ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

AGGTGGCTGTCCTTGTTCTACGTCCCGACACTGGTCGTGCTGCCGCTCGCCGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatgagtccttttcatcgcgtatatatatatatatgctgtcgggatcttctgtgctagccgttatgtttagctattcatgggatgtgaaactactttttcag

Basic information

species	Zea mays
transcript	GRMZM5G873519_T01
intron #	2
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM5G873519_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g32830.2 (Oryza sativa), 5'ss of exon 2

AGGTGGCTGTCCTTGTTCTACGTCCCGACACTGGTCGTGCTGCCGCTCGCCGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatgagtccttttcatcgcgtatatatatatatatgctgtcgggatcttctgtgctagccgttatgtttagctattcatgggatgtgaaactactttttcag---
||||||||| || | |||||||||||  | |||||||| ||||||||||||||| ||||  | || || || || ||  |||||||| |    |||| ||||||| |          |||   ||    |||   |  ||||  || |   ||||| |  |   | | ||  |    |  | ||  | |  |   || |||  || |   
AGGTGGCTGCCCCTCTTCTACGTCCCTTCCCTGGTCGTCCTGCCGCTCGCCGTCAGGGACGTCCCGGCTGCTTCCGGCCTCAAGATCTTCCTCATCATTTgtatgcaca--------tcactacgctcctatcgttgcatgcattctgctacttctttcttcctcctgatcatcg--tgcttatctgctccgcctctgcttcctccggat

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|78076172|gb|DV504606.1|DV504606

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA

EST: gi|74234749|gb|DT642663.1|DT642663

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGC
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGC

EST: gi|149099738|gb|EE185791.2|EE185791

EST:     GTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGNCA-TCACTT                         TTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCC
genomic: GTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTG-CAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCC

EST: gi|211339842|gb|FL096305.1|FL096305

EST:     GTCGGGGATATTC-AGCGGNCTCAGGAATCAAGATCCTTGGCAATCACTT                         T-GGNGGGCTGGTTTGCTACCCTGACGGTGGCAGGAATATACAGTGT-AGC
genomic: GTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTG-CAATCACTTgtatgaatga ... actttttcagTTGGTGG-CTGGTTTGCTACCCTGACGGTGGCAGGA-TATACAGTGTTAGC

EST: gi|211337449|gb|FL096295.1|FL096295

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGGTGGCTGGGTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCC
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGG-TGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCC

EST: gi|211457241|gb|FL096396.1|FL096396

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGTGGCTGGGTTGCTACCCTGAACG-TGGCAGGATATACAGTGTTAGCC
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGA-CGGTGGCAGGATATACAGTGTTAGCC

EST: gi|211347036|gb|FL096350.1|FL096350

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGTGGCTGGTTTGCTACCCTGACGGT
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGT

EST: gi|76285948|gb|DV025516.1|DV025516

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA

EST: gi|211351847|gb|FL096379.1|FL096379

EST:     GTCGGGGATATTC-AGCGGCCTCCAGGA-TCAAGA-CCTTGCAATCACTT                         TTG-TGGCTTGGTT
genomic: GTCGGGGATATTCCAGCGGCCTC-AGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCT-GGTT

EST: gi|211349436|gb|FL096363.1|FL096363

EST:     GTCGGGGATATTC-AGCGGCCTCAGGAAATCA-GATCCNTGCAATCACTT                         TTGGTGGCTGGGTTGCTACCCTGACGGTGGCAGG
genomic: GTCGGGGATATTCCAGCGGCCTCAGGAA-TCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGG

EST: gi|211342240|gb|FL096324.1|FL096324

EST:     GTCGGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTTGGTGGGCTGGTT-GCTACCCTG
genomic: GTCGGGG-ATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTT-GGTGG-CTGGTTTGCTACCCTG

EST: gi|74241098|gb|DT649012.1|DT649012

EST:     CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTT                         TTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA
genomic: CGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA

EST: gi|211347026|gb|FL096340.1|FL096340

EST:     GTCCGGGGATATTC-AGCGGGCTCAGGAATCA-GATCCTTGCAATCACTT                         TTGGTGGCTGGGTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA
genomic: GTC-GGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCA

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 2 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 334

AGGTGGCTGTCCTTGTTCTACGTCCCGACACTGGTCGTGCTGCCGCTCGCCGTCGGGGATATTCCAGCGGCCTCAGGAATCAAGATCCTTGCAATCACTTgtatgaatga ... actttttcagTTGGTGGCTGGTTTGCTACCCTGACGGTGGCAGGATATACAGTGTTAGCCATGCGAAAACTCGTGAAGACAGAGCTTCTTGCACCATCGGAGCCCACGAA