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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttaaaggaatatgctggcagttctttgctacatttttctttccacatttatttttctagtgaactcactgttttgatgataggagttgagtgttgaagagttactgcttatgaaaatagtcattttcatggtgggtctcttaacatactcttcatatgttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATTGTGAAATTGCTTGATATTGTCAGGGATCAGCATTCAAAGACTCCCAGTT

Basic information

species Zea mays
transcript GRMZM2G141903_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141903_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g55389.1 (Oryza sativa), 3'ss of exon 2
gtacttaaaggaatatgctggcagttctttgctacatttttctttccacatttatttttctagtgaactcactgttttgatgataggagttgagtgttgaagagttactgcttatgaaaatagtcattttcatggtgggtctcttaacatactcttcatatgttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATTGTGAAATTGCTTGATATTGTCAGGGATCAGCATTCAAAGACTCCCAGTT
                                                                                     | | || | || |    | | |||| || |   ||| |  |      || ||    ||||||| |||  |||||||||||   ||||||||||||||||| ||||||||||||||||| ||||||||||||||||||||| |  | |||||||||||||| ||||| ||||| |||||||| || |
-------------------------------------------------------------------------------------gtatttaattgatctt-attgactgttttttttaattgcta-----gtgttgaagttcttaacctacctttcatatgtttgaacagATCAAAAGGGAGATTAAAATACTTCAGAATCTTTGTGGAGGTCCAAACATTGTGTAGCTTCTTGATATTGTCAGAGATCAACATTCTAAGACTCCTAGCT

upper sequence: GRMZM2G141903_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S165_107V6.1 (Physcomitrella patens), 3'ss of exon 2
gtacttaaaggaatatgctggcagttctttgctacatttttctttccacatttatttttctagtgaactcactgttttgatgataggagttgagtgttgaagagttactgcttatgaaaatagtcattttcatggtgggtctcttaacatactcttcatatgttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATTGTGAAATTGCTTGATATTGTCAGGGATCAGCATTCAAAGACTCCCAGTT
                                                                         | ||||    |     ||  |  ||| |   || |    |  || | || ||  ||      |   |||       |||| |||| |    |||  |||| ||||| || ||||| |||||||||||| | ||||||||||| || || |||||  || |||| |||||||| || ||||| || |||||||||||| 
-------------------------------------------------------------------tatgacgatttggcagtgatttttccgctttgcattctttcgaact--gatactaatctcttcttcacttattctggctgtctactgttcaca--ccttgttagATTAAAAGAGAAATCAAGATACTTCAGAATTTGTGTGGAGGTCCCAATATCGTGAAGCTGTTTGACATTGTCAGAGACCAGCAGTCTAAGACTCCCAGTC
















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|149097662|gb|EE183562.2|EE183562
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|149107621|gb|EE189503.2|EE189503
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|18964894|gb|BM661271.1|BM661271
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAGGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|31354720|gb|CD439077.1|CD439077
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|8366916|gb|BE049924.1|BE049924
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|5846779|gb|AI999862.1|AI999862
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|5296240|gb|AI782920.1|AI782920
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|76925599|gb|DV170500.1|DV170500
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|71768145|gb|DR966082.1|DR966082
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT
EST: gi|31360770|gb|CD445127.1|CD445127
EST:     ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAG                         ATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGGGGAGGTCCAAACATT
genomic: ACAATGAGAAATGCATCATTAAGATCCTTAAGCCTGTCAAGAAAAAGAAGgtacttaaag ... gttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatagtcattttcatggtgggtctcttaacatactcttcatatgttttggcagATCAAAAGGGAGATCAAAATACTTCAGAATCTCTGTGGAGGTCCAAACATTGTGAAATTGCTTGATATTGTCAGGGATCAGCATTCAAAGACTCCCAGTT
                         tcttaac  putative branch site (score: 2)
                                         atatgtttt  TA-rich tract