Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os11g25920.1 (Oryza sativa), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
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AAGAGGCCGCCGGGATGATGGCTCTCCACGAGGCCCTCCGCAACGTCTGCCTCAACTCCGACTGGACTTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtg-----taccacttaat-taatta--ccaccc---ctcctatgaatt------tttgcctca--------aactctcatctcatctcttctc--cctatatatatgtcgtcg---aag-------------------------------------------------------------------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA12G27400.1 (Glycine max), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
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AAGAAGCTGTTGGGATGATGGCCCTTCATGAGGCCCTCAGAAGTGTGTGTCTCAACTCAGATTGGACTTACTCTGTCTTCTGGACCATTCGTCCTCGCCCgtatgct---tctctctctctctctctctctctctttctg-cgtggttgtgtgtatatgtgctactttgaatggt--gttttttgaggtgtttttctcaactgggtcttct-ccattttttttgcag----------------------------------------------------------------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA06G36190.1 (Glycine max), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctc---ttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
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AAGAAGCTGTTGGGATGATGGCCCTTCATGAGGCCCTCAGAAGTGTGTGTCTCAACTCAGATTGGACTTACTCTGTCTTCTGGACCATTCGTCCTCGCCCgtatgcttcttctctctctctctgtattttgtatgttatgatgatgctactttcaatggt--gttttatgaggtttttttttttttctcacctgggtcttctccattttattttcttgcag-------------------------------------------------------------------------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA13G34980.1 (Glycine max), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagcta--ttgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
|||| || | ||||||||||| || || || |||||| | | ||||| |||| ||| |||||||| ||||| |||||||||||||| |||||||||||||||| ||| | || || | ||||||| || | | | ||| | || || ||| | || | || | || || || | |
AAGAAGCTGTTGGGATGATGGCCCTTCATGATGCCCTCAGAAGAGTCTGTCTCAACTCAGACTGGACTTACTCTGTCTTCTGGACCATTCGTCCTCGCCCgtatgacatgcttctctttcatt-ctcttattctctct---ttctgtctttctgtctctaacttcaaaccataacctcttacctcaactgggtctttgtccatttctcacag---------------------------------------------------------------------------------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA12G35490.1 (Glycine max), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtcctt-attccgtccggacaccgacgaatgaactc-gtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
|||| || | ||||||||||| || || ||| ||||| | | ||||| |||| ||| || ||||| ||||| |||||||||||||| |||||||||||||||| || | | | |||| | | || | ||||| | | || || | || | | | | | | | | | ||| | || | || | | | ||| | | | | ||| | | | | | | || | || | | |||
AAGAAGCTGTTGGGATGATGGCCCTTCATGAGACCCTCAGAAGAGTCTGTCTCAACTCAGAATGGACTTACTCTGTCTTCTGGACCATTCGTCCTCGCCCgtatgctatctatacttctcttttttttttaatccgt--aaaaattgaagaccggtatcaggcaatacccacactcttttcaaccaattgagctatagtcctttggtctctctttctgtttcttaactctaacttcaaccaataacctcttacctcaactgggtc--ttgtccatttcatacag---------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv19s0014g02320.t01 (Vitis vinifera), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttat-tccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
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AAGAAGCAGTTGGGATGATGGCCCTTCATGACGCCCTTAGAAGTGTCTGTCTCAACTCAGACTGGACTTACTCTGTGTTCTGGACCATCCGTCCTCGCCCgtatgtctccctttctacactttttctatctatctgtctgtgattttttggttttcctgatattttctcaaacgggtatcttccatttttgcag--------------------------------------------------------------------------------------------------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ05904 (Selaginella moellendorffii), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
|| | || | |||||||| ||||| || || || || || || ||||||| || ||||| ||||| |||||||||||||||||||| || ||||| || | | | | || | | | || | | | ||| | || | | | | || || || | |||||| | | || | ||| || || | | ||
GGGAAGTGATGGCAGTCATGGCGCTGCACGAAGCGCTGCGGAATGTGTGTATCAGCTCAGATTGGACTTACTCTGTCTTCTGGACCATCCGTCCCCGACCgtaa--gaagcagctcaccttaagcccccttctctctctcactctctctctcgctctctctcttctcctcgttgtt--tcactgcattg---ctacgttgcttgctctgat----tcatctg-gctttcatctccag------------------------------------------------------------
upper sequence: GRMZM2G132251_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ26828 (Selaginella moellendorffii), 5'ss of exon 1
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgat-gtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
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GGGAAGTGATGGCAGTCATGGCGCTGCACGAAGCGCTGCGGAATGTGTGTATCAGCTCAGATTGGACTTACTCTGTCTTCTGGACCATCCGTCCCCGACCgtaagaggcagctcgccttaagcccccttctctctctct---ctctctctcttctcctcgtt-gtttcactgca--ttgctacgttgcttgctctgattcatctggctttcatctccag-------------------------------------------------------------------------------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|149098917|gb|EE184930.2|EE184930EST: CTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCC GCGGTGCCGCGGCGGGAACGGGTGCAAGGTCGGCGACGACAACGGCAGCCT
genomic: CTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatg ... ctgcatgcagGCGGTGCCGCGGCGGGAACGGGTGCAAGGTCGGCGACGACAACGGCAGCCT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGGCCGCGGGGATGATGGCGCTCCACGAGGCCCTCCGCAACGTCTGCCTCAGCTCGGACTGGACGTACTCCGTCTTCTGGACCATCCGTCCTCGCCCgtatgtgatgtgtgcctctccctgtccttattccgtccggacaccgacgaatgaactcgtccgtcctactatagctagctattgtctttgctcttctctgcttgttattatgccgccgtctaagcccacaacacaagccccagtttgtcatcacaggcacagcgagtgatgactgtgtactatttccctgcatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC