ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag

Basic information

species	Zea mays
transcript	GRMZM2G014805_T01
intron #	13
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattga-ttgaactgttcttttacag
||||||||| ||||||||||||||||||||||| |||||||  |||||||||||||||||||||||||| ||||| ||||| || ||||||||||||||||||||||  ||  | ||| | |  |  | || ||||  |  || || |   ||| |  |   |  |||  || || |||||| || || |||
AAAGTATTCGAATGCCTACATGCTTGTCTATATTCGTGAGAGCGACAAGGATAAAATAATGTGTAATGTTGATGAAAAGGACATCGCTGAGCATTTGCGGgtaagta--tcatgcatattct-cctaccttcctattcagtattttatacatttttcaggtgttttgagggaattcaactgtgctcttgcag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtag---ttctggtatactttgtccccttttctatgta---tcatcttgtgtttttgttggagatag-tgattgatt--gaactgttcttttacag
 || ||||||||||| || ||||| || |||||||||||   ||||||||| ||| |||| || ||||| ||||| || || |||||||| |||||  ||||||||     ||||    ||| |  |   ||| |  || ||   | |  |||     |   || |||| | | ||| |||   |  |   | |   | |
CAAATATTCAAATGCTTATATGCTGGTGTATATACGTGAAGCTGACAAGGACAAAGTAATATGCAATGTGGATGAAAAAGACATTGCTGAACATTTAAGGgtaagtgactattcttacgtacatgtttgtcttctgcatttaaatttaatttgctaaataaatgcagatggctaatttattttaagataagcatgctctg

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA14G04890.1 (Glycine max), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag-------------
 || ||||||||||| || ||||| || |||||||||||   ||||||||| ||| |||| || ||||| |||||||| || |||||||| |||||  ||||||||   | |    | ||| || |  ||   | |  ||||      ||         | ||  |  |    || | |    ||| ||               
CAAATATTCAAATGCTTATATGCTGGTGTATATACGTGAAGCTGACAAGGACAAAGTAATATGCAATGTGGATGAGAAAGACATTGCTGAACATTTAAGGgtaagtgactgt----tccttggtacttttgggtttaaatcaagccaagtcgaatagctacatgtttgtcttctgtatttaaatttaacttgctaaacaaatgc

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA10G23680.1 (Glycine max), 5'ss of exon 9

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttgg----agatagtgattgattgaactgttcttttacag-----
|||  | || ||||| || |||||||||||| ||||||||| |||||||||||||||||| |||||||| || |||||||| |||||||| ||  |  | |||||  |||    |      ||||   || | | |        |||  ||||||||      | || || |||   | || |   | |   |       
AAAACACTCGAATGCATATATGCTTGTCTATGTACGTGAGAGTGACAAGGATAAAATAATTTGTAATGTGGACGAGAAGGACATTGCTGAACACCTTAGAgtaagacgtttgaatcattgatgtcatattcttttttggcttaattgaatttttgttcacttaatattgtcatttggtaaattccccctcacccccaccc

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagta---gttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag-------
 ||||| |||||||| || |||||||| ||||||||||| | ||||||||| ||||| || || ||||| |||||||| || ||||| |  |||||  ||||||| |   |||||  | ||| ||     ||     |  |   | |    |||        | ||  |  ||     |   |||   |   |        
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttaggactccgaaagatgcaagccca-gttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag
||| || || ||||| ||||||||||| ||||| || || | |||||||||||| ||||| || || || |||||||| || ||||| || |||||||||||||| | |||   || ||   ||   | ||| ||  | ||    || | ||||| |        ||||| |   || |  |   |  |||
AAAATACTCGAATGCATACATGCTTGTTTATATTCGGGAAAGTGACAAGGATAAGATAATCTGCAACGTTGATGAGAAAGACATTGCGGAACATTTGCGGgtaagaaattcatatacacgg-gttttcctttttacctgtc----tg-gattttgct--------tgattcagctaattacttcctaccag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag
|||||| || ||||| ||||||||||| ||||| || || | |||||| ||||||||||| || || || |||||||| || || || || |||||  ||||||    || | |   | |||     |||     | |||    ||| || || |||  |  |  |  || |||  | |     || ||||
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcatttt-----cttagtagtttat----ttgcgtcttggttttacctgatcgttcattacatt-----ttgacag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaag-tagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttgga-gatagtgattgattgaactgttcttttacag
 |||||||||||||| |||||||| || ||||||||||| | ||||||||| |||||||| || ||||| ||||||||||| |||||||| ||| | |||||||| |  | ||  || | || |||   |||  |   |   || |    |||| | || | ||      || |||  | ||   |    |||
GAAGTATTCAAATGCATACATGCTGGTGTATATACGTGAAAGTGACAAGGACAAAATAATTTGCAATGTGGATGAGAAGGACATTGCTGAACATCTCCGGgtaagattctgctattacatttagtcaattttatttcttcaaatttctatttttggatgcatgactagagttcattcca-tggcttgcaccag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv13s0073g00610.t01 (Vitis vinifera), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggag--atagtgattgattgaactgttcttttacag
||| || |||||||| ||||||||||| ||||||||||| | ||||||||| |||||||| |||||||| || ||||||||||||||||| ||  |  | |||||  |||    | ||  |  |    |    | |  |   |  |||  |||   | ||    || |||    || |  | || | || |||
AAAATACTCAAATGCATACATGCTTGTGTATATACGTGAAAGTGACAAGGAGAAAATAATTTGTAATGTGGACGAGAAGGATATTGCTGAACACCTTAGAgtaagatgtttatttgtaaatactgagttgagttcttcaaacttctgttctttcaatagaattgtattgagcactttagttattatattccag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 13

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactt-tgtccccttt-------tctatgtatcatcttgtgtttttgt-tggagatagtgattgattgaactgttctt-ttacag
 || || |||||||| ||||||||||| ||||||||||| | ||||||||| ||||| || |||||||| ||||||||||| |||||||| ||  |  ||||||    ||  | | || || |        |       | |    ||   | ||||| |   | ||  |||   || |||         |||  |  |||
GAAATACTCAAATGCATACATGCTTGTGTATATACGTGAAAGTGACAAGGAGAAAATCATTTGTAATGTGGATGAGAAGGACATTGCTGAACACCTTAGGgtaaaacatttggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccag

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|5740126|gb|AI947816.1|AI947816

EST:     ATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGG                         ATAAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCACAAG
genomic: ATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagtt ... tcttttacagATAAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCACAAG

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: 419

AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagtt ... tcttttacagATAAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCACAAGAAGAAGGAGAAGTCTGAAGCTCATCTCTACACTATCATAAAG

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 353

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 261