ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TGTGACCATGGCCCTCAAAATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcattctccttgctttcagttatatgtgttttactcgtttttgcatcccttttcagatactggaaaatccactgtgatgtacgcttctgttgctttttgttccacgacagataactgacataatttatcctcgataaag

Basic information

species	Zea mays
transcript	GRMZM2G033724_T02
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G033724_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os04g52479.3 (Oryza sativa), 5'ss of exon 4

TGTGACCATGGCCCTCAAAATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcattctccttgctttcagttatatgtgt-tttactcgtttttgcatcccttt------tcaga--tactggaaaatcc---actgtgatgtac-gcttctgttgctttttgttccacgacagataactgacataatttatcctcgataaag
 |||| ||||||||| |||| ||||| ||||| |||||||||||||| || || || ||||| ||||||||| ||||||| ||||  ||||||||| ||||||     || ||| |   |||| ||  ||   | || |    ||   | |   | ||      ||  |  |||| ||   |     |||    ||||  |  |||||    ||||| ||||  ||| |   |||||| |||||  |  | ||||||
AGTGATCATGGCCCTGAAAACTGGACTAGTGGGGTTGATCTTGGCCGTCTACTCGACCGTCTGGAACTTGATATTATCATTACCAATGAATCACTCCAAGgttgattcttttccctctattcatttgcattcatcttcagatattccagaaatacgttggactatccaatttacttgatgttttcatactactttgtattgaatctgtacacttttgctccattacaaa--gctgacagaatttgcctactataaag

upper sequence: GRMZM2G033724_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA20G02500.1 (Glycine max), 5'ss of exon 4

TGTGACCATGGCCCTCAAAATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcattctccttgctttcagttatatgtgttttactcgtttttgcatcccttttcagatactggaaaatccactgtgatgtacgcttctgttgctttttgttccacgacagataactgacataatttatcctcgataaag
  ||  ||   |||  |||||||||| |||||||||||||||||||| ||||| ||||  |||||||||||||| || | ||| |  ||| ||||| |||||| |  |         | |||||||||   |  || |    ||    ||   || | ||  || ||| |     |    | || |   ||  ||   || ||||| ||| |                                
GTTGGTCAACCCCCAGAAAATTGGACAAGTGGAGTTGATCTTGGCCGACTTCTTGATCTCCTTGAACTTGATCTCATTACAACAAATGAAGCACTCCAAGgtttgcaa--------acattcagttattaataattcaaatatt----caattctct-caattaatggcattattaaaaggctgcagtatttagtgttttattgtttcacaat-------------------------------

upper sequence: GRMZM2G033724_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA07G34800.1 (Glycine max), 5'ss of exon 5

TGTGACCATGGCCCTCAAAATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcattctccttgctttcagttatatgtgttttactcgtttttgcatcccttttcagatactggaaaatccactgtgatgtacgcttctgttgcttt-ttgttccacgacagataactgacataatttatcctcgataaag
  ||  ||   |||  |||||||||| |||||||||||||||||||| ||||| ||||  |||||||||||||| || | ||| |  ||| ||||| |||||| |  |         | |||||||||   |  || |  | ||    ||   || | ||  || | | |     |    | || | |  |    || ||| ||||| ||| |                                
GTTGGTCAACCCCCCGAAAATTGGACAAGTGGAGTTGATCTTGGCCGACTTCTTGATCTCCTTGAACTTGATCTCATTACAACAAATGAAGCACTCCAAGgtttgcaa--------acattcagttattaataattcaaacatt----caattctct-caattaatagcagtattaaaaggctgca-gtattgactgttttattgtttcacaat-------------------------------

upper sequence: GRMZM2G033724_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv19s0027g00520.t01 (Vitis vinifera), 5'ss of exon 4

TGTGACCATGGCCCTCAA-AATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcattctccttgctttcagttatatgtgttttactcgtttttgcatcccttttcagatactggaaaatccactgtgatgtacgcttctgttgctttttgttccacgacagataactgacataatttatcctcgataaag
 |    | |  ||||  | |||||||| |||| ||||||| |||| ||||||||  |||  |||||||||||||| |||| ||| || |||   |||| ||||| | | ||  |||         |   |  |   ||     || ||| |    |  ||     || || | || | |    | |      || |  || | || |                                      
-GCTGGCTTACCCCTAGAGAATTGGACAAGTGCAGTTGATATTGGGCGCCTTCTAAATCTCCTTGAACTTGATCTCATCACAACTAGTGAAGGGCTCAGAGgtttgtcctttccctaatgccttatatcagttcccttgtgttttattgtaatattcctc-----cttgatagtctaat----tttttttccctatccctctctgatttc-----------------------------------

upper sequence: GRMZM2G033724_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv01s0011g01870.t01 (Vitis vinifera), 5'ss of exon 6

TGTGACCATGGCCCTCAAAATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcattctccttgctttcagttatatgtgttttactcgtttttgcatcccttttcagatactggaaaatccactgtgatgtacgcttctgttgctttttgttccacgacagataactgacataatttatcctcgataaag
  ||  ||   |||  | |||||||| |||||||| |||||||| || ||||| || |  || |||||||||||||||| ||||||||||   ||  |||||| |   || |   | |    | |  | | |     | |  ||||||    ||| || |  |      |  |  |    ||    |     | || |                                              
GTTGGTCAACCCCCGGAGAATTGGACTAGTGGAGTAGATCTTGGACGTCTTCTTGACCTCCTCGAACTTGATCTTATCACAACCAGCGAAGGGCTTCAAGgtttgtagttttgaat-cgccaaatcgtctttagc--atttatttttggtagcctgtttatgtttgattacctttaaatggagaggcaggcttattacccagc-----------------------------------------

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|28931228|gb|CB334589.1|CB334589

EST:     TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAG                         ATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAA
genomic: TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcatt ... ctcgataaagATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAA

EST: gi|78110490|gb|DV528900.1|DV528900

EST:     TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAG                         ATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTCTGCTG
genomic: TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcatt ... ctcgataaagATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTCTGCTG

EST: gi|166570660|gb|EG188973.1|EG188973

EST:     TCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAG                         ATGCCGTGCAGCAGCAAAGGCGCGCGTTGGTGGCTGCAGCTAATTC
genomic: TCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcatt ... ctcgataaagATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTC

EST: gi|148966886|gb|EE018008.2|EE018008

EST:     TTTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAG                         ATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTTTGTTG
genomic: TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcatt ... ctcgataaagATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTCTGCTG

EST: gi|60357833|gb|DN224806.1|DN224806

EST:     TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAG                         ATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTCTGCTG
genomic: TCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcatt ... ctcgataaagATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTCTGCTG

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: 115

TGTGACCATGGCCCTCAAAATTGGACCAGTGGAGTTGATCTTGGCCGCCTTCTGGATCGTCTTGAACTTGATCTTATCATAACCAGCGAATCACTCAAAGgttcggcatt ... ctcgataaagATGCCGTGCAGCAGCAAAGGCGCGCGTTGGCGGCTGCAGCTAATTCTGCTGCTGGGGAGTCGTCGACAGCAGCAGCTCCCGTCCTAGAAGAGAAAGTGGA

Block sizes: 49 (upstream exon), 43 (downstream exon)
Score: 36

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 46