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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactttcaatgcttggttcgttcctccttttgtggttttatggatggctatttctcttttagttagtagcctttatattacaacgacatatttgc...

Basic information

species Oryza sativa
transcript LOC_Os12g30020.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g30020.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G115670_T01 (Zea mays), 5'ss of exon 2
GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagt-actttcaatgcttg--gttcgttcctccttttgtggttttatggatggctatttctcttttagttagtagcctttatattacaacgacatatttgc
||| ||||| || |||||||||||||  || |||||||||||||||| ||||||||| ||||||||||| ||||||||||||||||||  | ||| |||| |   | | |||     |||    | ||    || |  |   |     |||     | |   |  ||| ||      | |||   
GCCCCAAGTGACGATTGCTACAGCTACGGTATTCTGTCACCGTTTTTTCCTTCGTCAATCCCATGCAAAGAATGATAGACGAgtaagttgcgttcgatgcctatagctagttttgtttttcaatgattgtctgaagttttccttcggcttataggttcgtaatcgtatcactttagaaaatt---

upper sequence: LOC_Os12g30020.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G377311_T01 (Zea mays), 5'ss of exon 3
GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactttcaatgcttggttcgttcctccttttgtggttttatggatggctatttctcttttagttagtagcctttata-ttacaacgacatatttgc---
||| ||||| || ||||| ||||| || || |||||||| ||||||||||||||||| |||| ||||||||||||||||||||||||    |  ||| |   | | ||  ||  |||||    |  |||| || | |  | || ||||     ||    |||||  | ||  | ||||    |   
GCCCCAAGTGACGATTGCCACAGCAATGGTATTCTGTCATCGTTTTTACCTTCGTCAATCCCTTGCAAAAAATGATAGACGAgtaag----tctaattcgatgattgtctctagttttggttgtccatggttgccaacatttcctttaagctttataagttataactgcattgccatagaaacttt

upper sequence: LOC_Os12g30020.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G377311_T03 (Zea mays), 5'ss of exon 2
------------------GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactttcaatgcttggttcgttcctccttttgtggttttatggatggctatttctcttttagttagtagcctttata-ttacaacgacatatttgc---
                  ||| ||||| || ||||| ||||| || || |||||||| ||||||||||||||||| |||| ||||||||||||||||||||||||    |  ||| |   | | ||  ||  |||||    |  |||| || | |  | || ||||     ||    |||||  | ||  | ||||    |   
TACCTGTGCTGTTTTTAGGCCCCAAGTGACGATTGCCACAGCAATGGTATTCTGTCATCGTTTTTACCTTCGTCAATCCCTTGCAAAAAATGATAGACGAgtaag----tctaattcgatgattgtctctagttttggttgtccatggttgccaacatttcctttaagctttataagttataactgcattgccatagaaacttt

upper sequence: LOC_Os12g30020.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 5'ss of exon 2
GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactttcaatgcttggttcgttcctccttttgtggttttatg-gatggctatttctcttttagttagtagcctttatattacaacgacatatttgc------
||| || || || ||||||||||| ||  | || ||||||||||| | ||||||||| ||||||||||| ||||| ||| | || |||   ||  || |||   |      |  | |     || |||  ||| | ||||||    |   |  ||  ||  || |||| || |    |||         
GCCCCAGGTAACAATTGCTACAGCAATCATATTTTGTCACCGTTTCTTCCTTCGTCAATCCCATGCAAAGAATGACAGAAGGgtgagtctatttgattctt---ttacaaattatatcaattttctatctgattgatatttccagctggat--gtgaccaata-attagaaaggt-cattgatcatatg

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|86904853|gb|CI310646.1|CI310646
EST:     TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA                         ACAATTGCCACAGTTAGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
genomic: TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactt ... gttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
EST: gi|58668632|gb|CK057318.1|CK057318
EST:     TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA                         ACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
genomic: TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactt ... gttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
EST: gi|33674887|gb|CF303126.1|CF303126
EST:     TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA                         ACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
genomic: TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactt ... gttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
EST: gi|33675720|gb|CF303959.1|CF303959
EST:     TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA                         ACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
genomic: TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactt ... gttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
EST: gi|58656723|gb|CK045403.1|CK045403
EST:     GTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA                         ACAATTGCCACAGTGTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
genomic: GTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactt ... gttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
EST: gi|29677818|gb|CB674093.1|CB674093
EST:     TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA                         ACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT
genomic: TCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGAgtaagtactt ... gttcttacagACAATTGCCACAGTTTGCATGTTCTTGGCTGGAAAAGTTGAAGAGACGCCT