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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctttttaatcaccatgtatcatgctcgtatctgtggaaaaaggaagaggtaaactttaattatttttaactgaattctcttttcctttgttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTGTTGGCTGCAAGGGATGCTTGCCTTGAGATAAGGCTTCACATGCGAGAGA

Basic information

species Zea mays
transcript GRMZM2G030839_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030839_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g14830.1 (Oryza sativa), 3'ss of exon 8
cctttttaatcaccatgtatcat-gctcgtatctgtggaaaaaggaagagg--taaactttaattatttttaactgaattctcttttcctttgttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTGTTGGCTGCAAGGGATGCTTGCCTTGAGATAAGGCTTCACATGCGAGAGA
 ||| ||  ||    | |||||      | ||||||| |    | |||||   |   |||| | || | |   || ||  || || || ||||||||    ||||| ||||||||||||| || |||||||||||| ||||| | ||||||||  |||| ||||| ||||||| |||||| ||||||||||| ||||||||||
-cttcttgttcttagt-tatcaccaggtgcatctgtgaatttggaaagagaactcgtctttcagtactatatgctaaaaccttttctc-tttgttcttgcaagTGGACAGAGGTGGCTACCAATCAACATCAAGAACTAATTGTTAGATCATTACTGGCCGCAAGAGATGCTTTCCTTGAAATAAGGCTTCATATGCGAGAGA
















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|31664552|gb|CD573485.1|CD573485
EST:     AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAG                         TGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
genomic: AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
EST: gi|93281730|gb|EB673994.1|EB673994
EST:     AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCCTCTCACATATGGGAAG                         TGGGCAGAGGTGGCTACTAACCCACATCAAGA-TTAATTATA
genomic: AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATA
EST: gi|78021524|gb|DV489911.1|DV489911
EST:     AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAG                         TGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
genomic: AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
EST: gi|6020336|gb|AW065264.1|AW065264
EST:     AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAG                         TGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
genomic: AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
EST: gi|93281729|gb|EB673993.1|EB673993
EST:     AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAG                         TGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
genomic: AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
EST: gi|211002004|gb|FL458771.1|FL458771
EST:     TCACATATGGGAAG                         TGGGCAGAAGTGGCTACTAACCCAACATCAAGAATTATTTATAAGATCATT
genomic: TCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAA-CCAACATCAAGAATTAATTATAAGATCATT
EST: gi|31664553|gb|CD573486.1|CD573486
EST:     AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAG                         TGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG
genomic: AAGCATATGAGTCCATGGTGAGGTCCTGTAGTCGTCTCACATATGGGAAGgtaactatgt ... ttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaggtaaactttaattatttttaactgaattctcttttcctttgttctctgcagTGGGCAGAGGTGGCTACTAACCAACATCAAGAATTAATTATAAGATCATTGTTGGCTGCAAGGGATGCTTGCCTTGAGATAAGGCTTCACATGCGAGAGA
                   ttttaac  putative branch site (score: 2)
                              ttctcttttcctttgt  putative PPT
     taaactttaattattt  TA-rich tract