ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

GGTTGCAAAAGCCCAAAAGGTTCCTGAGGAAGGATGGACAATGCAAGATGGAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgtttaacagttaatcgttgccatttgtcctacttctccctttgttttctccgaactgaaggtttattctacttaacatcgaaattctcaaattttgtgtcaacag

Basic information

species	Zea mays
transcript	GRMZM2G177631_T01
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G177631_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os07g14850.1 (Oryza sativa), 5'ss of exon 7

GGTTGCAAAAGCCCAAAAGGTTCCTGAGGAAGGATGGACAATGCAAGATGGAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgtttaacagttaatcgttgccatttgtcctacttctccctttgttttctccgaactgaaggtttattctacttaacatcgaaattctcaaatttt-gtgtcaacag
|||||| ||||||||||||||||| |||||||||||||||||||| || |||||||| ||||| || ||||| || |||||||||||||||||||||||||||    |||  || ||  | | ||   |||     ||   | |  || || | || |             |  ||||| |  || || |  |||| |||| ||||||| ||
GGTTGCCAAAGCCCAAAAGGTTCCAGAGGAAGGATGGACAATGCAGGACGGAAGCCCTTGGCCAGGCAACAATGTGCGCGATCATCCTGGAATGATTCAGgtaatgcttttgcaatt--ttggtgt--tttactacacacgtgcgattcttctttctg-------------tgttactttagttcaaagtgttcaattttttgtgtcaatag

upper sequence: GRMZM2G177631_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA06G47420.1 (Glycine max), 5'ss of exon 10

GGTTGCAAAAGCCCAAAAGGTTCCTGAGGAAGGATGGACAATGCAAGATGGAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgtttaacagttaatcgttgccatttgtcctacttctccctttgttttctccgaactgaaggtttattctacttaacatcgaaattctcaaattttgtgtcaacag
 ||||| ||  |    ||||| || || ||||| |||||||||||||||||||  || ||||||||||| || || || ||||| || |||||||| ||||| |||    || ||||||    |      | |   | |      | |    | ||  |  |||   | ||||| | |  | |  || ||  |  | || |     |    
AGTTGCTAAGTCTAGGAAGGTCCCAGAAGAAGGGTGGACAATGCAAGATGGAACACCATGGCCTGGAAATAATGTTCGTGATCACCCAGGAATGATACAGgttggt----aatagttaaaaagtaaatagtatatgaatctaaagtgtaaaatatc--atgtgactctatattccatt--atactgagatcatatatttatacaagat---

upper sequence: GRMZM2G177631_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv03s0038g04250.t01 (Vitis vinifera), 5'ss of exon 8

GGTTGCAAAAGCCCAAAAGGTTCCTGAGGAAGGATGGACAATGCAAGATGGAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgttt--aacagttaatcgttgccatttgtcctacttctccctttgtt-ttctccgaactgaaggtttattctacttaacatcgaaattctcaaattttgtgtcaacag
|||||| ||||| |||||||| || || ||||| ||||||||||| ||||| |  || ||||| ||||| || || || ||||| ||||||||||||||||||  | |||   | ||||| |  |    |  ||||||  |     | || || ||||  | | |        ||| |   ||                               
GGTTGCCAAAGCTCAAAAGGTCCCAGAAGAAGGGTGGACAATGCAGGATGGGACGCCTTGGCCAGGAAATAATGTCCGTGATCACCCTGGAATGATTCAGgtatatatttctgagagttatttatg---agatgtcctgatctgatcattcttgttctaagcattcttttgggattttctctag------------------------------

upper sequence: GRMZM2G177631_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv18s0122g00120.t01 (Vitis vinifera), 5'ss of exon 8

GGTTGCAAAAGCCCAAAAGGTTCCTGAGGAAGGATGGACAATGCAAGATGGAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgtttaacagttaatcgttgccatttgtcctacttctccctttgttttctccgaactgaaggtttattctacttaacatcgaaattctcaaattttgtgtcaacag
|||||| || || |||||||| || || ||||| ||||||||||| ||||| |  || |||||||| || ||| | || ||||||||||||||||||||||||   | ||   | ||   |  |    || ||  |  ||    |    |    |  |  || ||  | | ||||  |  |  || | |                      
GGTTGCCAAGGCACAAAAGGTCCCAGAAGAAGGGTGGACAATGCAGGATGGGACTCCATGGCCTGGGAATAACATCCGAGATCATCCTGGAATGATTCAGgtacacgatttgaaatt---cagtatatttagtttttgttgagacccattgcagttgggccttaacatgtgttct--tggatttctatag---------------------

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|32846630|gb|CD986311.1|CD986311

EST:     ACGCGATCCATCCTGGAATGATTCAG                         GTATTCCTTGGCCAAAGTGGTGGTCGTGATGTGGAAGGAAATGAGTTGCCT
genomic: ACGCGAT-CATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT

EST: gi|91873599|gb|EB403556.1|EB403556

EST:     CGATCATCCTGGAATGATTCAG                         GTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT
genomic: CGATCATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT

EST: gi|211336415|gb|FL383134.1|FL383134

EST:     GAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAG                         GTATTCCTTGGCCAAAGTGGTGGTCGTGATGTGGAAGGAAATGAGTTGCCT
genomic: GAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT

EST: gi|211101700|gb|FL470685.1|FL470685

EST:     GAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAG                         GTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT
genomic: GAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT

EST: gi|32849039|gb|CD988720.1|CD988720

EST:     ACGCGATCATCCTGGAATGATTCAG                         GTATTCCTTGGCCAAAGTGGTGGTCGTGATGTGGAAGGAAATGAGTTGCCT
genomic: ACGCGATCATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT

EST: gi|32929817|gb|CF034629.1|CF034629

EST:     GATCATCCTGGAATGATTCAG                         GTATTCCTTGGCCAAAGTGGTGGTCGCGATGTGGAAGGAAATGAGTTGCCT
genomic: GATCATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCT

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: 152

GGTTGCAAAAGCCCAAAAGGTTCCTGAGGAAGGATGGACAATGCAAGATGGAAGCCCCTGGCCTGGAAACAACGTACGCGATCATCCTGGAATGATTCAGgtaggtgttt ... gtgtcaacagGTATTCCTTGGCCAAAGTGGCGGTCGTGATGTGGAAGGAAATGAGTTGCCTCGCCTGGTTTATGTCTCGAGAGAAAAGAGGCCAGGTTATAACCATCACA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 232

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 254