ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ACCGTTTTCAGTTGGATTTATTGGATGCATGGTCGGTACAATTTATGTTTCTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtccttggccagtgcaatttttgtctggtctgtattttttcaaatcttgctatactgtagaggtcacttgttttagtgctttaggcacacttcctg...

Basic information

species	Zea mays
transcript	GRMZM2G008095_T02
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G008095_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g19620.1 (Oryza sativa), 5'ss of exon 3

ACCGTTTTCAGTTGGATTTATTGGATGCATGGTCGGTACAATTTATGTTTCTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtccttggccagtgcaa---tttttgtctggtctgtattttt----tcaaatcttgctatactgtagaggtcacttgttttagtgctttaggcacacttcctg
||| ||| |||  | | |||||||||||||||| ||||| |||||||| || ||| | |||||||||||||||||||| ||||| ||||| |||||||||||  ||||||   | |   ||   |||||| || |||| ||| |||    |  |   ||  | || | ||| ||  | |     || | || |      |       
ACCATTTACAGGGGCACTTATTGGATGCATGGTTGGTACCATTTATGTGTCAATGTTTCTTCACAGCTATTTCCTCTCAGTGATATTCTCTGTCCTTCAGgtgcgtccttcctctgaataaatctttttgacttgtctttatctttaaattttatagttattctagtctaggggatagtaagcatacttctgtgtctcta-------

upper sequence: GRMZM2G008095_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv19s0015g01110.t01 (Vitis vinifera), 5'ss of exon 3

ACCGTTTTCAGTTGGATTTATTGGATGCATGGTCGGTACAATTTATGTTTCTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatg----tccttgg--ccagtgcaatttttgtctggtctgtattttttcaaatcttgctatactgtagaggtcacttgttttagtgctttaggcacacttcctg
 || ||  || | |||||||| ||  | ||||| |||||||||||||| || |||||||||||||||||  | ||||||||| | ||||| ||  | |||||||     | | ||   ||| |  |  ||||      | | |     ||   |||||||| | || |||      | | | || ||     |   | |       
TCCTTTCACATTGGGATTTATAGGCAGTATGGTTGGTACAATTTATGTATCCATGGTGCTTCACAGCTACATTCTCTCTGTGCTTTTCTCTGTGTTACAGgtatcagatttcatgcttccaatatacctttttcagtctttttgaagcttgggatcttgcttttctttagttactgcatctctttgtatgcaattgaaaa------

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|76290777|gb|DV030345.1|DV030345

EST:     CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT
genomic: CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT

EST: gi|60348667|gb|DN215640.1|DN215640

EST:     CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT
genomic: CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT

EST: gi|71313674|gb|DR793416.1|DR793416

EST:     CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT
genomic: CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT

EST: gi|148960158|gb|EE153408.2|EE153408

EST:     CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT
genomic: CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT

EST: gi|113619879|gb|DW779975.1|DW779975

EST:     TAATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCC
genomic: T-ATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCC

EST: gi|71775255|gb|DR973133.1|DR973133

EST:     CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT
genomic: CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT

EST: gi|76915953|gb|DV166184.1|DV166184

EST:     CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAG                         GTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT
genomic: CTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGT

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), 48 (downstream exon)
Score: 52

ACCGTTTTCAGTTGGATTTATTGGATGCATGGTCGGTACAATTTATGTTTCTATGGTGCTTCACAGCTATTTCCTCTCTGTGATCTTCTCAGTCCTTCAGgtatgtcctt ... ctcaacccagGTTCTGGCCCTTGCATATTACACCATATCCTACTTCCCTGGAGGATCTAGTGGACTGAAATTCATCTCGTCTGGTCTCTTGTCCTCGGCAACAAGCTGTT

Block sizes: 44 (upstream exon), 44 (downstream exon)
Score: 61

Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 83