ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctctttgctgatttaattattgtcttgcttcttattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt...

Basic information

species	Zea mays
transcript	GRMZM5G868433_T04
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 5'ss of exon 4

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctctttgctg-atttaa--ttattgtcttgcttct---tattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatac-tgtgacctgtt
|| || ||||| |||||| |||| |||||||| || |||||||||||||| |||||||||||||| ||||||||||||||||||  |  | |   |  |||  |   || | | ||   | |    |   |  ||   ||||   | ||| |||  |  ||       |  | |  |||||      
ATCTTTAATGGAGTGTTCTTGAAGGTCAACAAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctaccataattacattcgagcctaatatattatatatatgcaccatcttgctattttattttgaattac-catctgttgttttactagaaatgtga------

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 5'ss of exon 5

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctctttgctgatttaattattgtcttgcttct-tattttggtgtatttttcactcgaagtacgtagttgaaaagagatcat--actgtgacctgtt---
|| |||||||| || ||||| || || |||||||| |||||||||||||| |||||||||||||| |||||||||||||||||  || ||  |     ||||  |  |||  || || | ||||| | |||  |  | | |    |   ||    ||   |  ||| |  |  |  |  | |    
ATCTTCAATGGTGTCTTCCTCAAGGTTAACAAGGCAACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtatgttatcaat-----tttagctgctgttctgtttatatatttagctgtgctaattattgcttgc-tgttacagacttgtaatcctccatcgcaaattatcaat

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT2G01250.1 (Arabidopsis thaliana), 5'ss of exon 5

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctctttgctgatttaattattgtcttgcttcttattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt------
|| |||||||| || ||||| ||||||||||||||||| || |||||||||||| | |||||||| |||||  | || |||||   | | | | |   | | ||  |       |   ||| | || ||    | | |    |     ||  ||||| || |    |  | |   |||||      
ATTTTCAATGGTGTTTTCCTTAAAGTCAACAAGGCTACGATGAACATGCTTCGCCGTGTTGAGCCCTATGTCACTTACGGgta---tgtatatac-actctcatcctaa----accctttaatctgatg---ctatgagataacaagagtc-ttgaagagtgtgacttttctcttctgtttttcag

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatt-tctctttgctgatttaattattgtcttgcttcttattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt
|| |||||||| |||||| |||| ||||||||||| |||||||||||||||||| | ||||| || |||||  | ||||||||    |||   |||| |  |    |   | |   |||||||||      |||  | | | | |||   |        |    || |  | |   | |  
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtggtagt--cttaccatggacgactcttgttttcctcag--

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv11s0052g00290.t01 (Vitis vinifera), 5'ss of exon 5

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctct--ttgctgatttaattattgtcttgcttcttattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt
||||| ||||| || || |||||||| |||||||| || || || ||||| | ||||||||||||||||||  |||| |||||  |  |||   |||  | || || |   ||  |  || ||| |     |    |    |  |   |  || |  | |     |||              
ATATTTAATGGTGTCTTTCTGAAAGTAAACAAGGCAACAATGAATATGCTGCACAGGGTTGAGCCTTATGTGACATACGGgtatgtgttctgactgccaacttcataaccttcagggatcatatctccacatgcaatctgtt--attcatatactgaagattgtttcag-------------

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv09s0054g00010.t01 (Vitis vinifera), 5'ss of exon 4

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaa---tttctctttgctgatttaattattgtcttgctt----cttattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt
||||||||||| ||||| || ||||| ||||| || || || |||||| | | ||||||||||||||||||  | |||||||||   | || || |  || |||  |||   || |          ||   | || |||| |||| |   | |  ||| ||  |  |  |  ||  |          
ATATTCAATGGGGTGTTTCTTAAAGTGAACAAAGCAACAATGAACATGTTGCACAGGGTTGAGCCTTATGTGACTTATGGgtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaat--gtatttatattgcaaatattttag--------

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S243_40V6.1 (Physcomitrella patens), 5'ss of exon 3

--------------------ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctct---ttgctgatttaattatt-gtcttgcttcttattttgg---tgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt---------
                    || ||||||||||||||| |||| || |||||||| ||| | |||||| | |||||||||||||| || ||  | || |||| | ||       |  |   | |  |  || |||  |       |  |||   |||||| |   ||| |   |  |  ||| || || |   ||||    | | |          
AGCTATTAAGACTGAGGCAGATCTTCAATGGCGTGTTCATGAAGGTGAACAAGGCCACCGTGAACATGTTGCGCAGGGTTGAGCCATACGTGACGTACGGgtgagttggaaaaatcaccagtcttctggtttgtcacgagaaaagtaatggaaatgtattatcatctcca--caattgattgcaacgatagt-tactaacccttatcattttccag

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S7_369V6.1 (Physcomitrella patens), 5'ss of exon 3

--------------------ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttc----tctttgctgatttaattattgtc-----ttgcttc-ttattttggt-gtatttttcactcgaagtacgtagttgaaaagag----atcatactgtgacctgtt----------------------------------------------
                    || ||||||||||| ||| |||| || |||||||||||| | |||||| | |||||||||||||| || ||  | ||||||| | |||    ||| |   |||||  | |   |      | || || ||| || | | | | |   |  |    | |     || | || |        | ||  |||| ||                                                
AACTGTTGAGGCTGAGGCAGATCTTCAATGGCGTATTCATGAAGGTGAACAAGGCTACCGTGAACATGTTGCGCAGGGTTGAGCCATACGTCACTTATGGgtgagttcgatatctctatggattttgtaagaattgaaggtagcatcattacttcgattgaaatcggcgtttagggaatcggtttaagaaaaccattgctaaacattgacttgggccgtacacagcagcaacacttattggacttcacttgttttattcag

upper sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S28_10V6.2 (Physcomitrella patens), 5'ss of exon 3

--------------------ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctctttgctgatttaattattgtcttgcttcttattttggtgtatttttcactcg----aagtacgtagttgaaaagagatcatactgtgacctgtt-----------------------------
                    || ||||| ||||||||| |||| || |||||||| ||| | |||||| | ||||||||||||||||| ||  | || |||| | |   | ||  |  |  || |      | |  |   | || || || ||  | ||| |    ||    ||  ||   |   | |   ||||  || |                                
AGCTGTTGAGGCTGAGACAGATCTTCAACGGCGTGTTCATGAAGGTGAACAAGGCCACCGTAAACATGTTGCGCAGGGTTGAGCCTTACGTAACCTACGGgtgagtcaccatttgtactcgaagtgccaaataggcttggaatt-ggcgtcttgctaactggctataaacttgtgtttttcagttgtttgcactg-aacataaaactgacatcgccaccattattattttcag

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|15632349|gb|BI679442.1|BI679442

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|94477419|gb|EB706377.1|EB706377

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGGGTCAGGGAGTTGATCTTCAAGAAGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|211173107|gb|FK956292.1|FK956292

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAAGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|33104385|gb|CF064345.1|CF064345

EST:     TAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: TAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|211171435|gb|FK956283.1|FK956283

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTGGANGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|15590144|gb|BI674760.1|BI674760

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|166483736|gb|EG189505.1|EG189505

EST:     AACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAAACTTAGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTAC
genomic: AACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCG-AACTT-GAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTAC

EST: gi|20299953|gb|BQ162896.1|BQ162896

EST:     AAAGCAACCATTAACATGCTTCGCAGGGTTGAACCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|9733002|gb|BE511754.1|BE511754

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

EST: gi|15313739|gb|BI478933.1|BI478933

EST:     AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGG                         GTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG
genomic: AAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGG

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: 1075

ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatttctc ... tcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1000

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 648