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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaatcatttcttctaatattattcagaaaaaacttttcacagttctttagactgcacaatgcaatggaaataatcaattctaccagtacgtcttcagtcttcactaacttgtgatttggtaaaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGTTATTTCCCACCAG

Basic information

species Oryza sativa
transcript LOC_Os05g07130.2
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g07130.2 (Oryza sativa), 3'ss of exon 20
lower sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 19
gtttaatc-atttcttctaatattattcaga-aaaaacttttcacagttctttagac-tgcacaatgcaatg--gaaataatcaattct----------accagtac-gtcttcagtcttca------------ctaacttgtgatttggtaa-aatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGTTATTTCCCACCAG
||  || | ||   ||||||  |||| |||| ||||| | | || |||| |||   | |    || |   ||  |   || |   || |          || |  || |  ||||||   |             |||||   |||| |  ||| || ||| || |||||||| || ||||| ||||||||||||||||| |||||||| || || || || || |||
gtaaaaactatagtttctaa--ttatacagacaaaaaatctccatagtttttttttcctaagaaaagtcgtgctggtttacttggtttttgtctgtcaaactatgacagatttcagttcccgtgtaactataccctaacagctgatgtcataataacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGTCATATCTCATCAG
















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|58611022|gb|CK038734.1|CK038734
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|86850852|gb|CI338828.1|CI338828
EST:     ATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGGACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCACGTAGTCG
genomic: ATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCA-GTAGTCG
EST: gi|29629510|gb|CB634519.1|CB634519
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|29616012|gb|CB621024.1|CB621024
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|16578926|gb|BI813021.1|BI813021
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGCGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|86838836|gb|CI330278.1|CI330278
EST:     ATCGATACCCCCGTGGAGAATCTTACATTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGGTCG
genomic: ATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTA-GTCG
EST: gi|29612782|gb|CB617795.1|CB617795
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|29615977|gb|CB620989.1|CB620989
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|86853669|gb|CI330520.1|CI330520
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGGTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|88844562|gb|CI020409.1|CI020409
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCG
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGG-AACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCG
EST: gi|29615975|gb|CB620987.1|CB620987
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|29616052|gb|CB621064.1|CB621064
EST:     TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
genomic: TTAAGATATCGATACCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT
EST: gi|86869030|gb|CI335597.1|CI335597
EST:     CCCCCGT-GAGAATCTTACCTGGATGTGATTCAGAG                         ACTGGAACCTGTTATCATTGAGCTA-AACGCCAGCGAGCACCACTAGTCGT
genomic: CCCCCGTGGAGAATCTTACCTTGATGTGATTCAGAGgtttaatcat ... aaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctaccagtacgtcttcagtcttcactaacttgtgatttggtaaaatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGTTATTTCCCACCAG
                         cactaac  putative branch site (score: 1)
                                                tcctc  putative PPT
                                           taaaat  TA-rich tract