ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatgctgtcattatagaagaagttatggggggtagagtttgtttgtagatttggcccaggctgttttgttttctctatgtttcatctcataaagttgttgtccagatggtcatgtgaaccagttctcacgcacggaatttaaatctgcag

Basic information

species	Zea mays
transcript	GRMZM2G033117_T01
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G033117_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os05g41930.1 (Oryza sativa), 5'ss of exon 5

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatgctgtcattatagaagaagttatggggggtagagtttgtttgtagatttggcccaggctgttttgttttctctatgtttcatctcataaagttgttgtccagatggtcatgtgaaccagttctcacgcacggaatttaaatctgcag
|||||| ||||| |||||||| |||||||||||| | ||||| |||||  |||||||||| ||||| |||||||| || |||||||||||||| || ||||||| | | | | | | |||         ||  | |   |  |||||  | ||   ||     | || || |||  ||    |           | |||  |||         || ||||  |||        |       |  |||||| | |||
CATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCTCCATAGCTGAGgtatgt-aggttattactat---------tactgtgcacatggtttgactataatgttactatatgcagtattgaattgcaca-----------acaaaaatgt---------ggccatgcaaactgagcaatatc-----atcttaaatttacag

upper sequence: GRMZM2G033117_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G25870.1 (Glycine max), 5'ss of exon 5

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatgctgtcattatagaagaagttatggggggtagagtttgtttgtagatttggcccaggctgttttgttttctctatgtttcatctcataaagttgttgtccagatggtcatgtgaaccagttctcacgcacggaatttaaatctgcag
  | |||||||| |||||| | |||||||| ||||| ||||||||||| ||||| |||||||| ||||||||||| || ||||| || ||  |  | |||||||       | |   |||   | |   ||    |  |            | |||||| ||| |  || ||| | |  |  |||          |    ||||| |   |||  |   |                                    
TGTCAGGAAGCTCTGCAAGGCATTGGAAGAAGATTCTTTCAGGCCAGTATTGCATCATTATGACGGGCCAAAGTTTCGTCTTGAACTGTCAGTTCCAGAGgtatgaaggaatattgctattttaaa--ctaaaaagaatcattccatgacattgatttgtccctg-ttggtttctgtcattgatggagtggaatttgttattgttatt-ggatattgcag------------------------------------

upper sequence: GRMZM2G033117_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA16G06100.1 (Glycine max), 5'ss of exon 5

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatgctgtcattatagaag-aagttatggggggtagagtttgtttgtagatttggcccaggctgttt-tgttttctctat-gtttcatctcataaagttgttgtccagatggtcatgtgaaccagttctcacgcacggaatttaaatctgcag
  | |||||||| |||||| | |||||||| ||||| ||||||||||| ||||| |||||||||||||||||||| || |||||||| ||  |  | |||||||       |||   |||      ||  ||    |  |    |       | |||||| | | |   |||| ||| ||   |   ||   || |  ||  ||| |||   | || |                                         
TGTCAGGAAGCTCTGCAAGGCATTGGAAGAAGATTCTTTCAGGCCAGTATTGCATCATTATGATGGGCCAAAGTTTCGTCTTGAGCTGTCAGTTCCAGAGgtatgaaggaatgttgctatttttttaaactaaaaagaatcatttcatgacattgatttgtcaccgttggtttctgtctttgatggagtggaatttgttattgttattggatatattgcag--------------------------------------

upper sequence: GRMZM2G033117_T01 (Zea mays), 5'ss of exon 5
lower sequence: AT3G27090.1 (Arabidopsis thaliana), 5'ss of exon 5

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatgctgtcattatagaagaagttatggggggtag-agtttgtttgtagatttggcccaggctgttttgttttctctatgtttcatctcat-aaagttgttgtccagatggtcatgtgaaccagttctcacgcacggaatttaaatctgcag
  | |||||  | |||||  | ||||||||||| ||||||||||||||  | ||||| |||||||| ||||| |||||||||||||||||  |  | |||||   |      |||  ||||       || ||   |  || | |  | |  |  | |   |  |   |  | ||| ||     ||| |||||   | ||| |||       |                                             
AGTGAGGAAAATCTGCAAAGCCTTGGAAGAGGACTCCTTCAGGCCAGTACTTCACCACTATGATGGTCCAAAATTCCGCCTTGAGCTCTCTGTTCCTGAGgtgcgt------gtccatatacgtt---ttgtgaatgtcagtaataagataattaagtgaacggaaaataatctgtatt----gtgtgtcatcatgtgaaaattggaacttgg---------------------------------------------

upper sequence: GRMZM2G033117_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S168_104V6.2 (Physcomitrella patens), 5'ss of exon 5

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatgctgtcattatagaagaagttatggggggtagagtttgtttgtagatttggcccaggctgttttgttttctctatgtttcatctcataaagttgttgtccagatggtcatgtgaaccagttctcacgcacggaatttaaatctgcag
 ||| | |||| ||| ||||| || |||||||| || |||||||||||  |||| || ||||||||||| |||||||| ||| |||||||  |  | |||||||  |||       ||| | |  |   |  |    ||  || | | |     || | |  ||    ||  || ||    |       || |   | |||   | ||                                                
TATTCGAAAGCAGTGTAAGCCTTTAGAAGAGGACTCATTCAGGCCAGTGCTGCATCACTATGATGGGCCCAAGTTCCGTCTTCAGCTCTCTGTTCCAGAGgtatcatatttaactcttaaacacaaccgtccgcttcgttcagctcggt-----atcttgtgcaaagagtaatgattgagttgaa---aatttatgatagtcagtatc------------------------------------------------

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|60399109|gb|DN231923.1|DN231923

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|211180981|gb|FL324627.1|FL324627

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|60401049|gb|DN233856.1|DN233856

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|28361820|gb|CB240176.1|CB240176

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|148949363|gb|EC894818.2|EC894818

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|60350290|gb|DN217263.1|DN217263

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|211531442|gb|FL327582.1|FL327582

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|60357783|gb|DN224756.1|DN224756

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|60338189|gb|DN205162.1|DN205162

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|211531841|gb|FL338637.1|FL338637

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

EST: gi|83278897|gb|DV942905.1|DV942905

EST:     TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAG                         ACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATTTGAGCTGTCGAG
genomic: TGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAG

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: 45 (upstream exon), 49 (downstream exon)
Score: 453

CATTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCATTATGATGGGCCAAAGTTCCGCCTTGAGCTCTCCATCGCGGAGgtatattatg ... aaatctgcagACATTGTCACTGCTAGACCTATGCGGGAAGGAAGGCATCTGAGCTGTCGAGGAGGTGGTGGTGGTTGCCTTGTGAGCTTCTAGTAAATACCAATCATCTT

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 306

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 372