ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactggattcctaaacttttacacacttctgtattgtatttactgattaaggttctttttaggacatatacacattattaatgttctttagcaat...

Basic information

species	Zea mays
transcript	GRMZM2G386991_T01
intron #	7
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 9

TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgt-----tactggattcctaaactt---ttacacacttctgta-ttgtatttactga---ttaaggttctttttaggacatat-acacattattaatgttctttagcaat------------------------------
||||||||||| |||||||||||||||| |||||||| || || ||||||||||||||||||||||| |||||| ||||||||||||||||||| |      ||||  |||     | |     || |  ||| || | || |||    | |   ||  ||||    |||    || | |   | ||  |   | | ||     |                              
TTATGCATGACCTGCGACTTATTCACACAGATCTGAAACCTGAGAACATTCTCCTTGTTTCATCAGAATCTATCCGGGTGCCTGATTATAAGgtggcttcaatactaaattttgtcattcgaactataatcttttgcaattttatccgttaacacttgtggttgccattacattatgtcaattagtacgagcatacatttattttttactgatttttatattgttttccataaag

upper sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 7
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 7

TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactggattcctaaacttttacacacttctgtattgtatttactgattaa-ggttctttttagga-catatacacattattaatgttctttagcaat-
|||||||||| || || ||||| ||||| ||||||||||||||||| ||||| |||||||| ||||| |  ||||  ||||| |||||||||||  || |   |||   |||    | |     | | |||   ||    | ||| | | || | | || |  || ||     ||||||    | || | |||  
TTATGCATGATTTACGCCTTATCCACACTGATCTGAAGCCAGAAAATATTCTTCTTGTTTCTTCAGATTACATCAAAGTGCCAGATTATAAGgt-attgcgacattaaaaaaaaaatgctattgtttatatc-catagtttcattgatgattttgtgtatgttcacatgtgtgttatta-cactattgaacaact

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|211512137|gb|FL430403.1|FL430403

EST:     AGAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|32866970|gb|CF006652.1|CF006652

EST:     AGAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|211073306|gb|FL473576.1|FL473576

EST:     GCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: GCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|211122243|gb|FL474055.1|FL474055

EST:     GACCATTCTCCCTTGTTTCATCAGAGTCTATCAGGGTCCCTGATTATAAG                         TTTTCTATACGACCACCAAAGGGAT-GTTCTTTCTTTAAGAACCTTCCAAA
genomic: AAACATTCT-CCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAA-GGATGGTTCTTTCTTTAAGAACCTTCCAAA

EST: gi|211212596|gb|FL411382.1|FL411382

EST:     AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|149089547|gb|EE178794.2|EE178794

EST:     AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|60343108|gb|DN210081.1|DN210081

EST:     CATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: CATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|60354602|gb|DN221575.1|DN221575

EST:     TTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: TTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|6095292|gb|AW119959.1|AW119959

EST:     AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

EST: gi|6695913|gb|AW289021.1|AW289021

EST:     AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAG                         GTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA
genomic: AAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAA

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: 186

TTATGCATGACTTGCGACTTATTCACACGGATCTGAAGCCAGAAAACATTCTCCTTGTTTCATCAGAGTCTATCAGGGTGCCTGATTATAAGgttgttactg ... tgcaatgaagGTTTCTATACGACCACCAAAGGATGGTTCTTTCTTTAAGAACCTTCCAAAATCTAGTGCTATCAAGCTGATTGATTTTGGGAGTACAACTTTCGAGAGCC

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 152

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 255