ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag

Basic information

species	Zea mays
transcript	GRMZM2G427097_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 5'ss of exon 4

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagc--aagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
|||||||| |||||  ||||||||||||||||||| |||||||| || || ||||| |||||||||||||||||||||||| | |  ||    || |  || |  | || |||  |||||   |||  |   |||   ||   |      | || |      |||                                      
ACCATGGCTTGGATTTTGGATGAGTACTCGAAATTCCATGGTCATTCACCGGCAGTTGTCACTGGGAAGCCAATAGTAAgt-atactatacaacaacacaaatctagtttgtgtaaataacaatttacatccagtg--attgtattttgnatatttttgttgtag--------------------------------------

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G05460.1 (Glycine max), 5'ss of exon 4

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataata-taacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
|||||||||||||| || |||||||| || || |||||||| || || || ||||| || || |||||||| || |||||| |  ||||        | | | ||  |    ||| |   | | ||     |||||  | | |     ||| |||     |  ||| || || |                            
ACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATTgtaagt-atcaaatacacacatacgcttaagagactgcaaaatcttctgttgatgtgtatatcaatgattaggaaattgtctttgaatgtttttttcctgcag------------------------

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT5G07440.1 (Arabidopsis thaliana), 5'ss of exon 3

-------------------------ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaact----tttttacaaagtataatataacagaaaaaatgtacacaatagttat-tatcatttttactcttttttgtttgttgttgtag----------------------------
                         |||||||| ||||| || ||||||||||| || ||||||||||| ||||| || || |||||||| ||||| || |||||      ||  |    |  |  | | |  | | |   || ||    ||| | | | | ||  | |         |||  |  | ||  || | | | |||   |   ||||  | || ||| | |||                            
TCCTGATATGGGCACTAACGCTCAAACCATGGCTTGGATTCTTGATGAGTACTCCAAGTTTCATGGTCATTCCCCTGCTGTTGTCACTGGAAAGCCCATTgtaaggcttttaagattttggttatatcattctgagtccggaatctgttgtttattctatggatgttttcttgatttgaattaattcgatgtttctatgtgattaccatagttttgagctttttggtatagaagtaactgttggatcactttggtgtag

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv16s0039g02720.t01 (Vitis vinifera), 5'ss of exon 4

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaatgtaca--caatagttattatcatttttactcttttttgtttgttgttgtag
|| |||||||||||  | || |||||||| ||||| ||||||||||| || || || || ||||| |||||||||||||||    |  || | ||  ||    |     |   | | |  ||| |   ||  | | |  |     ||  ||| |  |     |  || || |  | |   ||| |||   ||||   || |||
ACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATAgtaagt----atttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagttgagaaacgaatttgtaactgttgtttcttgttctgtggcctcatttacatttgggcttttag

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv00s1491g00010.t01 (Vitis vinifera), 5'ss of exon 2

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatat--aacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
|| ||||||||||| |||||||| ||||| || |||||||| || || || ||||| || || || |||||||| ||||||   ||   | |  || ||   |   ||||  ||||| ||||       |||   ||| |  | |  ||  | | | ||   |||                                      
ACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATTgtaagtatcaaggagggagaggaaaccag--tggt--caatatacttcgaattgaaggccaatgtccacccaaattattctgcattttag--------------------------------------

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv16s0039g02750.t01 (Vitis vinifera), 5'ss of exon 4

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaa---tgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
|| |||||||||||  |||| |||||||| ||||| ||||||||||| || || || || ||||| |||||||||||||||    |  || | ||  ||    |     |   | | |  ||| |   ||  | | |  |     || |||   ||||     |  || || |  |||  |||| |||   ||||   || |||
ACTATGGCATGGATTTTGGACGAGTACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagt----atttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttag

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ06181 (Selaginella moellendorffii), 5'ss of exon 4

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaag-tgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
|||||||| ||||| |||||||||||||| || ||||||||  |||| |||||||| |||||||| |||||| | ||||| |       | |       | || | |||    |    |   ||||| |     |                                                                   
ACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTgtaagcttgtttttttttatgatcatttgatttgtcctctgatattgtttttgcttctcag------------------------------------------------------------------

upper sequence: GRMZM2G427097_T01 (Zea mays), 5'ss of exon 4
lower sequence: EFJ36430 (Selaginella moellendorffii), 5'ss of exon 4

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaaaaatgtggcagcaagttaaattggtgccaataaacttttttacaaagtataatataacagaaaaaatgtacacaatagttattatcatttttactcttttttgtttgttgttgtag
|||||||| ||||| |||||||||||||| || ||||||||  |||| |||||||| |||||||| |||||| | |||||        | |  | |    ||  ||| || ||  | |  || |||         |                                                                 
ACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTgtaagcttgtttttctttctgattatttgatttgt-cctctgatattgtttttgcttctcag----------------------------------------------------------------

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|211213482|gb|FL339715.1|FL339715

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|211012376|gb|FL318441.1|FL318441

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|18655199|gb|BM500004.1|BM500004

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|60395163|gb|DN228032.1|DN228032

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|71772013|gb|DR969950.1|DR969950

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|18963184|gb|BM660288.1|BM660288

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|211264916|gb|FL208732.1|FL208732

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|18383747|gb|BM416947.1|BM416947

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGACGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|18655200|gb|BM500005.1|BM500005

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|18383740|gb|BM416940.1|BM416940

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|18655120|gb|BM499925.1|BM499925

EST:     ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: ACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

EST: gi|87152706|gb|DY397495.1|DY397495

EST:     CACTGGGAAGCCAATA                         GATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG
genomic: CACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATG

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), 46 (downstream exon)
Score: 88

ACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAgtaagtgaaa ... gttgttgtagGATCTTGGCGGATCACTGGGCAGGGATGCAGCAACAGGGCGAGGCGTAATGTATGCTACCGAGGCCCTACTCGCTGAATATGGAAAATGCATTTCTGGAT

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 535

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 501