ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGGCAGTCTAGACTCCATCGAGATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtccgtccgaccctcacccccacaggcccgctccgctccgcgtccttatcatttctcactctgacggcgccgcgctcgggcggaaaacggaacacgcag

Basic information

species	Zea mays
transcript	GRMZM2G464137_T01
intron #	1
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G464137_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os04g57400.1 (Oryza sativa), 5'ss of exon 1

TGGCAGTCTAGACTCCATCGAGATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtccgtccgaccctcacccccacaggcccgc-tccgctccgcgtccttatcatttctcactctgacggcgccgcgctcgggcggaaaacggaacacgcag
 ||||| || ||| || ||   |||||||||||||||||||||||||||||||||||||||||||| |  ||||| |||||| || ||||| |||||||||||| | ||  |||  | | | || || | | | | | |   | |  | ||  | ||  |||   | |||||| ||| ||  ||  |                   
CGGCAGCCTCGACGCCCTCACCATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTCCTCTCCGACGCCGGCTCCGTCGTCATCAAGCAGgtccctatc--tcctccacgcgccgccgccgccacacatgtacgcatcttctctctccgttcctccgctgacgacgctgcaatccag-------------------

upper sequence: GRMZM2G464137_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os04g57410.1 (Oryza sativa), 5'ss of exon 1

TGGCAGTCTAGACTCCATCGAGATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtccgtccgaccctcacccccacaggcccgctccgctccgcgtccttatcatttctcactctgacggcgccgcgctcgggcggaaaacggaaca-cgcag
 ||| | || ||| || ||   |||||||||||||||||||||||||||||||||||||||||||| |  ||||| |||||| || ||||| |||||||||||| | ||  |||  | | | || |||| | | | | | ||  | | |       | | | || |||   | | |||  ||   || ||  |||   ||   |||
CGGCCGCCTCGACGCCCTCACCATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTCCTCTCCGACGCCGGCTCCCTCGTCATCAAGCAGgtccctatc--tcctccacgcgccgccaccgtcgc-cgctgccacacatgt-----agtacgca-tcttctgtctccgttctttcgctgacgacgctgcaatccag

upper sequence: GRMZM2G464137_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv03s0091g00100.t01 (Vitis vinifera), 5'ss of exon 1

TGGCAGTCTAGACTCCATCGAGATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtccgtccgaccctcacccccacaggcccgctccgctccgcgtccttatcatttctcactctgacggcgccgcgctcgggcggaaaacggaacacgcag---------
   |   ||  |     |  ||||||| || || ||||||||||| ||||||||||||||| ||||    ||    |||||| || ||||| |||| ||||| |   |  ||           |   |  |  || | |  ||  |  | ||||      || |     |    ||  | ||  ||  |||   | |  |              
AAACCAGCTCCATGGATTGCAGATCAAAGAAGTGGGCGACGGCAATCTCAACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaatttgtat--------tcattagggaacctcacaactttggattctta------ctgaacaaaaaatggcttcactgtggaagaatttgaagtatttgtgaaggtttg

upper sequence: GRMZM2G464137_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv03s0091g00080.t01 (Vitis vinifera), 5'ss of exon 1

TGGCAGTCTAGACTCCATCGAGATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtccg---tccgaccctcacccccacaggcccgctccgctccgcgtccttatcatttctcactctgacggcgccgcgctcgggcggaaaacggaacacgcag----------------------------------
   |   || ||     |  ||||||| || || ||||||||||| ||||||||||||||||||||    |||      ||  || ||||| |||| ||||| |   |      ||  | |  |||| |   |   | | | |   | |       ||   ||| |  |   |         |  |  | | |     |  ||    |                                  
AAACCAGCTCGATGGATTGCAGATCAAAGAAGTGGGCGACGGCAATCTCAACTTCGTCTACATCGTCATCTCCTCCAGTGGATCCTTCGTCATCAAACAGgtacaaattttgattcataacggcacctcacaaattcagattcttactgaaaaaaaatggcttcactgtggaagaattttaagtgcttgtgaaggttaggtcaaagtgactgttgtaagatgtggttgtgttgagagtgcag

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|71434110|gb|DR815160.1|DR815160

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211324518|gb|FL444687.1|FL444687

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|148938203|gb|EC882488.2|EC882488

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211069545|gb|FL430482.1|FL430482

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGTCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211389954|gb|FL389300.1|FL389300

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|33467760|gb|CF244809.1|CF244809

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211287508|gb|FL131006.1|FL131006

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211360721|gb|FL281390.1|FL281390

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211324519|gb|FL444688.1|FL444688

EST:     TCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: TCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|149088267|gb|EE177361.2|EE177361

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|71316027|gb|DR794702.1|DR794702

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211002966|gb|FL389814.1|FL389814

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|148966133|gb|EE017076.2|EE017076

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|32919917|gb|CF024729.1|CF024729

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211132121|gb|FL407422.1|FL407422

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211360725|gb|FL281394.1|FL281394

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

EST: gi|211072092|gb|FL423941.1|FL423941

EST:     ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAG                         GCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAN
genomic: ACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAG

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: 181

TGGCAGTCTAGACTCCATCGAGATCAAGGAGGTCGGCGACGGCAACCTCAACTTCGTCTACATCGTGCAGTCCGAGGCCGGCGCCATCGTCGTCAAGCAGgtccgtgtcc ... gaacacgcagGCGCTCCCGTACGTGCGCTGCGTGGGGGACTCGTGGCCCATGACGCGGGAGCGCGCCTACTTCGAGGCCTCCACGCTGCGGGAGCACGGCCGCCTGTGCC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 525

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 360