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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttaaaaactacaaaataatgcctctatgtactcgaatttctggttttcattcgtccttggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCACATCTATGTGTGCAATCTTTTTGACACAGGACAG

Basic information

species Zea mays
transcript GRMZM2G000749_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000749_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g06190.1 (Oryza sativa), 3'ss of exon 3
----------------------------gtttttaaaaactacaaaataat-gcctctatgtactcgaatttctggtt--ttcattcgtccttggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCACATCTATGTGTGCAATCTTTTTGACACAGGACAG
                              |||||   |    ||| |  |   |  | || |||| |||||||| ||  ||  ||  | ||||  |||| ||||||||||||| || ||||||||||| ||||||||||| ||||| |||||||| ||||| ||||||||||||||||||||||||
gtttcttctgcgttctccaattgtttatcattttattgaggggaaattgtttatcattgtgaactcaaatttctgtttacttggtttcttcttgtgcaaaaagGTAATGCATGGGGCTGATCGTGATATTATGTGGCTCCAACGGGATTTCCACATATATGTTTGCAATCTTTTTGACACAGGACAG

upper sequence: GRMZM2G000749_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 3
-gtttttaaaaactacaaaataatgcctctatgta----ctcgaattt--ctggt----tttcattcgtccttggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCACATCTATGTGTGCAATCTTTTTGACACAGGACAG
  ||| |  | | | |  |||      ||||   |    || |||| |   |  |    | | |  |    |   | || |||||||| ||||| || ||||| ||||| || ||||| || ||||||||   ||| ||||| ||||||||||||||||||||||||
gttttctccataatgcgcaatgtgttttctacagaattcctagaatatagttaatacaatatgaaaccatttaacttaactagGTAATCCATGGAGCAGATCGAGATATTATTTGGCTTCAACGGGACTTTGGCATTTATGTCTGCAATCTTTTTGACACAGGACAG

upper sequence: GRMZM2G000749_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 3
gttttt----aaaaactacaaaataatgcctctatgt----actcgaatttctg-gttttcattcgtccttggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCACATCTATGTGTGCAATCTTTTTGACACAGGACAG
||||||      | ||| |||    ||  |   | ||    | |  | |||||| | | | |    |  ||    || |||||||||||||| || ||||| ||||| || ||||| || |||||||||  ||| ||||| |||||||| |||||||||||||||
gtttttcctgggatacttcaattccattacaaaaggtctaaaatatattttctgtgctctgaaatctgtttatgtaattagGTAATGCATGGAGCAGATCGAGATATTATCTGGCTTCAACGGGACTTCGGCATATATGTCTGCAATCTCTTTGACACAGGACAG

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|211268121|gb|FL015554.1|FL015554
EST:     ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAG                         GTAATGCATGGTGCGGATCG
genomic: ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGGATCG
EST: gi|60338799|gb|DN205772.1|DN205772
EST:     ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAG                         GTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCAC
genomic: ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCAC
EST: gi|211270566|gb|FL015574.1|FL015574
EST:     CATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAAG                         GTAATGCATGGTGCGG
genomic: CATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAA-Ggtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGG
EST: gi|211270560|gb|FL015568.1|FL015568
EST:     ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAG                         GTAATGCATGGTGCGGATCGTGATAT
genomic: ACATTGGTCTCTATTTGCAAGAGCCTTTCAAAGATCCAACAAAGAGAAAGgtttttaaaa ... ggtcaaatagGTAATGCATGGTGCGGATCGTGATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataatgcctctatgtactcgaatttctggttttcattcgtccttggtcaaatagGTAATGCATGGTGCGGATCGTGATATAATGTGGCTCCAGCGGGACTTCCACATCTATGTGTGCAATCTTTTTGACACAGGACAG
                              ttttcatt  TA-rich tract