ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
PPT, BS, UA-tract

Sequence

atgc intronic sequence ATGC exonic sequence

gtaacattgctgccaaatgttgctcatatgcttaaattattattggtatttcactttattaacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC

Basic information

species	Glycine max
transcript	GLYMA04G40750.2
intron #	6
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 5

gtaacattgctg---ccaaatgttgctca-tatgcttaaattat-tattggtatttcactttattaacggtgttatgcctac-----agAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
|||| ||  |     ||||   |   ||| | ||||||   | | || |||   | || |||||  |  |    |   | |      ||| ||||||||||||||| |||  ||||| || | ||||||||||||||| ||  | |  || ||||| |||||||||||||||||||| ||||||  |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgagtgaaaaacatcgatgtccaagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACATGCTTGGATATTATCCTGTCAATGTTCTACCGTCAAAAACTGCCATTGCACCAGTCAATGAAAC

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G132286_T01 (Zea mays), 3'ss of exon 3

gtaacattgctg---ccaaat-gttgctcatatgcttaaattat-tattggtatttcactttattaacggtgttatgccta-----cagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
|||| ||  |     ||||   | |    || ||||||  || | || ||    | |  || |||         |   | |     |||| ||||||||||||||| | |  ||||| || || ||||| |||||||| ||  | || || || || |||||||||||||||||||| |||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccatgttccagAGGGTGCAAGGGCTGCTCTAAATCTGTCAGGAACTATGCTCGGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G456149_T01 (Zea mays), 3'ss of exon 6

gtaacattgc--tgccaaatgttgctc--atatgcttaaattat-tattggtatttcactttatt-----aacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
|||| ||  |  |  | ||   || |   || | ||||   | | || |||   | |  |||||      ||     |        |||| ||||||||||||||| |||  ||||| || |||  |||||||||||| ||| | |  || || || |||||||||||||||||||| |||||   |||
gtaatatatccatatccaacaatgtttcaatttacttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGAGCTTGGATATTATCCAGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2

gtaacattgctg---ccaaatgttgctca-tatgcttaaattat-tattggtatttcactttatt-----aacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
|||| ||  |     ||||   |   ||| | ||||||   | | || |||   | || |||||      ||     |        |||| ||||||||||||||| |||  ||||| || | | ||||||||||||| ||  | |  || ||||| |||||||||||||||||||| |||||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G036634_T01 (Zea mays), 3'ss of exon 13

gtaacattgctg---ccaaat-gttgctcatatgcttaaattat-tattggtatttcactttattaacggtgttatgccta-----cagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
|||| ||  |     ||||   | |    || ||||||  || | || ||    | |  || |||         |   | |     |||| |||||||||| |||| |||  ||||| || ||  ||||  ||||||| ||  | || || || || |||||||||||||||||||| |||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccatgttccagAGGGTGCAAGGGTTGCTCTGAATCTGTCAGGAACTGTGCTCAGATATTATCCTGTCAGGGTTCTGCCATCAAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 3

gtaacattgctg---ccaaat-gttgctcatatgcttaaattat-tattggtatttcactttatt----aacgg-tgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
|||| ||  |     ||||   | |    || ||||||  || | || ||    | |  || |||    || |    |  |   | |||| ||||||||||||||| |||  ||||| || ||  |||| |||||||| ||  | || || || || || ||||||||||||||||| |||||||||||
gtaatatatccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccttgttccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACTGTGCTCGGATATTATCCTGTCAGGGTTCTGCCATCGAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 5

gtaacattgctg---ccaaatgttgctca-tatgcttaaattat-tattggtatttcactttattaacggtgttatgccta-----cagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC-------------------------------------------------------------------------------------
|||| ||  |     ||||   |   ||| | ||||||   | | || |||   | |  |||||     |    |   | |     |||| ||||||||||||||| |||  ||||| || ||| ||||||||||||| ||  | |  || ||||| ||||||||||| |||||||| |||||   |||                                                                                     
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagagggtgcaagggctgctctgaatctgtcaggaaccgtgcttggatattatcctatcaatgttctaccgtcaaaaactgc-attgcaccagTCAACGAAACATTCCTACCCAGGGTATGCAAACCTTCCGGAACCAACATGCTTGTCTTAAGTTCATGGCTCAATGTTCATGCTCTATCTGATATG

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5

-------------gtaac-attg-ctgccaaatgttgctcatatg----cttaaattattattggtatttca--ctttattaacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC
              ||||  ||| | |    |||| || |||       |||   | |  |||| | ||| |    | ||||||  |  | ||| | ||||||| ||  |||||||| ||||  || | || || |||||||| ||||| ||| ||||||||||||||||||||||||| |||||||| || || |||||
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC

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|7285563|gb|AW598050.1|AW598050

EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|9203628|gb|BE329852.1|BE329852

EST:     AGATCCTAACTCTATTCTTCNATTTGCCTTCGTTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|105634386|gb|DW247535.1|DW247535

EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGT
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGT

EST: gi|193540284|gb|FK494802.1|FK494802

EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|58018945|gb|CX705687.1|CX705687

EST:     GATTTGCTTTCGTTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: GATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|208205444|gb|GE004889.1|GE004889

EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTCCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|58019174|gb|CX705916.1|CX705916

EST:     TTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: TTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|151412507|gb|EV282319.1|EV282319

EST:     AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: AGATCCTAACTCTATTCTTCGATTTGCCTTCGTTGAGTTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

EST: gi|193371147|gb|FK337388.1|FK337388

EST:     TTCACAGATGATG                         AAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC
genomic: TTCACAGATGAAGgtaacattgc ... atgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACC

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

catatgcttaaattattattggtatttcactttattaacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC

                                tattaac  putative branch site (score: 1)
       ttaaattattattggt  TA-rich tract

Data associated with selected splice site

Sequence

Basic information

Orthologous splice sites

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments