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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatacctgcttcgttcttttcaatggttatgtccacttgtctggaaaggggaaaatcatgcggattgccttattttcccgttgtagGTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGTTTTCTGGACGACATTCACTGCCCTGTTCAAGTATATGAACTCCCTAGAT

Basic information

species Oryza sativa
transcript LOC_Os11g23790.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g23790.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G079452_T02 (Zea mays), 3'ss of exon 8
gtgagatacctgc---ttcgttctttt-------caatgg-ttatg-tccacttgtctg-gaaaggggaaaatcatgcggattgccttattttcccgttgtagGTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGTTTTCTGGACGACATTCACTGCCCTG--TTCAAGTATATGAACTCCCTAGAT---
||||||  | | |   | | ||||||         | ||| ||||  || |||  | |  |  |      | |     || ||| | ||||||| | || ||||||||||| |||||||| || |||||||||||||||||||||||    |||| || ||      |||||||   |   ||  |  ||| ||| |     | |   
gtgagaaccttaccggtccattctttgactgatatattggcttataatctactcttgtatgccaaacatgactggcatggtttgacctattttctcattttagGTACATCAGACAACACTCAAAATTCTTCAGGAAATGGCCTTCTAGCATTGTTATCAGGG-----TTCACTGATATAGTTTGTAACATAAGAAGTATAATGCTGCA
















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|87018909|gb|CI256794.1|CI256794
EST:     GTATATATGCAAACAACACATCTGGCATTACAGCACAACATCTAGAATGG                         GTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGT
genomic: GTATATATGCAAACAACACATCTGGCATTACAGCACAACATCTAGAATGGgtgagatacc ... cccgttgtagGTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGT
EST: gi|88216323|gb|CI216172.1|CI216172
EST:     GTATATATGCAAACAACACATCTGGCATTACAGCACAACATCTAGAATGG                         GTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGT
genomic: GTATATATGCAAACAACACATCTGGCATTACAGCACAACATCTAGAATGGgtgagatacc ... cccgttgtagGTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGT
EST: gi|86841245|gb|CI342970.1|CI342970
EST:     GTATATATGCAAACAACACATCTGGCATTACAGCACAACATCTAGAATGG                         GTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGT
genomic: GTATATATGCAAACAACACATCTGGCATTACAGCACAACATCTAGAATGGgtgagatacc ... cccgttgtagGTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccacttgtctggaaaggggaaaatcatgcggattgccttattttcccgttgtagGTACATCAAACAACACTGAAGATTCTTCAGGAAATGGCCTTCTAATGCTGTTTTCTGGACGACATTCACTGCCCTGTTCAAGTATATGAACTCCCTAGAT
                                 ttgccttattttccc  CT-rich tract
                                      ttatttt  TA-rich tract