ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtatgaaccccaagcaacctcagttggtcctctcttccacttcggggtgaattttcctgtgatgttgattggtctcccgttggtttcgatctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT

Basic information

species	Zea mays
transcript	GRMZM2G044137_T01
intron #	1
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G044137_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g41110.2 (Oryza sativa), 3'ss of exon 1

---------------gtatgaaccccaagcaacctcagttggtcctctcttccacttcggggtgaa---ttttcctgtgatgttgat--tggtctcccgtt----ggtttcgat--ctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT
               |  ||  || |   |  ||||  | |   | |||| || || ||      |   |||   || ||||||  |  |||| ||   ||    ||||  |      ||||||||||||||||| || | ||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||
gtaaggttcctgatcgattgcgcctccctccccctcc-tcgtcgcgctctcccgctgcgcatctcaccatttcgttgcgatgtttttgctggtttctgattggtgggttgtggcgatgatgcagAAGAAGAGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT

upper sequence: GRMZM2G044137_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv13s0064g00850.t01 (Vitis vinifera), 3'ss of exon 1

-----------gtatgaacc-ccaagcaacctcagttg-gtcctctcttccacttcggggtgaattttcctgtgatgttgattggtctcccgttggtttcgatctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT
           ||||           | | || | ||    | ||||| | | |   | |      | | | | || ||| ||| | |   |||| ||| ||  |   ||||||||||    ||| | |||||||||||||||    || ||||||||||||||||||||||| || |||||||||||||| |||||||  ||  | | ||
gtacggacatcgtattcgttgttccccgatcttattttcaacttctctacgattcaagagatgtaatgcatttcattttgtttgattttgtgttgttttggaaat-cacagAAGAAGACTCAAGAAAACATCAACAACAAGCTCGCTCTCGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTGCTCAAGAGCCTCAGAAGCT

upper sequence: GRMZM2G044137_T01 (Zea mays), 3'ss of exon 1
lower sequence: EDP06387 (Chlamydomonas reinhardtii), 3'ss of exon 1

---------------------------------------gtatgaaccccaagcaacctcagttggtcctctcttccacttcggggtg------aattttcctgtgatgttga---ttggtctcccgttggtttcgatc-tatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT
                                       ||   |||    ||   || | || |  |   || ||||      ||||      || |    |  | | ||||   | |||| | ||     || |  |    ||||||||||| |   |||| |||||||  |   |||  ||||||||||||||| ||||||||||| |||||||||||||||  ||| ||||| ||||||    
gtgcgtagggcagatgcagtagcaaaactagccgcagccgtcaaaacggagagtcgccgccgtcg--ctggtcgtccagcgtaaggtggctacaaaatcaaatcaggtattgaacctcggtcgcgcgcgtactttgtgcacccgcagAAGAAGACCCAGGAGAACATCAACGCCCGTCTGGCGCTGGTGATGAAGAGTGGCAAGTACACTCTGGGCTACAAGACCTGCCTGAAGACCCTGCGCTCGG

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|76013092|gb|DT940262.1|DT940262

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|211065202|gb|FL140848.1|FL140848

EST:     CCCATCGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|31406277|gb|CD485009.1|CD485009

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|166647094|gb|EG316502.1|EG316502

EST:     CGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|91049094|gb|EB159512.1|EB159512

EST:     TCCATTGCCGCCAGTGTCTGTTTGATCCGATGGCTCCCCCGAAGAAGTTG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|60394375|gb|DN227245.1|DN227245

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|60355557|gb|DN222530.1|DN222530

EST:     CATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|211067927|gb|FL140853.1|FL140853

EST:     CCCATCGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|67023955|gb|CO452704.1|CO452704

EST:     CCCATCGCCGCCAGTGGCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|149089950|gb|EE179239.2|EE179239

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|32914523|gb|CF019335.1|CF019335

EST:     CCCATCGCCGCCAGCGGCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGTTTTTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|32865422|gb|CF005104.1|CF005104

EST:     CCCATCGCCGCCAGCGGCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|60338522|gb|DN205495.1|DN205495

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|15100298|gb|BI396089.1|BI396089

EST:     CCCATCGCCGCCAGCGGCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|9824981|gb|BE575183.1|BE575183

EST:     GTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTC-                         --GAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: GTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|211067924|gb|FL140850.1|FL140850

EST:     CCCATCGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|89251915|gb|DY623701.1|DY623701

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|27575973|gb|CA998667.1|CA998667

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|31441073|gb|CD510504.1|CD510504

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|60357629|gb|DN224602.1|DN224602

EST:     CCCATCGCCGCCAGCGGCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|211065201|gb|FL140847.1|FL140847

EST:     CCCATCGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|60341097|gb|DN208070.1|DN208070

EST:     CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

EST: gi|166473228|gb|EG321222.1|EG321222

EST:     CGAAGAAGTCG                         AAGAAGAGCACAGAAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAG
genomic: CGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAG-AGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAG

EST: gi|60347030|gb|DN214003.1|DN214003

EST:     CCCATCGCCGCCAGCGGCTGCTCGATCCGATGGCTCCCACGAAGAAGTCG                         AAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC
genomic: CCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGC

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: 692

CGCAGCCCGCAGTCGCTTGCGCGCAGCAGCACTTCGCACCGCCGCCCCATCCCATTGCCGCCAGTGTCTGCTCGATCCGATGGCTCCCACGAAGAAGTCGgtatgaaccc ... atctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 481

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 374

Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 432

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

ggggtgaattttcctgtgatgttgattggtctcccgttggtttcgatctatgcagAAGAAGAGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACT