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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgggttgttccatttgccatttctactatatgtagtatcagcagcatatttgcaatgtcgagatgtgcaattttgttttttttcgtggtgcccatgtactcctgctgacactaaaattatcttgtcagTTTACACGCCGGAGCAGCTGATAGCAAAATACAGCAATTTGGTGTTTGTTCTTTATTGCATGTCATTGGTCTTTGTTGTTGCATTTAACCACTATCTCTA

Basic information

species Zea mays
transcript GRMZM2G144254_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144254_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 6
gtatgggttgttccatttgccatttctactatatgtagtatcagcagcatatttgcaatgtcgagatgtgcaattttgttttttttcgtggtgcccatgtactcctgctgacactaaaattatcttgtcagTTTACACGCCGGAGCAGCTGATAGCAAAATACAGCAATTTGGTGTTTGTTCTTTATTGCATGTCATTGGTCTTTGTTGTTGCATTTAACCACTATCTCTA
                              | ||| ||     | || || |||  |||||   |   |   |  || | || | ||  | | ||   ||     | ||||  | | ||| || |   |||||||||| |||||||||||  | || |||||||||||||| ||||||||||| |||||||||||| |||||||||| |||||||| || || ||||||||
----------------------------aaaaatggagggaggg-agtat-tttataatgtactgcaattttacgttatcttatctca-gttccctgagtgaatattctgatgccataatcatttcaacagTTTACACCCCGGAGCAGCTAGTTGCGAAATACAGCAATTTAGTGTTTGTTCTCTATTGCATGTCACTGGTCTTTGTGGTTGCATTCAATCAGTATCTCTA
















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|78022546|gb|DV490933.1|DV490933
EST:     AGTCTTTGGCAACATCTTCTTAGTATCCTTTGGCAACCATCAATCACCTG                         TTTACACGCCGGAGCAGCTGATAGCAAAATACAGCAATTTGGTGTTTGTTC
genomic: AGTCTTTGGCAACATCTTCTTAGTATCCTTTGGCAACCATCAATCACCTGgtatgggttg ... atcttgtcagTTTACACGCCGGAGCAGCTGATAGCAAAATACAGCAATTTGGTGTTTGTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttttttcgtggtgcccatgtactcctgctgacactaaaattatcttgtcagTTTACACGCCGGAGCAGCTGATAGCAAAATACAGCAATTTGGTGTTTGTTCTTTATTGCATGTCATTGGTCTTTGTTGTTGCATTTAACCACTATCTCTA
                                   cactaaa  putative branch site (score: 2)
                                           ttatctt  CT-rich tract
                                    actaaaattatctt  TA-rich tract