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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatctgcagaatacctaatgaatttgatgttacttgcttgttattatgccatcattgagttctacactagtgtactgtattaatcatatttcttttgtagACGGTCTTTATAACTTCTAACGGATCTTGGAAGCTTGGTGGGTTTGGTTTTGCTCTTTCAGTTGATCAAGCCACAGGTGGTTTGACTTCATCACAGCTAT

Basic information

species Zea mays
transcript GRMZM2G061681_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g42950.2 (Oryza sativa), 3'ss of exon 2
aatctgcagaatacctaatgaat--ttgatgttacttgcttgttattatgccatcattgagttctacactagtgtactgtattaatcatatttcttttgtagACGGTCTTTATAACTTCTAACGGATCTTGGAAGCTTGGTGGGTTTGGTTTTGCTCTTTCAGTTGATCAAGCCACAGGTGGTTTGACTTCATCACAGCTAT
  ||||     | ||       |   | |||    | || | ||       ||||    |||  ||   |       |||| ||||   |||||||||| ||||||||||||||||||  || ||||||||||| |||||||||||||||||||||||||| ||||| |||||||||||  ||||||| ||| |||||| ||
--tctgtgatttcccctgctcttgcataatgcatttagcctatttggtcttcatctgcaagtcttatgttctgtcgttgtaataatttgatttcttttgcagACGGTCTTTATAACTTTGAATGGATCTTGGAAACTTGGTGGGTTTGGTTTTGCTCTTTCTGTTGACCAAGCCACAGGCAGTTTGACATCAACACAGCAAT

upper sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 2
aatctgcagaatacctaatgaatttgatgttacttgcttgttattatgccatcattgagttctacactagtgtactgtattaatcatatttcttttgtagACGGTCTTTATAACTTCTAACGGATCTTGGAAGCTTGGTGGGTTTGGTTTTGCTCTTTCAGTTGATCAAGCCACAGGTGGTTTGACTTCATCACAGCTAT---
                  |   |||  | ||||||   |  |   | |   |  ||   |  |  | ||   |   |    | |  |  ||    || |||  ||  |||| |||||    || |||||||||||||  ||||||||||||||| ||||||  |  || ||    ||   ||||  |      ||    |   
-----------------gtttctttagtcttacttctcttcttagaggttgtgtttatatgttttattaacatgtgg----agttgtgatttccctgcagAATGTTCTTATTACTTCAGCTGGTTCTTGGAAGCTTGCCGGGTTTGGTTTTGCTATTTCAGCAGCACAGGCT---GGGAATTTGGATAACATGCAATCGTTCC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgccatcattgagttctacactagtgtactgtattaatcatatttcttttgtagACGGTCTTTATAACTTCTAACGGATCTTGGAAGCTTGGTGGGTTTGGTTTTGCTCTTTCAGTTGATCAAGCCACAGGTGGTTTGACTTCATCACAGCTAT
                                tattaat  putative branch site (score: 2)
                                         tatttctttt  putative PPT
                                tattaatcatatttct  TA-rich tract