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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactatagaatttgaagacgtgtggtcggtggattgctcaattcttcactgtttttgatggagacatcagcagtacttttatactattactctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTCTACCACTACCTGAATCACTACAATCTCTTTGGCTCTGGCTACCGTTCAT

Basic information

species Zea mays
transcript GRMZM2G030299_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030299_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g02640.1 (Oryza sativa), 3'ss of exon 8
tactatagaatttgaagacgtgtggtcggtggattgctcaattcttcactgtttttgatggagacatcagcag------------tacttt-tatactattactctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTCTACCACTACCTGAATCACTACAATCTCTTTGGCTCTGGCTACCGTTCAT
                | ||  ||| |    |||| |||||||||| |||  |  |  |   || ||  | ||            || ||| |   ||| |   ||||| ||||||||||||||||||||||| |||||||||||||||||||| ||||| || |||||||| ||||| ||||||||||| |||||||| || ||||| ||||
-------------tctgtcggatggactacagattactcaattctttactactagtagtatggaaatttggagggtgtaaatgggtagtttatgctctactctgctgattcagGTGATGCCGAAACAGCCAGGCTTTGAGAAGAGGAGGGACCTGTATCTTCTGTACCACTATCTGAACCACTACAATCTTTTTGGCTCCGGGTACCGCTCAT

upper sequence: GRMZM2G030299_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA03G01960.1 (Glycine max), 3'ss of exon 8
-tactatagaatttgaagacgtgtggtcggtggattgctcaattcttcactgtttttgatggagacatcagcagtacttttatactattactctga-tacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTCTACCACTACCTGAATCACTACAATCTCTTTGGCTCTGGCTACCGTTCAT
 | |  ||   ||  ||||       ||   | ||||        |      | |  | |  | |||       |    | ||| | | |       | ||||||||||| || |  ||||| |||||| ||||||| ||||| ||| | || || |||||  | ||||| |||||||||||||| ||||| ||||| || |
ttgcctta--tttcaaagaaacacaatcttggtattgaattgccatgtgaaatgtcagtttcatacaatcattttctgataataatttcaaatgatctgcagGTGATGCCTAAGCTACCAGGCTTTGAGGAGAGGAGAGACCTTTATATGCTGTATCACTATTTAAATCATTACAATCTCTTTGGTTCTGGATACCGATCTT

upper sequence: GRMZM2G030299_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G08570.1 (Glycine max), 3'ss of exon 13
---tactatagaatttgaagacgtgtggtcgg----tggattgctcaattctt-cactg--tttttgatggagacatcagcagtacttttatactattactctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTCTACCACTACCTGAATCACTACAATCTCTTTGGCTCTGGCTACCGTTCAT---
   | | |   || || | ||  |  ||| ||    || | ||     ||| | || |   ||| |||| |  |  |||     | ||| | |   |  ||     |||||||||||| ||||||||||| |||||||   |||| ||||| ||| | || || |||||  | ||||| || ||||||||||| || || ||||| || |   
tgtttcaaagaaacttaatgatattgggttggcatgtgaaatgtcagtttcatacaataattttctgatagttatgtca-----attttcaaatggtctct-----acagGTGATGCCTAAACAGCCAGGCTTTGAGA---GGAGAGACCTTTATATGCTGTATCACTATTTAAATCATTATAATCTCTTTGGTTCCGGATACCGGTCTTCAG

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|60337252|gb|DN204225.1|DN204225
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|76283912|gb|DV023480.1|DV023480
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|149108778|gb|EE189830.2|EE189830
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTTTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|4688403|gb|AI637073.1|AI637073
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|60348350|gb|DN215323.1|DN215323
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|76288116|gb|DV027684.1|DV027684
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|78544199|gb|DV621697.1|DV621697
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|211523349|gb|FL468083.1|FL468083
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
EST: gi|76283911|gb|DV023479.1|DV023479
EST:     TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAG                         GTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC
genomic: TGTCCTGGTGTGCTGGATTTGGTGGGGACTTCTACAACGCCTATTTTCAGgtacccatta ... tctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcactgtttttgatggagacatcagcagtacttttatactattactctgatacagGTGATGCCGAAACAGCCAGGGTTTGAGAAGAGGAGGGACCTCTATCTCCTCTACCACTACCTGAATCACTACAATCTCTTTGGCTCTGGCTACCGTTCAT
                                            ctctgat  putative branch site (score: 4)
                                         ttactct  CT-rich tract
                            tacttttatactatta  TA-rich tract