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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtatgcccatggttcttgttgttctaagaagataaattttgaaaaccagtcttacagaaccaaaaaaggaagagaaaagggtcagggtatatgcaaactg...

Basic information

species Zea mays
transcript GRMZM2G010044_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G010044_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g03260.1 (Oryza sativa), 5'ss of exon 5
TTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtatgcccatggttcttgttgttctaagaagataaattttgaaaaccagtcttacagaaccaaaaaaggaagagaaaagggtca--gggtatatgcaaactg---
|||||||||||||||||||||||| ||||| || |||||||||||||| |||||||||||||| ||||||||| |||||||||| ||||||||||| ||||||||   |  |||||  ||  ||       ||  | ||  || | ||| |||  | |   ||||  ||   ||| |  ||| |  | ||  ||   ||      
TTCTCATACATGCAATGCTGGAGCCTTTGGCCAATTTGCAACTGGAATTGGAAACACTGATGCTGGTTTTGTGATGGGCACTGGGAAGGCTCTTCTTAAGgtatgtagaaagttctgattactccgt----atcgaattcaaatatcagccttg-atagtaaaaagtggttcagatattggttagtgagttcatctgaatgatgt

upper sequence: GRMZM2G010044_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT4G13430.1 (Arabidopsis thaliana), 5'ss of exon 6
TTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtatgccca-----tggttcttgttgttcta-agaagataaattt---------------tgaaaaccagtc-------ttacagaaccaaaaaaggaagagaaaagggtcagggtatatgcaaactg-------------------------------------
 || || || || | ||||||||| |||||||| ||||| || || || |||||||||||||||||||||||||| |||||||||||    || || ||||| ||   |     || ||| | |  ||||  |  | |||  |||               || ||| ||||        || ||     ||||| |   |  | ||  ||       | | |||| |                                      
CTCACACACTTGTACTGCTGGAGCATTTGGTCAATTTGCTACAGGGATTGGAAACACTGATGCAGGTTTTGTGTTAGGCACTGGAAAAATCCTCCTTAAGgtttgtagaatagctgattcctttgattctctatgatatagttttattcagtgtgttaaatggaaatcagtgatgcctgtttcaacttgaaaaaggcttgttagaatagtttccccctctccaaattatactgtagtgtctgaagctcatatcctgacttcgcag

upper sequence: GRMZM2G010044_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv05s0049g01980.t01 (Vitis vinifera), 5'ss of exon 6
TTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtatgcccatggttcttgttgttctaagaagataaattttgaaaac--cagtcttacagaaccaaaaaaggaagagaaaagggtcagggtatatgcaaactg--
 || || ||||| | |||||| || ||||| ||||| || |||||||| || ||||||||||| | ||| || || ||||||||||||   || || ||||| |||  || ||| ||  | |      |   |    |||||  ||  |   |   || |     |    |       |      |    |||  ||   ||  
CTCCCACACATGTACTGCTGGGGCATTTGGCCAGTTCGCTACTGGAATAGGTAACACTGATGCTGCTTTCGTATTAGGCACTGGAAAGATCCTGCTGAAGgtttgcaaattgttttttatatctccctactct----tttgatcacttccccccctcaaattttgagtttgtgtgtggatcctgtaactgatagacatcttgtt

upper sequence: GRMZM2G010044_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 5'ss of exon 6
TTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtatgcccatggttcttgttgttctaagaagataaattttgaaaaccagtcttacagaaccaaaaaaggaagagaaaagggtcagggtatatgcaaactg-
 || || ||||| | |||||| || ||||| |||||||| |||||||| || ||||| ||||| |||||||| |||||||||||||||   || ||||||||      ||  |  ||  | | || |     | | || ||     |      |    |        |     |       |||  | ||||      |  
CTCCCACACATGTACTGCTGGGGCATTTGGCCAGTTTGCTACTGGAATAGGTAACACCGATGCTGGTTTTGTATTGGGCACTGGAAAGATCCTGCTCAAGgttactgaatcctcttttgtctccttaatgttttagttatgtttttcccctcaatttgagtttctgtgtggatgttgtaactcatag-atatcttggtttt

upper sequence: GRMZM2G010044_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S227_66V6.1 (Physcomitrella patens), 5'ss of exon 6
TTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtat-gcccatggttc----ttgttgttctaagaagataaattttgaaaaccagtcttacagaaccaaaaaaggaagagaaaagg---gtcagggtatatgcaaactg
||| || || |||||||||||||| ||||||||||||||||| || ||||| |||||||||||||| ||| |  ||||||| || |||   ||  | ||||||  |   || ||||    |||| | || | |   |||  |   | |   || | | | |  ||  | | ||    ||   |     | || |  | ||        
TTCCCACACTTGCAATGCTGGAGCGTTTGGTCAGTTTGCAACAGGGATCGGTAACACTGATGCAGGCTTTATTATGGGCACCGGCAAGCTCCTGATTAAGgtacagttgatagttcaaatttgtggctcgatgtgaatatttaaggtagggcaatttcatacgactgacatagttgtagtggacatttgccacgccacat--------

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|71772889|gb|DR970812.1|DR970812
EST:     GAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAG                         GTGCCACCTACTATCAGGTTTATATTAGATGGAGAGATGCCGCCTTATTTA
genomic: GAAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTCAAGgtatgcccat ... ttcatttcagGTGCCACCTACTATCAGGTTTATATTAGATGGAGAGATGCCGCCTTATTTA
EST: gi|31355882|gb|CD440239.1|CD440239
EST:     AAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTNCA-G                         GTGCCACCTACTATCAGGTTTATATTAGATGGAGAGATGCCGCCTTATTT
genomic: AAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCT-CAAGgtatgcccat ... ttcatttcagGTGCCACCTACTATCAGGTTTATATTAGATGGAGAGATGCCGCCTTATTT
EST: gi|31354069|gb|CD438426.1|CD438426
EST:     AAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCTNCA-G                         GTGCCACCTACTATCAGGTTTATATTAGATGGAGAGATGCCGCCTTATTT
genomic: AAACACTGATGCAGGTTTTGTGTTGGGCACTGGAAAGGCTCTTCT-CAAGgtatgcccat ... ttcatttcagGTGCCACCTACTATCAGGTTTATATTAGATGGAGAGATGCCGCCTTATTT