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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagaagattgcagttaatctgtgtaatgactaaatggtaaatgctttaccataatttcttcgtatacatcaactgaatttattttaaatgtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG

Basic information

species Zea mays
transcript GRMZM2G124965_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124965_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g08760.2 (Oryza sativa), 3'ss of exon 1
---tcagaagattgcagttaatctgtgtaatgactaaatggtaaatgctttaccata-atttcttcgtata-catcaactgaatttattttaaatgtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
   ||      || || | |||||  ||  |||     ||   ||  |  || |||| |  |  | ||  | |||| | || | | || ||   | |  || |||| ||||||||| |||||||| || ||||||||||||||||||||||| ||||| || |||||||||||||||||||||| ||| |||||||| |||||||
atttcctgtcttttcaatgaatctacgtt-tgat---gtgaccaaatcaatagcatataggttatagtgcaacatctaatggactgatcttcctt-tgcttgtagGTGGGACCTATCATGTACTGTAGTCGCACTATTTTTGAGGATGCTACTCCTGAGCTTGTTAGAGATTTCTTCTGGGATGATGAATTTCGTCTGAAGTGGG

upper sequence: GRMZM2G124965_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv05s0020g04870.t01 (Vitis vinifera), 3'ss of exon 2
tcagaagattgcagttaatctgtgtaatgacta-aatggtaaatgctttaccataatttcttcgtatacatcaactgaatttattttaaatgtaatttta---gGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
   |    |    ||   | |||||| ||   | |||  | ||| ||  |   ||   |     || |  |||   | |     |     |||   ||||   | | || || |   ||||  | ||| | ||| | ||||||||||| || || ||  |||||||||||||||||||||||| ||| ||| | |  || ||||
---gtgtgtgtgtgtgtgtgtgtgtattgtgcataattttcaattctc-attgtagactgaagataaaattcattagtaaccgataatggtgtttctttatcagAATGGCCCCACTGTGTATCGTAGCAGAACTGTATTTGAGGATGCAACTCCCGAGGTGGTTAGAGATTTCTTCTGGGATGATGAGTTTAGACCTAAATGGG
















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|149083327|gb|EE172619.2|EE172619
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|71769408|gb|DR967345.1|DR967345
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|149111705|gb|EE190850.2|EE190850
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|149106183|gb|EE291871.2|EE291871
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|91055562|gb|EB165980.1|EB165980
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|71437018|gb|DR818068.1|DR818068
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|78083626|gb|DV512019.1|DV512019
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|148954197|gb|EC899605.2|EC899605
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|94472323|gb|EB701281.1|EB701281
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|32942520|gb|CF047339.1|CF047339
EST:     ACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAAT-TACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: ACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|31354728|gb|CD439085.1|CD439085
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|93017144|gb|EB642664.1|EB642664
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|91054396|gb|EB164814.1|EB164814
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|76015844|gb|DT943014.1|DT943014
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCT
EST: gi|86469996|gb|DY236366.1|DY236366
EST:     AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGC
genomic: AGCGTACAACCTCCAACATGACCTACAAGGCCTGGCGGCGTGAGCCTGAGgtttgtcttt ... gtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaccataatttcttcgtatacatcaactgaatttattttaaatgtaattttagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACACCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
                  tatacatcaactgaat  TA-rich tract