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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acctacatccttgtgaatttgtgattttgctttctaccgacattttgtattaggacatcagtattcagatgacgatctccatattttctgtaacatccagATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGCCCTATTCCATTTTCTCATAAGTTCCGTAATGCCGATCCTCTGGCTCTCC

Basic information

species Zea mays
transcript GRMZM2G374088_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G374088_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g04230.2 (Oryza sativa), 3'ss of exon 5
acctacatccttgtgaatttgtgattt-tgct-ttctaccgaca--ttttgtattaggacatcagtattcagatgacgatctcc---atattttctgtaacatc--cagATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGCCCTATTCCATTTTCTCATAAGTTCCGTAATGCCGATCCTCTGGCTCTCC
          |  || | ||||||||| |||| |||||   |||  | ||| |     |||| ||||||||    | ||| ||    ||||||  | ||||| |  |||||||  | ||| || ||||||| ||||||   |||||||| |||||| |  ||||| || |||||||||||||| | |||||| |||||||| ||| | |
---------gtaatgtaattgtgatttctgctattctaatcacatgtcttgcagagacacatgagtattcatgcaatgatttctttaatatttaatataacacctgcagATTCGTAATGAGAATGCCAGGGGATATTTAACTGGCATGCAGAGGAAACATCCTATCCCCTTTTCTCATAAGTTTCATAATGCTGATCCTCTCGCTTTGC
















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|60350752|gb|DN217725.1|DN217725
EST:     ACTTAATAACAGATCTCCTTGGAACACCATCGTTTAGATCCTTATCCCAG                         ATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGC
genomic: ACTTAATAACAGATCTCCTTGGAACACCATCGTTTAGATCCTTATCCCAGgtatgcgaac ... taacatccagATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGC
EST: gi|67024238|gb|CO452987.1|CO452987
EST:     ACTTAATAACAGATCTCCTTGGAACACCATCGTTTAGATCCTTATCCCAG                         ATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGC
genomic: ACTTAATAACAGATCTCCTTGGAACACCATCGTTTAGATCCTTATCCCAGgtatgcgaac ... taacatccagATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtattaggacatcagtattcagatgacgatctccatattttctgtaacatccagATTCACAGTGATAAGGCCAGGGAATATTTGCTTGGCATGCCGAGGAAGCGCCCTATTCCATTTTCTCATAAGTTCCGTAATGCCGATCCTCTGGCTCTCC
                                          ctgtaac  putative branch site (score: 3)
                                      ttttctgt  CT-rich tract
                                   atattttct  TA-rich tract