ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag

Basic information

species	Zea mays
transcript	GRMZM5G804382_T01
intron #	3
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatg--cgcagtgcctattgttgttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag
| | |||||||||||||||||||||||||| || |||||||||||||||||||| ||||| ||||||||||||||||| || |||||||||||||||||||||  || |    |||||   | | ||| ||||| |||| || |            | | || ||  | |||| |||  || ||   |     ||  ||||| |||
ATCTTTGAATGAGCTTTATGTTGAAGAGGAGGATTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAGAAGgta--aagcgattagatgattgtactgcttattgatgttattttt-----------ccttttttttttattttgaat--aactaatggctggaatgccttgatcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatg--cgcagtgcctattgttgttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag
||| |||||||||||||||||||||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||| || |||||||||||||| ||||||  || |    | |||   | | ||| ||||| |||| || |          | ||| ||  |  | |||| |||  || ||   |     ||  ||||| |||
AGCTTTGAATGAGCTTTATGTTGAAGAGGAGGACTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAAAAGgta--aagcgattatatgattgtactgcttattgatgttatttt----------tccttttttattttattttgaat--aactaatggctggaatgccttgatcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagcca------gatgcgcagtgcctattgttg----ttgttgtaatggtgtgatgcttattgttactgttttcaatt-taattacctgtgttcatttct-----tgagcag
 || ||||||||  |||||| ||| || ||||||||||| ||||||||||||||| | ||  ||||||| ||||| || || ||||||||||| ||||||||  |    |   |      |        || | |||        | |   | |   ||| |||   | | | |    ||| |||| | |||   ||  ||||    |     |||||||
GGCTTTGAATGAAATTTATGCTGAGGAAGAAGACTATGACAGACTCCGTGAATCAATAGATCTGCATGATAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttacttatcttttgtcttattttgacaattagcaaaaatcgagatcagaatgttatgggaaatttaaaatatttgaattattattgattggcttcaacaatacacatgagcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 24

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaat---ggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag
||| ||||||||  |||||||||| ||||| |||||||| ||||| | ||||||| | ||  ||||||||||||| || || ||||||||||| ||||||||  |        |  |    | |  |||   |||   |   |||     || ||  ||||  | |  | |  |      || |   | | ||  |||||       
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttccgtatctttcaaattgctaaaattgaaatctgaatcttactgagaaacttaggggtcatttggtttgaagaaatgtttttttttttttct-------

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaatggtgt---gatgcttattgttact--gttttcaatttaattacctgtgttcatttcttgagcag
||| ||||||||  |||||||||| ||||| |||||||| ||||| | ||||||| | ||  ||||||||||||| || || ||||||||||| ||||||||  |        |  |    | |  |||   |||   |   |||  |     ||   ||     |  |  |||| || ||| |||  |||| |||||||         
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttccttatctttcaaattgctaaaattgaaatctgaatcttaccgagacatttgggtgtgtttggtttgcattttcattttctgttttcattt---------

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 25

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccaga-tgcgcagtgcctattgtt--gttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag
|||| |||||||  | |||||||| |||||||||||||| ||| | || || ||| ||||  ||||||| ||||||||||||||||| ||||| ||||||||      ||   |   | |    || ||||| ||  |||    ||  ||      |   ||| ||| | |||  |||  |                          
AGCCCTGAATGAAATATATGTTGAGGAGGAAGACTATGATAGATTGCGCGAGTCAATTGATTTGCATGATAACTTTGACCAAATAGGCCTTGCACAGAAGgttagctgcatttattcttcatgttgactatttttcagttcaattataggaaaccagtggattattattatttggaatgcag-------------------------

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA01G38580.1 (Glycine max), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaat----ggtgtgatgcttattg-----ttactgttttcaattta--attacctgtgttcat---ttcttgagcag
||| ||||||||  |||||||||| || |||||||| || |||||||| |||||| | ||  |||||||||||||||| || ||||||||||| ||||||||  |   | |  |  |      |   | |     ||     |||    | |  |    |||| |     |||   | ||  | |||  |||   ||  ||||    | | |||||||
AGCTTTGAATGAAATTTATGTTGAGGAAGAAGACTACGACAGACTCCGAGAATCAATAGATTTGCATGACAACTTTGATCAGATAGGTCTTGCACAGAAGgtgaatctcggttatcttttgtcttattttgacaattagcaaaatctgagatcaggaagttatggaaaatttaaaatgtttgaattattattgattggcttcaacaatacatgagcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag
 || ||||||| | |||||||||| |||||||||||||| ||||| ||||||||| |||| |||||||| |||||||| || || || ||||| ||||||||  |  | |      |    ||   | |||||| || ||    ||||   ||||  | || |  || |||||   |||       || |   |  ||||||||
GGCTTTGAATGGGATTTATGTTGAGGAGGAAGACTATGACAGACTGCGTGAATCAATTGATATGCATGATAACTTTGATCAGATTGGCCTTGCACAGAAGgtggagtataatt---tctttaggtgcaattgtttttcttt--gtggttctatgc--actggt--tgatttca---taagccttgttggtatgtgtttgagcag

upper sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaacagccagatgcgcagtgcctattgttgttgttgtaatggtgtgatgcttattgttactgttttcaatttaattacctgtgttcatttcttgagcag
||| || ||||   || |||| || ||||| |||||||| ||||| || |||||| | || |||||||| ||||||||||| ||||| ||||| ||||||||   | | |   |  |          | |||||  |||||  | ||  | ||    |       |   |   || || | |   ||||  |            
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatt--------tattttgttaatgttggta-ggcttcataagcagaacatgtacataagatctagtgatgcgtgtggacag---------

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|32846997|gb|CD986678.1|CD986678

EST:     AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaaca ... tcttgagcagCTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|32929767|gb|CF034579.1|CF034579

EST:     AATCAGTTGACATGCATGACACCTTTGACCAAATAGGTCTTGCCCAGAAG                         CTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaaca ... tcttgagcagCTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|32848265|gb|CD987946.1|CD987946

EST:     AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaaca ... tcttgagcagCTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|89761296|gb|DY689368.1|DY689368

EST:     AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaaca ... tcttgagcagCTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC

EST: gi|71765800|gb|DR963737.1|DR963737

EST:     AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAG                         CTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaaca ... tcttgagcagCTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTAC

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: 229

AGCCTTGAATGAGCTTTATGTTGAAGAGGAAGACTATGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAAATAGGTCTTGCCCAGAAGgtacaaaaca ... tcttgagcagCTGGAGAAGCATGAATTGCTTGAGATGAGGAGGATTGCTGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAATCCATTGCTCTATCAAAGAAAGATA

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 123

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 178