ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag

Basic information

species	Zea mays
transcript	GRMZM2G095593_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
 ||||| ||||||||| | |||||||||||||| ||||||||||||||||||||||||||||| || ||||||||||| || || || ||||| |||||||| |||| || || ||||     ||   |   ||   ||||| ||||| ||  | |    ||||||||   ||||      ||||            | || |   ||||| |||     ||   ||| |   || | |  |  |  ||  |   ||  || ||| |||||| |  ||||  |||||
TTTGACCCATCCTGAGCTATATGAAGACATTGGCATCAGGCCACCCAAGGGAGTCATATTATACGGAGAACCTGGAACAGGGAAGACACTACTTGCCAAGgttagtgttctggtttgcg----tattgggagtc---aatatagctta-tggcagtaatgcaggcttcagccctc-----catttatg---------gcttgtaataattaagcaaagcattgcactatttgtcattctgtacctctcagttctctgaccactgattacttgca-ttgttgttgcag

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G19280.1 (Glycine max), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
| |||| ||||||||  | |||||||||||||| |||| ||| || ||||| ||||| |||||||| |||||||||||||| || ||  | || || |||||  ||| | |   ||            | |   | ||    || ||  |  ||  |  |||   |    |  | | |    ||  | |||| |  |||||     | ||| | | | |||        |||  ||  |     |    |||| |  |                             
CCTGACGCATCCTGAACTATATGAAGACATTGGTATCAAGCCTCCTAAGGGGGTCATTTTATATGGAGAACCTGGAACTGGGAAGACATTGCTTGCGAAGgtttgtgtttatctttt-----------gcttcttctagagctgttt--taatagagtttcaacatctcctttttactatctttatcttttggcagtgttt---caatttaaggagtgtttcagc---atcttaagactatgccttttgtgtattcag-----------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
| |||| ||||||||  | |||||||||||||| |||| ||| || ||||| ||||| |||||||| |||||||| ||||| || ||  | || || |||||  |   | |   ||||            |   | ||    || ||  |  ||  |  ||||  |    |  | | |    ||  | || | |  |||||   ||| ||| | | | ||         |||  ||        |    |||| |  |                             
CCTGACACATCCTGAACTATATGAAGACATTGGTATCAAGCCTCCTAAGGGGGTCATTTTATATGGAGAACCTGGTACTGGGAAGACCTTGCTTGCGAAGgtttgcatttatctttgc------------ttcttctagagctgttt--taatagagtttcagcatctcctttttactacctttatctttaggcagtgttt---tgatttaaggagtgttccagc---atcttaagacaatgccttttgtgtattcag-----------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA19G35510.1 (Glycine max), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
| |||| ||||||||  |||||||||||||||| |||| ||| || ||||||||||| ||||| ||||||||||||||||| || ||  | || || |||||  |   |              |    | | |||   |||| |     ||  ||    ||  |    | |  | | |  |  ||  || ||| ||   | |  || | | || | |                                                                      
CCTGACGCATCCTGAACTGTATGAAGACATTGGTATCAAGCCTCCTAAGGGAGTCATTTTATACGGCGAACCTGGAACTGGGAAGACGTTGCTAGCTAAGgtgtgcattt-------------tttggggtttctt--atatggggcgatggaatataatcctgacatgttttttattcctcattttctctgtttaa--taacatggagtttgaaat----------------------------------------------------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA03G32800.1 (Glycine max), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgttta-tctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
| |||| ||||||||  |||||||||||||||| |||| ||| || |||||||| || |||||||| ||||| |||||||| || ||  | || || |||||  |   |              |    | | |||   ||  || | |    ||||   |||   |   ||  ||     |||||  | || |||||||||| |  ||| | || |||  |||                                                                 
CCTGACACATCCTGAACTGTATGAAGACATTGGTATCAAGCCTCCTAAGGGAGTTATTTTATATGGGGAACCAGGAACTGGGAAGACATTGCTTGCAAAGgtgtgcattt-------------tttggggtttcttatatggtgttgaaatatatta--tcaacat---attttc-----tatttctcattttctatgtttaatacgaagtttgaatttcttt-----------------------------------------------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcag--gcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
 |||||||||||||||||||||||||| ||||| || |  ||||| ||||| || || || ||||| || ||||||||||| || ||  | || || |||||  ||  |    | |  || |  |  || |||  ||  |  |    ||| |   |  ||      |||   |  ||||| | |||    |     | |||                                                                                        
TTTGACTCATCCTGAGTTGTATGAAGATATTGGTATTAAACCACCAAAGGGTGTAATTTTGTATGGTGAGCCTGGAACTGGGAAGACATTGCTTGCTAAGgtttgtctttgtacctagaatctaatgag-tattagtgtttgtttgcagtatagcttagtttactacttaacttgtcaattacattcagttaatcgtttgt----------------------------------------------------------------------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S4_277V6.1 (Physcomitrella patens), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgc-tcaggctt---gcaagcatacaagatatctgtaatattgcttagtgt-tattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
 ||||| ||||| ||| |||||||||||||||| |||| ||| ||||||||||| || || ||||| ||||| || ||||| |||||||| || || ||||| | | | |  |||     |  ||   |    ||   ||   |  | | | || | | |   |  | | |  | |   | |  |   |  |||||||                                                                                              
GTTGACACATCCGGAGCTGTATGAAGACATTGGTATCAAGCCCCCCAAGGGAGTTATTTTGTATGGTGAACCCGGCACTGGGAAAACTCTTCTTGCTAAGgtaaatacgtttggcaaagggtgagatcatgtaattcttgacttgctaccttgtctctgtacagagaagttctgctttgctaacaaggtgacctttgttg--------------------------------------------------------------------------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ32659 (Selaginella moellendorffii), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
  | || ||||| ||| |||| || |||||||| ||||  || ||||||||||| ||| | |||||||||||||||||||| ||||| || || || ||||| | || | |    |   |   | | |    |  |||||  |   |||  ||  |    |||                                                                                                                            
ACTTACGCATCCGGAGCTGTACGAGGACATTGGAATCAAACCTCCCAAGGGAGTGATACTTTATGGCGAACCTGGAACTGGCAAAACGCTCCTGGCAAAGgtaaatg-tgacatctttgaaggtgctac---ttcgtaat--taactagctttggttctacag----------------------------------------------------------------------------------------------------------------------------

upper sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ20767 (Selaginella moellendorffii), 5'ss of exon 2

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctcaggcttgcaagcatacaagatatctgtaatattgcttagtgttattgggtcaggcttcgatcctcaatgatatttgcctttgtctatgtttatctgaattatgcattatttttttctactctccagttttcaaatagcatgtacttgggcagtgactacttgaaactgtttctgcag
  | || ||||| ||| |||| || |||||||| ||||  || ||||||||||| ||| | |||||||||||||||||||| ||||| || || || ||||| ||||      |||  |||           |   |||      || ||  ||  |                                                                                                                                  
ACTTACGCATCCAGAGCTGTACGAGGACATTGGAATCAAACCTCCCAAGGGAGTGATACTTTATGGCGAACCTGGAACTGGCAAAACGCTCCTGGCAAAGgtaagtgtgacatcttttaaggtgctgcttcgtaactaactagctttggttctacag----------------------------------------------------------------------------------------------------------------------------------

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|211042217|gb|FL387609.1|FL387609

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         SCTGTTGCCAATTCAACATCTGCSACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|32938600|gb|CF043419.1|CF043419

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|116816022|gb|EC858722.1|EC858722

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|37419302|gb|CF647331.1|CF647331

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|19272515|gb|BM888771.1|BM888771

EST:     AGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCATACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: AGTCATATTATATGGCGAACCTGGAACTGGAAAAACTC-TACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|32941761|gb|CF046580.1|CF046580

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|32836748|gb|CD976426.1|CD976426

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

EST: gi|78119973|gb|DV538357.1|DV538357

EST:     GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAG                         GCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA
genomic: GAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAA

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), 48 (downstream exon)
Score: 492

CTTGACTCATCCTGAGTTGTATGAAGACATTGGGATCAGGCCACCCAAGGGAGTCATATTATATGGCGAACCTGGAACTGGAAAAACTCTACTCGCCAAGgtcagtgctc ... gtttctgcagGCTGTTGCCAATTCAACATCTGCGACTTTCTTGCGTGTTGTCGGTAGTGAACTTATTCAAAAGTACCTTGGGGATGGTCCCAAGCTAGTCAGAGAATTGT

Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 456

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 478