ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattcacttggccatgtagccacagatgtaagccctgaaactagtgctgtggtagggaaca...

Basic information

species	Zea mays
transcript	GRMZM2G421857_T03
intron #	11
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 11

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttac-cttgat--att----cacttggccatg-tagccacagatgtaagccctgaaactagtgctgtggtagggaaca-----------
                |||  |   ||||| ||||| |||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||| || |||||     | || | | ||||  |||    || |  |||||  |||   | ||| |       |         || ||  |   |  |           
----------------ACAGAG---GATGGACGTGAAGAGTCTGTGATGAAGAGAACAACACTGGTGGCTAACACATCCAACATGCCTGTCGCTGCTCGTGAAGCTTCCATTTATACAGgtaatggtgtattgctcctgattgattgctacattaagccataatagtgtctgatatccatatagtgtgccccactttgtcatatagtagttgttttgtt

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattc--acttggccatgtagccac-agatgtaagccctg--aaactagtgctgtggtagggaaca--------------
                   || |||||||| ||||| || |||||||||||| | |||||||| ||||||||||| ||||||||||| || ||||||||||||||||| ||||| || ||| |     | |  | |  ||  |   |  |  | || ||      |||  |||    |   ||     | || | |        |              
-------------------TTACCTGATGGTCGTGAAGAATCTGTCATGAAGCGTACAACACTAGTGGCTAACACTTCAAACATGCCAGTGGCTGCTCGTGAAGCTTCAATTTATACAGgtgactttgtatctcttgaattctaggatatctctatttattgttgagaaataatatttactaactctttcctattgccaattgtaatttaattggcttg

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttac-cttgatattcacttggccatg--tagccacagatgtaagccctgaaactagtgctgtggtagggaaca------------------
                   || |||||||| ||||| || |||||||||||| | |||||||| ||||||||||| ||||||||||| || ||||||||||||||||| ||||| || ||| |  |  |||  | |||||  |  | ||    ||   ||   |   || |   |        | ||  |||     | ||                    
-------------------TTACCTGATGGTCGTGAAGAATCTGTCATGAAGCGCACAACACTAGTGGCTAACACTTCAAACATGCCAGTGGCTGCTCGTGAAGCTTCAATTTATACAGgtga--ctttgtagctcttgaattctatttatttattgttaagaattaatatttactaattctttcgtattgtcaactgtaatttatttggcttgtgaaagt

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttac-----cttgatattcacttggccatgtagccacagatgtaagccctgaaactagtgctgtggtagggaaca---
                   |||||||||||||||||||| |||||||||||  | || ||||| || |||||||| || ||||||||||| |||||||||||||| || |||||||| |||||    | |  ||      || ||| | | |     ||       |  |||       |     |  |  | |  |  | |      
-------------------TTGCCTGATGGCCGTGAGGAATCTGTCATGAAACGTACCACACTTGTTGCTAACACCTCTAACATGCCTGTGGCTGCTCGTGAAGCCTCAATTTACACAGgtaatgttcaggcacacagatttaatagttattgatgaatcccattgcctatgctcattttttttttttttttttaatgtgaattccag

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctg-------ttaccttgatattcacttggccatgtagccacagatgtaagccctgaaact-agtgctgtggtagggaaca-------------
                    ||||||||||  | || || ||||||||||||||||| || || || |||||||| || ||||||||||| |||||  | || ||||| ||||| || |||||  |  ||       ||   ||| |||  | | ||  ||        |  ||||    ||     | | |  | |  |||||   |             
-------------------CTGCCTGATGGGAGAGAAGAATCTGTCATGAAGAGAACTACGCTCGTAGCTAACACTTCTAACATGCCTGTGGCTGCAAGGGAGGCTTCAATTTATACAGgtaatgctttgatcttcattgttttgttatgaattggg--attcttttgtatgtgtagtttctacccttcatttttttcatagggctaaactttgtttgagc

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattcacttggccatg---tagccacagatgtaagccctgaaactagtgctg---tggtagggaaca-------------
                    |||||||||||||||| || |||||||||||| |||| ||||| ||||| ||||| ||||| |||||||| ||||||||||| ||||| ||||| || ||||||    | |     |  |  | ||| |  ||||   | ||         ||    ||||   | |  |    |  |      ||             
-------------------CTGCCTGATGGCCGTGAAGAATCTGTCATGAAGCGAACTACACTTGTGGCCAACACTTCAAATATGCCTGTGGCTGCTCGTGAGGCTTCAATTTATACAGgtaaatatatttacttctattcattactagcacatgaaatggctgggtgaaaaaattttgaagtcaatattagcttcatcttttgcaattcttgtgtgtt

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgtta-----ccttgatattcacttggccat----gtagccacagatgtaagccctgaaactagtgctgtggtagggaaca-----------------------------------------------------------------
                   || || || || || |||||||| ||||||||| | || || || ||||| |||||||||||||||||||| |||||||||||||| || ||||| || |||     ||| ||      |  | |  || |  ||  |||    |  ||  |  || ||     |    | |  | | |  | |    |                                                                  
-------------------TTACCCGACGGTCGGGAGGAGTCCGTCATGAAGCGTACTACGCTTGTGGCCAACACATCAAACATGCCTGTGGCTGCTCGTGAAGCATCTATTTATACAGgtttcctcctttttattctctctaaagtttaagtgttcattgctgcggcacctcatctagataatttctcaaacgttttcatcgcttccttggaattttcgcatataattgcgtcctttctacatttgctctgaagattctgttttctgttgcag

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattcacttggccatgtagccacagatgtaagccctgaaactagtgctgtggtagggaaca------------------------------
                   |||||||| || || ||||||||||| |||||| | || || || ||||| || |||||||| |||||||| |||||||||||||||||||| || || |||    || | ||   ||  | |  |  |   | | |   | || |||| | || | ||  | |   | | | |||                                   
-------------------TTGCCTGACGGACGAGAGGAGTCTGTTATGAAGCGGACCACTCTCGTGGCCAATACATCAAATATGCCTGTGGCTGCTCGTGAAGCTTCCATCTATACAGgttc--ccatcttgagttattctgaagcttaacttttgatcgca-atgtga-ccttaaagtttgaaatcttgaaggattttacgttcatcacattttgttatctgttgcag

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattcacttggccatgtagccacagatgtaagccctgaaactagtgctgtggtagggaaca----------------------------------------------------------
                   || |||||||| ||||| |||||||| |||||| | || || || ||||| ||||| |||||||||||||| |||||||||||||| || || ||||| ||| |    || ||    ||| | ||   |  | | || ||   |  || || |  |  | |   |   |  ||  | ||                                                            
-------------------TTACCTGATGGTCGTGAAGAGTCTGTTATGAAGCGTACCACTCTCGTGGCCAACACCTCAAACATGCCTGTGGCTGCTCGTGAAGCATCTATCTACACAGgttattttcttttcttctgagactctactttctaggt-gctgta--tgaaaccatttcatcctctttggatgtttgaaatgctatcctgtatgatcgcatacttccgcatcattatgcaaatgctgtttcctgttgcag

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: EFJ30330 (Selaginella moellendorffii), 5'ss of exon 12

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattcacttggccatgtagccacagatgtaagccctgaaactagtgctgtggtagggaaca
                    | |||||||| || || ||||||||||||||| | ||||| || || ||||| || ||||| |||||||| || || || |||||||| |||||||| ||||   || |   |  || |   |||   |   || |   |   | | | ||                             
-------------------CTCCCTGATGGACGCGAAGAGTCTGTCATGAAGCGTACAACTCTCGTCGCTAATACTTCAAATATGCCTGTGGCGGCACGAGAAGCTTCAATTTACACGGgtatgtccttccaa--ttcaggctcaac-gctgattttatcgatggtttcag-----------------------------

upper sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 11
lower sequence: EFJ33015 (Selaginella moellendorffii), 5'ss of exon 11

TCCCCAGTTGACGATGACATTGCCTGATGGCCGTGAGGAGTCTGTCATGAAGAGAACAACACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttccatttacactggtaaaaccctgttaccttgatattcacttggccatgtagccacagatgtaagccctgaaactagtgctgtggtagggaaca
                    | |||||||| || || ||||||||||||||| | ||||| || || ||||| || ||||| |||||||| || || || |||||||| |||||||| ||||   || |   |  || |   |||   |   || |   |   | | | ||                             
-------------------CTTCCTGATGGACGCGAAGAGTCTGTCATGAAGCGTACAACTCTCGTCGCTAATACTTCAAATATGCCTGTGGCGGCACGAGAAGCTTCAATTTACACGGgtatgtccttccaa--ttcaggctcagc-gctgattttatcgatggtttcag-----------------------------

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|4609925|gb|AI600764.1|AI600764

EST:     ACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGT                         AAAGCATCGGTTGGGGGATCTATTTTATCGCCTAGT
genomic: ACTGGTGGCTAACACATCAAACATGCCTGTCGCTGCTCGTgaagcttcca ... acagtgtcatAAAGCATCGGTTGGGGGATCTATTTTATCGCCTAGT

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns