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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagattctcaagctgctccgctcgttcgctttagtggcctctaagaatgtagtccgattaattcagtgttactgtggaacagtacaatttgtagttgaaccatttgtctgctcatgctgtgcaaattatttttgatgaaggctgcagtttgactgtactgtatttaacattccatgttaaataatattttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAAATGCTTCTGGATGCTAGTGGAG

Basic information

species Zea mays
transcript GRMZM2G069765_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069765_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g34690.1 (Oryza sativa), 3'ss of exon 2
gtacagattctcaagctgctccgctcgttcgctttagtggcctctaagaatgtagtccgattaattcagtgttactgtggaacagtacaatttgtagttgaaccatttgtctgctcatgctgtgcaaattatttttgatgaaggctgcagtttgactgtactgt-atttaacatt-ccatgttaaataatattttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAAATGCTTCTGGATGCTAGTGGAG
                                                                                                    | |    ||||||   | |||||  ||||| ||  |  |||   | | | |   | | | |||| | ||   |   || || | |||  |  | |    |||||||| || |||||||| || |||||| | |||||  | |||||| |||| |||||||||||||||  |||||
-----------------------------------------------------------------------------------------------gacctagctggctgtctggcta-gctgtaaaaattgttaattttgagaacagaaatg-aattttcctgtcacttggtaaaaccgtgatcaat--tgctctg---cagGCTGTGGCAGACATCATCCGTACTACACTCGGTCCTCGGTCCATGTTGAAGATGCTTCTGGATGCTTCTGGAG

upper sequence: GRMZM2G069765_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G26360.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacagattctcaagctgctccgctcgttcgctttagtggcctctaagaatgtagtccgattaattcagtgttactgtggaacagtacaatttgtagttgaaccatttgtctgctcatgctgtgcaaattatttttgatgaaggctgcagtttgactgtactgtatttaacattccatgttaaataatattttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAAATGCTTCTGGATGCTAGTGGAG
                                                                                                  | ||  | |  | | ||   |||       || || |   ||| |  ||  | ||  ||   |||  || |      | |      |  | || |   ||||||||| ||||| ||||| || || |||||||||||  | || ||| |||| |||||||| |||||| ||||||
-------------------------------------------------------------------------------------------------gtaaattaatccttttctatggct------ctttttctctgtgatgcttgttgcttctctcctctggtttcagatcatcgt------tgtttttgtggtacagGCTGTTGCTGATATCATTCGTACAACATTGGGTCCTCGTTCTATGTTGAAGATGCTTCTTGATGCTGGTGGAG
















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|149105498|gb|EE291023.2|EE291023
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229383|gb|FL136771.1|FL136771
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|149082543|gb|EE171738.2|EE171738
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229393|gb|FL136781.1|FL136781
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGGGGCCAAG                         GGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagG-CTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAA
EST: gi|33093832|gb|CF053826.1|CF053826
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCCGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|6021027|gb|AW065955.1|AW065955
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211231448|gb|FL136784.1|FL136784
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229384|gb|FL136772.1|FL136772
EST:     GCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAA
genomic: GCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGG-CCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAA
EST: gi|76014861|gb|DT942031.1|DT942031
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229382|gb|FL136770.1|FL136770
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|78083040|gb|DV511433.1|DV511433
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211231449|gb|FL136785.1|FL136785
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGNCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|33097192|gb|CF057152.1|CF057152
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229381|gb|FL136769.1|FL136769
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|22491088|gb|BU051011.1|BU051011
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229392|gb|FL136780.1|FL136780
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229385|gb|FL136773.1|FL136773
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|31357629|gb|CD441986.1|CD441986
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAGA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211231451|gb|FL136787.1|FL136787
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|32865501|gb|CF005183.1|CF005183
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|19351773|gb|BM896305.1|BM896305
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|32908744|gb|CF013557.1|CF013557
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAA
EST: gi|211229388|gb|FL136776.1|FL136776
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229391|gb|FL136779.1|FL136779
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCAAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGGTCC-AGATCCATGCTGAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGG-TCCCAGATCCATGCTGAA
EST: gi|211229394|gb|FL136782.1|FL136782
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211229386|gb|FL136774.1|FL136774
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|31354522|gb|CD438879.1|CD438879
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|87153647|gb|DY398436.1|DY398436
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|211231450|gb|FL136786.1|FL136786
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
EST: gi|149084479|gb|EE173941.2|EE173941
EST:     AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAG                         GCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA
genomic: AGCGGGAGTCTGGCGCGAAGGTTCACCAAGCCAACATCCAGGCGGCCAAGgtacagattc ... tttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcagtttgactgtactgtatttaacattccatgttaaataatattttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAAATGCTTCTGGATGCTAGTGGAG
                   atttaac  putative branch site (score: 3)
                                            ttttatc  putative PPT
                tgtatttaacattcca  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacagattctcaagctgctccgctcgttcgctttagtggcctctaagaatgtagtccgattaattcagtgttactgtggaacagtacaatttgtagttgaaccatttgtctgctcatgctgtgcaaattatttttgatgaaggctgcagtttgactgtactgtatttaacattccatgttaaataatattttatcacagGCTGTCGCTGACATCATACGCACTACATTGGGTCCCAGATCCATGCTGAAAATGCTTCTGGATGCTAGTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG