ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTTGGCGAGGAGTCTCACAATGTACATGACATGTCATTTGTCATATGCATTGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttgctgaattcagattacaaattgtgaactctacccatgcaggcactagctatttcacttttgatactgtgtggtcctgtggacagtccgagtaatgcatgcacgtactctgatgaaacag

Basic information

species	Zea mays
transcript	GRMZM2G158627_T02
intron #	12
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G158627_T02 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os06g43760.1 (Oryza sativa), 5'ss of exon 25

CTTGGCGAGGAGTCTCACAATGTACATGACATGTCATTTGTCATATGCATTGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttgctgaattcagattacaaattgtgaactctacccatgcaggcactagctatttcacttttgatactgtgtggtcctgtggacagtccgagtaatgcatgcacgtactctgatgaaacag
 |  | |||||||||||||||||||| |||||||| |||||||| | ||||||||||    | ||  |  |  ||   ||||| |||   |||||| | ||||| |    |   ||         | |  ||| |||   |   |   |    ||     ||  | ||     || |||  |  | || |  ||      ||   | |    |||| ||||| |||||
ATCTGTGAGGAGTCTCACAATGTACAAGACATGTCGTTTGTCATTTACATTGCAAGGGTTTCTCCAGTGGTCACAGATGATCTCCTTGTCCATGCCGCTGgtaaatacaaccttatctg------atagggtgtacttgtctattttcgttgttaatgtcttggcattct---ctttgttatattctgcatggt------aacataagtgtctactttgatggaacag

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|71432888|gb|DR813938.1|DR813938

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAA                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|40334151|gb|CK368221.1|CK368221

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTC

EST: gi|60345148|gb|DN212121.1|DN212121

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|78022271|gb|DV490658.1|DV490658

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|74240586|gb|DT648500.1|DT648500

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAA                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|45568479|gb|CK986083.1|CK986083

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|5499479|gb|AI855346.1|AI855346

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCT
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCT

EST: gi|113702485|gb|EE679989.1|EE679989

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|211108629|gb|FL325826.1|FL325826

EST:     GCAAGGTCCACCCCTATTTCTTGCACCATATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGGAGTATAT
genomic: GCAAGGTCCACCCCTATT-CTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAG-AGTATAT

EST: gi|78109267|gb|DV527683.1|DV527683

EST:     CTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: CTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|37373885|gb|CF623267.1|CF623267

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

EST: gi|60337676|gb|DN204649.1|DN204649

EST:     TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAG                         GCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC
genomic: TGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTC

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: 47 (upstream exon), 44 (downstream exon)
Score: 118

CTTGGCGAGGAGTCTCACAATGTACATGACATGTCATTTGTCATATGCATTGCAAGGTCCACCCCTATTCTTGCACCAGATCTTCTTTCTCATGCCTCAGgtaagtcttg ... gatgaaacagGCAAAAGCAATCATGTGGAGGCGTTGAGAGTATATCTTCTGTCAAGGTCTCTTTCCAGATTGAAGAACCAGTTCCAAGCTGGAAAGGGCATG

Block sizes: 46 (upstream exon), 43 (downstream exon)
Score: 63

Block sizes: 46 (upstream exon), 45 (downstream exon)
Score: 60