TGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCCAAAGAGCATCATAACAGgta-ggacttacc---ttgttgcaagacaatgattgattttctttcaatatgtagaaatatgcttgatatgtgtagaaattaaaaatgtttttggtaacagaat-

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatatatattgactttttcttttctaatttatctctgcttttagacccattttct---attttgttgaagacaggtta
||||| | ||||||||||| |||||||| ||||| |||||||| ||||||||    || ||  ||||| || |||| || || || | |||  |||| ||||  ||  ||||    |  | |     ||   | ||||  || ||||  | |||||    |  | || ||    ||||     |   | ||    |  |||  
TACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCTAAAGAGCATCATAACAGgta-gtagttattttctgttatgttgttacggaatgacccttactttctttatttagaaattatgtttgatatgttttgagaaaggcttttttgtaagggt--

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatatatattgactttttcttttctaatttatctctgcttttagacccattttctattttgttgaagacaggtta-
| ||| | || ||||||||||||||||| |||||||||||||| ||||||||    || ||  | ||| |  |||| || || || | |||  |||| ||||    | |  |    |||| | |   |  |   | |   ||  ||||||  |  || | |     ||  |    | | | |     | || |  | ||  
TGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGATATTCTGCCATCAATCCCCAAAGAGCATCATAACAGgtagaagttagttaccttgtgttacgttgcaagataatgattaattttctt-tcaatatgttgaaatatgcttgatatgtgtagaaattaaaaatgctttt

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttg-tgattatcggtttgtttcaaaatatat-attgactttttctttt-ctaatttatctctgcttttagacccattttctattttgttgaagacaggtta
|  | || ||  |||||||||||||||| ||||||||||| || ||||| ||  | || |   |||| ||| |  | || || || |  ||  |||| |||| || |   | |    || | |       | | ||| | | ||| |    ||  | |   | ||   |  | |  |  || |   ||  |  ||  |||   
TGTTGCTAAGCCTGATTGAGTACAAGACTCTTGTGATGCGGGGTGATTTAGACAAAGCCAGTGAAATCTTACCTACAATTCCTAAAGATCAGCATAACAGgtatgctagatcttaacttctgtgtgtgcttgtgattcattctttatcgcacttctcttgttatgtgatatgtcttaggtttttcatttctttaggaagg---

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 21

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggtttgtttcaaaatat------atattgactttttcttttctaa---tttatctctgcttttagacccatttt--ctattttgttgaagacaggtta-----------------------------------------------
||||| | |||||||||||||||||||| |||||||||||||| |||||||| || || ||  || | ||| | || || || |||| |||  ||||||||| || || | | | |||   ||  | |||      |  | || | |    ||  |||   | ||||   | |   | |    |||    | ||||  | ||  || |                                                  
TACTTTTAAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGAGATTTGGAACAGGCTAATGAAGTCTTACCTTCAATTCCTAAGGAGCACCATAATAGgtatgagaatgt-gctttccctcgcattatggttacagctggattatggtgttagtaaacatgtatccaaggtcacataatggtttaaattgttttcctaaattcacgcattcctacttttctgattctcgacttcaaaatcctgttcgttttgtcag

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgatta-tcggtttgtttcaaaatatat--attgactttttcttttctaatttatctctgcttttagacccattttctattttgttgaagacaggtta
| || || ||  ||||||| |||||||| ||||||||||| || |||||||||   || ||  |||||||| |  | || || || | |||  |||| | || ||| ||   |   |||| |  ||| | | |  ||| |||| |  ||   |  ||||   |||| |||   | | | ||   |  | |     |    |  
TGCTGCTTAGCCTGATTGAATACAAGACTCTTGTGATGCGAGGCGATTTGGATAGAGCCAATCAAATTTTACCTACAATTCCTAAAGAGCAGCATAACAAgtatgttataggttattttggtctaaattttttgcattcacttataattcattc-tttactactgcattttatctcttgttgcctgctatgtcctatgaat--

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgt-ttgtgattatcggtttgttt----caaaatatatat-tgactttttcttttctaatttatc-tctgcttttagacccattttctattttgttgaagacaggtta
||||||| | |||||||||||||||||| ||||| |||||||| || ||  | | |||||   |||||||| | |  || ||  | | ||| || |||||||  ||  |||    || |  |     |||| ||  | | ||| |||     |    || | || || | || ||| |  ||||  ||  ||| |  |         
TACTTCTCAATTTGATTGAGTACAAGACACTTGTAATGCGTGGAGACTTTCAACGTGCAAGTGAAATTTTACCTTTGATTCCTCAAGAGCACTACAATAGgtactgaaattcatagtatactgacagcaaagtaattgtgtgaatttgatggtgtagatgtgtcctcaggttgtagtctgatttgatagcttgctagatt-------

upper sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 17

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgattatcggt--ttgtttcaaaatatatattgactttttcttttctaatt-tatctctgcttttagacccattttctattttgttgaagacaggtta
||||||| |||||||||||||||||||| |||||||||||||| ||  |||| |  || ||  || ||||| | || || || || |  ||  |||||||||   |   ||  | |   ||||   ||| |    |  | |           | ||  |     |  ||| || |   ||  | |||||| |   |     ||
TACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCCAAAGAACATCATAATAGgtaaatttctactgttggctgttggtaaacaacagtaaaataagaggcaaacacttacaatgtagtatttggatc---ttcatgttttgtggggaattttgta

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|9952611|gb|BE639299.1|BE639299

EST:     GATCATGCAAACAAAATTTTATCATCCATACCTAAGGCGCAATATAATAG                         TGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGAT
genomic: GATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgatt ... catatggcagTGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGAT

EST: gi|67024352|gb|CO453101.1|CO453101

EST:     GATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAG                         TGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGAT
genomic: GATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgatt ... catatggcagTGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGAT

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: 46 (upstream exon), 49 (downstream exon)
Score: 83

TACTTCTGAGTTTGATTGAGTACAAGACCCTTGTGATGCGTGGGGATTTGGATCATGCAAACAAAATTTTATCATCCATACCAAAGGCGCAATATAATAGgtttgtgatt ... catatggcagTGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGATAGCCACTGATGCTGACTACAAGTTTGACCTAGCTGTGCAGCTTGGAAAA

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 41

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 69