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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgataacatctgtcattatgtgcatttctcatctcctttggtttcttgctctgacaccttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT

Basic information

species Zea mays
transcript GRMZM2G011923_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g41930.1 (Oryza sativa), 3'ss of exon 4
gtactgataacatctgtcattatgtgcatttctcatct-cctttggtttcttgctctgacacc--------ttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT
||| || | ||| ||| | |  |||  ||||||||| | | ||||||||| ||| |||| |          |||||  |   |||||||||||||| |||| ||||| |||||||| |||||||||||| | ||||| |||||  ||||||| || ||||| ||||||||||| || |||||||
gtaatggttacagctggcgt-gtgtttatttctcatttacttttggtttcatgcactgatattctgctatattcattctactagGTGAGGATCCGCATTAGAAAGCTCTGCAAGCCTTTGGAAGAGGATGCTTTCAGACCAGTGCTGCACCATTACGATGGTCCAAAGTTTCGTCTTGAGCTCT

upper sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G25870.1 (Glycine max), 3'ss of exon 4
-----------------------gtactgataac-atctgtcattatgtgcatttctcatctcctttggtttcttgctctgacaccttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT
                        |  ||   || || | | |   | |   |   |||     |            |    |  | || || |   |||| || ||||| || |||||||| |||||| | |||||||| ||||| ||||||||||| ||||| || ||||| || ||||||||||| || || || |
gtagtagaatataggactttgaaatggtggagaccatgtatgagcttatctgtaaatcaatgaataaaacaaaaaatttgtgcctcctcttccttgtagGTAAGAATCCGTGTCAGGAAGCTCTGCAAGGCATTGGAAGAAGATTCTTTCAGGCCAGTATTGCATCATTATGACGGGCCAAAGTTTCGTCTTGAACTGT

upper sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G06100.1 (Glycine max), 3'ss of exon 4
---------------------------gtactgataacatctgtcattatgtgcatttctcatctcctttggtttcttgctctgacaccttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT
                           |    || | ||| | | |   | |   |   |||     |         |  |    |    || || |   |||| || ||||| || |||||||| |||||| | |||||||| ||||| ||||||||||| ||||| || |||||||| ||||||||||| || ||||| |
gtagtagaatatagaatattttgaaatggtgggagaccatgtatgagcttatctgtaaatcaatgaataaaacaatatttttgttccttctcttccttgtagGTAAGAATCCGTGTCAGGAAGCTCTGCAAGGCATTGGAAGAAGATTCTTTCAGGCCAGTATTGCATCATTATGATGGGCCAAAGTTTCGTCTTGAGCTGT

upper sequence: GRMZM2G011923_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G27090.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------gtactgataacatctgtcattatgtgcatttctc---atctcctttggtttcttg--ctctgacaccttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT
            |    || || |   |  || |  |  ||| |    || || | |  |    |    |||  | | |  ||  |  ||||| |||||| | || |||||  | |||||  | ||||||||||| ||||||||||||||  | |||||||||||||| ||||| || ||||| |||||||
gtgaaacttaaatcacaatgactttcattgttttaagtctttattttgatatcttgtactaatataacttctttctcttaaattgtaacagGTAAGGATCAGAGTGAGGAAAATCTGCAAAGCCTTGGAAGAGGACTCCTTCAGGCCAGTACTTCACCACTATGATGGTCCAAAATTCCGCCTTGAGCTCT

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|22490259|gb|BU050182.1|BU050182
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|18655190|gb|BM499995.1|BM499995
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|29544431|gb|CB604811.1|CB604811
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGC
EST: gi|149107938|gb|EE292294.2|EE292294
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|31351065|gb|CD435422.1|CD435422
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|31352279|gb|CD436636.1|CD436636
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|31352997|gb|CD437354.1|CD437354
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|29544031|gb|CB604411.1|CB604411
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAG
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAG
EST: gi|87152915|gb|DY397704.1|DY397704
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|31351326|gb|CD435683.1|CD435683
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|148982112|gb|EE028161.2|EE028161
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|37399688|gb|CF637177.1|CF637177
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|60350260|gb|DN217233.1|DN217233
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|78087740|gb|DV516133.1|DV516133
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|40303492|gb|CK347879.1|CK347879
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|45567374|gb|CK985540.1|CK985540
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|60346554|gb|DN213527.1|DN213527
EST:     AAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: AAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|31352510|gb|CD436867.1|CD436867
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|149082225|gb|EE171408.2|EE171408
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|60401294|gb|DN234101.1|DN234101
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|211413346|gb|FL280968.1|FL280968
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTCTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|60358053|gb|DN225026.1|DN225026
EST:     CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CTGCATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
EST: gi|29544380|gb|CB604760.1|CB604760
EST:     CATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAG                         GTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC
genomic: CATGGGAGGATAAGAAGTGTAAAGGTGAATCTAGATTCCCAGCGCAGgtactgataa ... atcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtgcatttctcatctcctttggtttcttgctctgacaccttcatcatgtcagGTGAGGATCCGCGTTAGGAAGCTGTGCAAGCCGTTGGAAGAGGATTCCTTCAGGCCAGTTTTGCACCACTATGATGGCCCAAAGTTTCGCCTCGAGCTCT
                                ctctgac  putative branch site (score: 3)
                                        ccttcatc  CT-rich tract