ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CTGAAAGACATTGGAGCATGTAACTTACTGGTGGAACTTGATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaacacacaacacataatctgaatataaacgcacatgatcctactagttctgttttcacaatctaacaactctttgcaaactgacag

Basic information

species	Zea mays
transcript	GRMZM2G051262_T01
intron #	9
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G051262_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os01g11070.1 (Oryza sativa), 5'ss of exon 9

CTGAAAGACATTGGAGCATGTAACTTACTGGTGGAACTTGATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaacacacaacacataatctgaatataaacgcacatgatcctactagttctgttttcacaatctaacaactctttgcaaactgacag
|||||||||||||| ||||||| ||||||||||||||||||||| |||||||||||||| || || || ||||| ||||||||||||||||||  || |    ||  |  | ||     | | ||| | ||||   ||  |  | ||  |||  | |||| | || || ||  |||||  |||
CTGAAAGACATTGGGGCATGTAGCTTACTGGTGGAACTTGATCTTAGACGGCCTTACCCATCCCGAGGAAGTGATTTGTCGACATGGGAGgtaattccatgttcacaatttcattcatttgttaactctcatg--tctgttt-tcctacttttgccatctgataattcgtt-taaactc-cag

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|78083697|gb|DV512090.1|DV512090

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTCCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|91054949|gb|EB165367.1|EB165367

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|19769978|gb|BQ034699.1|BQ034699

EST:     GGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCGCTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: GGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|76281864|gb|DV021432.1|DV021432

EST:     CCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: CCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|60395015|gb|DN227884.1|DN227884

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|149100384|gb|EE186456.2|EE186456

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|149109611|gb|EE293398.2|EE293398

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|19769471|gb|BQ034192.1|BQ034192

EST:     GTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: GTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|71772096|gb|DR970033.1|DR970033

EST:     CCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: CCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|78543976|gb|DV621474.1|DV621474

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|19769334|gb|BQ034055.1|BQ034055

EST:     CTAAGACGGCCTTACCCCTCGCGCGGGAGTGTCTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: CTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|9731913|gb|BE510665.1|BE510665

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|94477519|gb|EB706477.1|EB706477

EST:     ATTTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|37389107|gb|CF631771.1|CF631771

EST:     CCCTCGCGCGGGAGTGACTNGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTTCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: CCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|60352444|gb|DN219417.1|DN219417

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|6538807|gb|AW224946.1|AW224946

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

EST: gi|211283929|gb|FL480867.1|FL480867

EST:     ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAG                         GCATTGGCCGHACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT
genomic: ATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATAT

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: 93

CTGAAAGACATTGGAGCATGTAACTTACTGGTGGAACTTGATCTAAGACGGCCTTACCCCTCGCGCGGGAGTGACTTGTCGACATGGGAGgtagatcaac ... aaactgacagGCATTGGCCGCACTGCCGTTCCTGGACAGAGAGCTTTCCCCTGCATTATATCGGTCCTTCTTCATACCATACCGATGGCAACAAAACAATGTGTTCGGCC

Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 26

Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 50