ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatttctgtagttttgttggttgctctatgtatattttgtttggctttaaattctttggtctctctcatgtcaagta...

Basic information

species	Zea mays
transcript	GRMZM2G075719_T01
intron #	4
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os07g31370.1 (Oryza sativa), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctct--ttcctgatttctgtagttttgttg-gttgctctatgtatattttg-tttggctttaaattctttggtctctctcatgtcaagta
|| |||| || || || |||||||| |||||| | |||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||  |||| |||        ||| || ||||| |||   | |   |||    |   ||| |  || ||| ||| | |||  |  | ||    | |  |   |  
TCCTAAACACTTCAAAATGGATAGAGGAAGTTAGAACTGAGAGGGGCAGTGATGTTATCATTGTGCTGGTTGGGAACAAAACTGATCTTGTTGACAAGAGgtgagtggagttcaaaaaaattcttgttttctttagccctttcctgttatcttgcttatctgatgattttgctgttaataat--gatcctctttaccttctg--

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA11G04340.1 (Glycine max), 5'ss of exon 5

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgt-----tggtggtgtttgct-ctttcctgatttctgtagttttgttggttgctctatgtatattttgt----ttggctttaaattctttggtctctctcatgtcaagta-----------------------------
|| |||| ||||| | |||||| || || || |||| |||||| |||||||||| ||| ||||| | ||||||||||||||||||||||||  | |||||||     |||| |  |    | ||| | ||| || | | |   | |  | || || |||| |  |||      |||  || |  |  | |        || | | || |                              
TCCTAAACACATCAAGGTGGATTGAAGAGGTGCGCATTGAGAGAGGCAGTGATGCTATTATTGTTCATGTTGGGAACAAAACTGACCTTGTCAATAAGAGgtaataatggtagaatgatttgcttgcttgaattgtttggcact-tgagatgttccatgtttgctttacgttgttgttttcatgtcttgtaaaagtgttcttttaaatttacacaatttcactcatcatgagtctatag

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA01G41090.1 (Glycine max), 5'ss of exon 5

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgt--tggtggt-gtttgctct---ttcctgatttctgtagttttgttggttgctctatgtatattttgt----ttggctttaaattctttggtctctctcatgtcaagta-------------------------------------------------------------------
|| | || ||||| |||||||| || || || |||| |||||| |||||||||||||| ||||| |||||||||||||||||||||||||| || |||||||  |  |||| |  || | |   | | ||| || | | |   | |  |  | || |||| |  | |      |||  || |  |  | ||       || | | || |                                                                    
TCCTGAACACATCAAAGTGGATTGAAGAGGTGCGCAGTGAGAGAGGCAGTGATGTTATTATTGTTCTTGTTGGGAACAAAACTGACCTTGTCGATAAGAGgtaataatggtagaatgatttggttgcttgaattgtttggaact-tgagacgttccatgtttgctctacgttgttgttttcatgtcttgtgaaagtgttcttttaaatttcgattcatcagcccatttctggtgtcaccttatatttatgagcaatattatttgcatgcgtctatag

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA11G04330.1 (Glycine max), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgc----------tctttcctgatttctgtagttttg--ttggttgctctatgtatattttgttt---ggctttaaattctttggtctctctcatgtcaagta---------------------------------------------------------------------------
|| |||||||  | |||||||| || || || || || ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| || || ||||   | ||  |             |        ||||  | ||  |    || |   |     | | |     ||    ||| |   ||  | || |||  || || |||                                                                               
TCCTAAATACTGCAAAGTGGATTGAAGAGGTGCGAACAGAGAGAGGCAGTGATGTCATTATTGTTCTTGTTGGGAACAAAACTGATCTTGTCGAGAAAAGgtaattagtaatgaagagaagaatgttggaatgaatttagggagactcaaattaggaacgactggcaaaaacaattcataggcatagtatagtatgttcttgct-atatcattctggagacatgctagtgttacaatctgaaatttactgttttgtttttaccaaccatcttctttgtgtgtgtctgcag

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G05860.1 (Glycine max), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatttctgtagttttgttggttgctctatgtatattttgtttg-gctttaaattctttggtctctctcatgtcaagta-----
|| |||| ||||| |||||||| || || || |||| ||| || ||||| ||||||||  | || |||||||||||||||||||| ||||| || || ||||      ||  |  ||  |  |  |  |  ||  ||  |  | |  | |||          ||   |   | | | || || ||| | | || | | | |     
TCCTAAACACATCAAAGTGGATTGAAGAGGTGCGCAGTGAAAGAGGCAGCGATGTTATTGTGGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgt----aatggctaatcaatggtagtgac--taacttcatcagatagtttatactggccggtttcatgacatgactcctatgttctgtattatctaatgaactatt

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA01G41100.1 (Glycine max), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatttctgtagttttgttggttgctctatgtatattttgtttggctttaaattctttggtctctctcatgtcaagta----------------------------------------------------------------------------------------------
||||||||||  | |||||||| || || || || || || || ||||||||||| || ||||| |||||||||||||||||||| |||||||| || ||||   | ||    |            ||    || |||   ||   ||| |  |||    | || |     | | |   | | |    | | ||    |                                                                                               
TCTTAAATACTGCTAAGTGGATTGAAGAGGTGCGAACAGAAAGAGGCAGTGATGTCATTATTGTTCTTGTTGGGAACAAAACTGATCTTGTTGAGAAAAGgtaattagtaac-gaagagaagaatgttggaaagattttagggagactcaaattatgaactattggcaaaaacaattcataggcatagtgaagtatgttctcgctatatagttctggagacatgctagtgttacaatctgaaatttactgttttgttttaccaaccaaccgccatcttctttgtgtgtctgcag

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G16200.1 (Glycine max), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatttctgtagttttgttggttgctctatgtatattttgtttggctttaaattctttggtctctctcatgtcaagta-----
|| |||| ||||| |||||||| || || || |||| ||| || ||||| ||||||||  |||| |||||||||||||||||||| ||||| || || ||||      ||  |  ||  |  |    |   ||  ||  |  | |  | |||   |     ||||      |      ||    ||| |  | || | |      
TCCTAAACACATCAAAGTGGATTGAAGAGGTGCGCAGTGAAAGAGGCAGCGATGTTATTGTTGTTCTTGTTGGGAACAAAACTGATCTTGTGGATAAAAGgt----aatggctaatcaatggtagagtgactaacttcatcagatagtttatac-tggccggtttcatgacatgactcttatgttctgtattatctaatggccta

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv02s0012g00710.t01 (Vitis vinifera), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatt--tctgtagttttgttggttgctcta--tgtatattt-tgtttggctttaaattctttggtctctctcatgtcaagta
|| |||| || || |||||||| || || |||||||||||||| || ||||||||||| || || |||||||| ||||| ||||||||||| || || ||||      |   |         ||  |  | | || |||   || |||   ||    | ||||  | |||| ||| || || | | |   || |  | | |    
TCCTAAACACTTCAAAGTGGATTGAAGAGGTTCGCACTGAGAGAGGTAGTGATGTTATTATCGTCCTTGTTGGAAACAAGACTGACCTTGTGGAGAAAAGgtaaagattagctaacagaagatggctaatatttaatttatatgattgtcttagtcctttattcatttttgtcttgaagttttattgaggct-ttgtttga----

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv15s0021g00640.t01 (Vitis vinifera), 5'ss of exon 4

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatttctgtagttttgttggttgctctatgtatattttgtttggctttaaattc--tttggtctctctcatgtcaagta
|| | || ||  |||||||||| || || ||||| |||||| | |||||||||||||||||||| ||||||||||||||||| |||||||| |||||||||| | ||   | |  |||    || | | | || |||| |   |   ||| ||  |  ||      |        |   ||| | |||  | |  |    ||
TCCTTAACACTGCCAAGTGGATTGAGGAGGTTCGTACTGAGCGAGGCAGTGATGTTATCATTGTCCTTGTTGGGAACAAAACAGACCTTGTGGACAAGAGgt-gatgacttattgtctcatttgctgtttata-ttttctacttcaatctttgattgcttgtaccagtcaagggcttgtttttgactccattaaatattata

upper sequence: GRMZM2G075719_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S346_29V6.1 (Physcomitrella patens), 5'ss of exon 5

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtgtttgctctttcctgatttctgtagt--tttgttggttgctctatgtatattttgtttggctttaaattctttggtctctctcatgtcaagta-----------------------------------------------------
|  ||||||||||    ||||| || || || |  || ||| | || ||||||||||||||  |||||||||| ||||| ||||| |||||||| ||| |||  ||    | |||| |||     |    |||||  || |||  ||  ||  |  |    ||  |||  | |  |     |  |     | | || | | |                                                     
TTCTAAATACATCTCGATGGATTGAAGAGGTCCTAACAGAGCGTGGAAGTGATGTTATCATAATGCTTGTTGGCAACAAGACTGATCTTGTTGATAAGCGgtaagtatcttctgctatttttatttcctagtagtggttggttattttttcggtccaatgattacttgtatctgcaaatcatctttctgttgaggtgaggaatattgtaacgtgcaatttggtttattatttaattgttcttgacattttttcag

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|211458655|gb|FL157796.1|FL157796

EST:     GTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|32836609|gb|CD976287.1|CD976287

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|111990689|gb|EE332131.1|EE332131

EST:     GAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|31612410|gb|CD569032.1|CD569032

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAACCTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|211109341|gb|FL282964.1|FL282964

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|32840351|gb|CD980032.1|CD980032

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|14645991|gb|BI180180.1|BI180180

EST:     GGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|32839843|gb|CD979524.1|CD979524

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|211109340|gb|FL282963.1|FL282963

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|60354086|gb|DN221059.1|DN221059

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|30088223|gb|CB886428.1|CB886428

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

EST: gi|116822600|gb|EC866010.1|EC866010

EST:     GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAG                         GCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT
genomic: GATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCAT

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: 388

TCTTAAATACATCCAAGTGGATAGATGAAGTTCGCACTGAGAGGGGCAGTGATGTTATCATTGTGCTTGTTGGGAACAAAACTGACCTTGTTGACAAGAGgttggtggtg ... catggaacagGCAAGTCTCGATAGAGGAAGGAGAAGGCAAGGCAAAGGACCTTGGTGTCATGTTTATTGAAACCAGTGCTAAAGCTGGGTTTAACATTAAG

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 528

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 603