ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

ATATGTAGGGCATTGGCTTACATTCATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctggaaaatctgctattttgctactgtatctttttgtaaagaaatgatttgtactttgaaattgatgttcaaacttcactacag

Basic information

species	Zea mays
transcript	GRMZM2G024151_T01
intron #	6
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G024151_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 5

ATATGTAGGGCATTGGCTTACATTCATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctggaaaatctgctattttgctactgtatctttttgtaaagaaatgatttgtactttgaaattgatgttcaaacttcactacag
|| ||||||||||| |||||||| |||   |  || || || |||||||||||||| |||||||| || ||||||||||||| |||  | || ||       |    |  |           | |  | |  |||||  ||||||||||  ||||||    |||
ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGAGATATCAAGCCACAGAATCTTCTGgtatgcttgaatgt-tgttacccattcatctcaaataccaccctcttatttctgta-actttataattgatgtttgaacttctaatcag

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|211165156|gb|FL324133.1|FL324133

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|61117965|gb|DN558926.1|DN558926

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|32849187|gb|CD988868.1|CD988868

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|61117964|gb|DN558925.1|DN558925

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|32849241|gb|CD988922.1|CD988922

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACANAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTA

EST: gi|116824535|gb|EC868155.1|EC868155

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|61117966|gb|DN558927.1|DN558927

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|5928717|gb|AW055934.1|AW055934

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|33097248|gb|CF057208.1|CF057208

EST:     ACTATCGGTGTCTGCCACAGAGATATTAAGCCACAAAATCTTCTG                         GTGAACCCACACACCCACCAGCTTAAAATATGTGACTTTGGTAGTGCAAAA
genomic: ACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|60349962|gb|DN216935.1|DN216935

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

EST: gi|32863940|gb|CF003622.1|CF003622

EST:     ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTG                         GTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA
genomic: ATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAA

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: 689

ATATGTAGGGCATTGGCTTACATTCATGGCACTATTGGTGTCTGCCACAGAGATATTAAGCCACAAAACCTTCTGgtatgctgga ... ttcactacagGTGAACCCACACACCCACCAGCTTAAACTATGTGACTTTGGCAGTGCAAAAGTTCTGGTCAAGGGGGAACCAAACATATCGTACATCTGCTCCCGATACT

Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 209

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 223