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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcggtcaatcgagagttgccttatggtagttctggagattgatttataataacgtggaaatcgttggggattgtggcgttattgtgactgctttggtgaaatcagGTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGAGGACTTTGTGCCATGGTGCCAGCGGTCCAGGATTATTAGGTGCCATGAA

Basic information

species Zea mays
transcript GRMZM5G899168_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G899168_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g56560.1 (Oryza sativa), 3'ss of exon 1
gtatgcggtcaatcgagagttgccttatggtagttctggagattg--atttataataacgtggaaatcgttggggattgt-ggcgtt-attgtgactgctttggtgaaatcagGTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGAGGACTTTGTGCCATGGTGCCAGCGGTCCAGGATTATTAGGTGCCATGAA
   | ||||  || | ||       | | | || ||   |  ||    | | | ||    ||||||     ||  ||| | || | | |||||   ||| ||||||    ||||||||| || || |||||||| |||||||||||| |||| |||||||| ||||| |||||||| ||||| ||| |||| |||||||| ||| | || || 
--gtacggtggattg-gaccgattgttttgcagctcataattttaccttctctgattgtttggaaac----ggaaattattggtgctgattgttggtgcgttggtgggtgcagGTACTCGCCGGAGCAGATGTTCGCTGTTGTCGCGGCAGTAGACCTCTATGAGGATTTTGTGCCGTGGTGTCAGAGGTCTAGGATTATCAGGCGACACGAG
















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|211341746|gb|FL188296.1|FL188296
EST:     GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
genomic: GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
EST: gi|37373856|gb|CF623251.1|CF623251
EST:     GGGGGGCGTGCTCTCCAAGGTCTATGAGGAGAGGCGCGTGATTGG                         GTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGA
genomic: GGGGGGCGTGCTCTCCAAGGTCTATGAGGAGAGGCGCGTGATTGGgtatgcggtc ... gtgaaatcagGTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGA
EST: gi|211341745|gb|FL188295.1|FL188295
EST:     GTGCTCGAGCATGGCG-CCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGATGANGGGGGCGTGCTCTCC
genomic: GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
EST: gi|74232388|gb|DT640302.1|DT640302
EST:     GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
genomic: GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
EST: gi|74232387|gb|DT640301.1|DT640301
EST:     GAGGAGGGGGGCGTGCTCTCCAAGGTCTATGAGGAGAGGCGCGTGATTGG                         GTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGA
genomic: GAGGAGGGGGGCGTGCTCTCCAAGGTCTATGAGGAGAGGCGCGTGATTGGgtatgcggtc ... gtgaaatcagGTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGA
EST: gi|211339360|gb|FL188289.1|FL188289
EST:     GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
genomic: GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
EST: gi|40334134|gb|CK368204.1|CK368204
EST:     GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
genomic: GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGAGGGGGGCGTGCTCTCC
EST: gi|211339361|gb|FL188290.1|FL188290
EST:     GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGNTTGCGGCGACGGGGAGGAAGGGGGGCGTGCTCTC
genomic: GTGCTCGAGCATGGCGGCCGGTGGGCATATCCGCAGACCGGCGTGATTGGCGCGGGGCGGATGACGCGCACGCAGACGAGGTGTTTCTTCGGGTGCGGCGACGGGGAGGA-GGGGGGCGTGCTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacgtggaaatcgttggggattgtggcgttattgtgactgctttggtgaaatcagGTACTCACCAGACCAGATGTTTGCTGTTGTCGCGTCAGTGGACCTCTACGAGGACTTTGTGCCATGGTGCCAGCGGTCCAGGATTATTAGGTGCCATGAA
 taataac  putative branch site (score: 1)
                            ttattgt  TA-rich tract