ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatccatgctgcgtgtgcag

Basic information

species	Zea mays
transcript	GRMZM5G804382_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 28

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatc-catgctgcgtgtgcag
||| ||||| ||||| || ||| |||||||  ||||||| |||||||||||||| ||||||||||||||| |||||||||| ||||| || ||||| |||||| |||  ||| || ||| | |   ||   | ||  |||| ||| | ||| | ||   ||||   | |||| | |||||||
TTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCATTCCCCTATCTGTTACAGgtatcttgtttccgttcatgtgtt-tgggactattcatttacgtacagttttccataacaacaaagcttgcttcatgtgcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 28

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatc-catgctgcgtgtgcag
||| ||||| ||||| || ||| |||||||  ||||||| |||||||||||||| ||||||||||||||| |||||||||| ||||| || ||||| |||||| |||  ||| || ||| | |   ||   | ||  |||| | | | ||| | ||   ||||   | |||| |||||||||
TTGTCTCTTTATTTGTTATGACTTGATCCGTGCGGATGTTGCTCTTGAGCTTGCATGGATGAACAACATGGTGGACTTTGCATTCCCCTATCTGTTACAGgtatcttgtttccgttcatgtgtt-tgggactattcatttacgaacagttttccataacaacaaagcttgcttcgtgtgcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 27

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgt--aacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatc--catgctgcgt-gtgcag--------------------------------
 || || ||  ||||||| ||  |||||||| | ||  | ||||||||| | || ||||||||||| ||| | ||||||||||||||||| ||  |||||||     || ||||||| | |   |  |  |  |  ||    ||  ||       ||||      ||  |||| |  || ||||                                  
GTGTCTATTTGTTTGCTATGATTTGATCCGGGCAGACATTGCTCTTGAGTTGGCCTGGATGAACAATATGATTGACTTTGCCTTCCCATATCTCCTGCAGgtttgtattccttctgtgc-tgcttacctttattacttaaacatacatcgacatgtatgtctttttcatcatgttatgtagtgcgttctttcactatcttcttttttcgctgttgtag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 28

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatccatgctgcgtgtgcag-----------------------------------------------------------------------------------
|||||||||| | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||||||||| || ||||||  ||    |      | |||     | ||||    |   |   ||    | | |  || |  |       |  ||                                                                                      
TTGCCTCTTCGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatattttcccctggggtttcttttttttatgtgaaatggggctaaaagcccaaggaaaagagactaaacaggaatgacacgaggggtttctttcgctatatgtattactggatgatttttcttccttttattgataaccattttttaatatttcccccctag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 28

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgta---acttacttctgtccatatctgac----ggtgatgtttgtttatgtataatttactatggtaacatccatgctgcgtgtgcag
 ||||||||  | || || ||  | ||  |||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| || ||||| || |||||||||   | ||  || ||   |||| |  |    | |||  | | ||  | | |   | |  ||  | | ||  ||  |  || || ||
ATGCCTCTTTGTCTGTTATGATATTATATGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTTCCATATCTCTTGCAGgtatggatttgtttgtggttatatttatcaacagatgaaatatattctttttttgctaaacattttgaaatttat-ttttgtttgaag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 26

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatccatgctgcgtgtgcag--------------
|||||||||  | || || ||  | || ||||| ||||| ||||||||||| || ||||||||||| ||| | || ||||| ||||||||||| || ||||||  ||  | |  |     |  |      || ||| ||  || || ||||    |  |   |   ||  |   | |  |               
TTGCCTCTTTGTCTGTTATGATATAATACGGCCAGATGTTGCTCTTGAGCTAGCTTGGATGAACAATATGATTGATTTTGCTTTCCCATACCTCTTACAGgtatatt-ttccactggggtttcgttcactatatttattactggatgatttttcttccttttaatgataatcattttttaatatttcccccctag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 28

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtccatatctgacggtgatgtttgtttatgtataatttactatggtaacatccatgctgcgtgtgcag----------------------
|||||||||  | ||||||||| | || || || ||  | |||||||| ||||| ||||| ||||| ||| | ||||||||||| ||||| ||||||||||| |  |  ||   ||      || |  |    | | || | | ||  ||||  | || ||    | |||  | |   |||                      
TTGCCTCTTTGTGTGCTACGACTTAATTCGTCCAGACATTGCTCTTGAACTTGCCTGGATTAACAATATGGTTGACTTTGCCTTGCCATATCTGTTGCAGgtgatctgtttgcttcttcccttgtcattctcatatatt-aggaat--tttaggagggaaattagcttgcgactttcccagcctgtgggccttttttagagct

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 28

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttacttctgtc---catatctgacggtgatgtttgtttatgtataatttactatggtaac-atccatgctgcgtgtgcag
 ||||||||  | || |||||  | || ||||| || || |  ||||||||||| ||||||||||| ||| | ||||||||||||||||| || || |||||||  || || | ||   | | |   |    | | |    |  | |  | |||         ||  | |||  |   |    ||
ATGCCTCTTTGTCTGTTACGATTTAATTCGGCCAGACGTTGTCCTTGAGCTTGCATGGATGAACAATATGATCGACTTTGCCTTCCCATATCTCTTACAGgtaaactatttgtttcacccttgttctatttggctttcaaatcgtcttcattttctctcaaccactgttcat-tttttttcatag

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|211137943|gb|FL090180.1|FL090180

EST:     CCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: CCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|33093317|gb|CF053311.1|CF053311

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|166573060|gb|EG189009.1|EG189009

EST:     ATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: ATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|32945927|gb|CF050746.1|CF050746

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|24934286|gb|CA452504.1|CA452504

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|60355880|gb|DN222853.1|DN222853

EST:     TGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|32846561|gb|CD986242.1|CD986242

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|32846264|gb|CD985945.1|CD985945

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|32847239|gb|CD986920.1|CD986920

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

EST: gi|71765800|gb|DR963737.1|DR963737

EST:     TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAG                         TTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT
genomic: TTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATT

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), 49 (downstream exon)
Score: 656

TTGCCTCTTCATTTGCTACGACCTGATCCGGCCGGATGTCGCTCTTGAGCTTGCGTGGATGAACAACATGTTGGACTTTGCCTTCCCATACCTGTTGCAGgtaacttact ... gcgtgtgcagTTCATCCGTGAATACACTAGCAAGGTGGATGATTTAGTGAAGGACAGAATTGAGTCACAGAATGAAGAAAGAGTCAAAGAGAAGGAGGAGAAAGATCTTG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 530

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 641