Sequence
atgc intronic sequence ATGC exonic sequenceCGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagcacattcaaatatatatatgtaaactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os05g03430.3 (Oryza sativa), 5'ss of exon 9
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcaga--ttgtgcttgcagaagcacat---tcaaatatatatatgtaaactaggcctgttttgaacattttctgtagtt---ggtccaggccaggcctaatttatgc-------------------------------------------------------
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TGGATCCAGAATGAGGATTGCTGGGAGATTCAAGCCTTGCATTCACATGGGTTGTTTTGATCTTGAAACTTTCGTGGAATTGAATCAACGGTCCCGCAAGgttagatcttgtgttccctgatgctcatccttcagatacatgtgtgttcatccaggaaagagttacttttttctggagctcacaacccaccttttgacatgttgatgctttcatattttccttttatatcctctgattgctcttttctcttgtttctatacag
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA12G29270.2 (Glycine max), 5'ss of exon 10
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagcacattcaaatatatatatgtaaactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc
|| || ||||||| |||||| ||||| ||||| |||||||||||||| || ||||||||||||||| |||||||||| ||||| |||| ||| | ||||| |||| | | ||| || || | | ||| || | | |||| || | ||| | | | | | |
TGGTTCAAGAATGAAGATTGCAGGAAGATTCAAACCTTGTGTTCACATTGGTTGTTTTGATCTTGAAGTTTTTGTGGAAATGAATGAACGGTCAAGGAAGgtatgattcta-----aaaagtttgagcatg-atttgt-cgtataccttgtttattttaaaaaaaaaatgttgaagcattaattctttctgcag------
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA12G07590.1 (Glycine max), 5'ss of exon 14
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagc-acattcaaatatatatatgtaaactaggcctgt--tttgaacattttctgtagttggtc--caggccaggcctaatttatgc
|| || ||||||| |||||||||||| || || || ||| |||||||||| || |||||||||||| ||||||||| |||| ||||| ||| | ||||| || || || || | | | ||| | | | | | | ||| ||| | | | || | | | | |||
TGGTTCAAGAATGAAGATTGCTGGAAGATTTAAACCCTGTATTCACATGGGTTGCTTTGATCTTGAAGTGTTTGTGGAAATGAACCAACGATCAAGGAAGgtaaggtt---ctaacaaatgttatattgcatgaagtgtccactccccaaagttgtgatttttaagtctgatgaattgaattgtttgttcag-------------
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA11G15880.1 (Glycine max), 5'ss of exon 14
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagc-acattcaaatatatatatgtaaactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc
|| || ||||||| |||||||||||| || || || ||| |||||||||| || |||||||||||| |||||||||| ||||||| || ||| | ||||| || || || || | | | || | || || | || | || ||| || | | || | | | | |
TGGTTCAAGAATGAAGATTGCTGGAAGATTTAAACCCTGTATTCACATGGGTTGCTTTGATCTTGAAGTTTTTGTGGAAATGAATCAGCGATCAAGAAAGgttaggtt---ctaacaaatgttatgttgcatgatttaaaccccaatgtag--tgattttaa-gtctgatgaattgaattgtttctacag-----------
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA13G40320.1 (Glycine max), 5'ss of exon 10
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagcacattcaaatatatatatgtaaactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc
|| || ||||||| |||||| ||||| ||||| ||||||||||||||||| ||||||||||||||| |||||||||| ||||| |||| ||| | ||||| |||| | | | ||| | || || ||| || | || | || | | |||| | || | |
TGGTTCAAGAATGAAGATTGCAGGAAGATTCAAACCTTGTGTTCACATGGGTTGTTTTGATCTTGAAGTTTTTGTGGAAATGAATGAACGGTCAAGGAAGgtatgattct---------aaaaaatttgagcatg-atttgtcgtataccttttttcttaaaaaaat-----gttgatgaagcattaattctttctgcag
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: AT5G60410.4 (Arabidopsis thaliana), 5'ss of exon 14
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagcacattcaaatatatatatgtaaactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc
||| || || || | ||||||| || || || ||||| ||||||||||||||||| ||||| |||||||| ||||||||||| || | ||||| | | || | | || |||| | || | || ||| | || |||||| || || | ||| |
CGGTTCTAGGATAAAAGTTGCTGGGAGATTTTTACCCTGTGTGCACATGGGCTGTTTTGACCTTGATGTGTTTGTGGAGTTGAATCAACGTTCCAGAAAGgtaggtctac-------------tatccttgtctagatat-tgggttatgtct--cttgttttctgactttagttgttctggggtttgt-taacatgcag
upper sequence: GRMZM2G155123_T02 (Zea mays), 5'ss of exon 13
lower sequence: Vv06s0004g03180.t01 (Vitis vinifera), 5'ss of exon 13
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagcacattcaaatatatatatgta--aactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc
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TGGTTCAAGAATGAAGGTTGCTGGAAGATTCAAACCTTGTGCTCACATGGGCTGTTTTGATCTTGAAATTTTTGTGGAAATGAACCAACGTTCTAGGAAGgcaagtgacagattgccagatttgtttcttttattttcttctagcaattttgtgt-ttctgagcaagcattgtactttgtttacag----------------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|30306927|gb|CD001600.1|CD001600EST: GCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAG TGGCAATGCCCAATATGTTTAAAGAATTACTCTCTCGAGAACTTGATGATC
genomic: GCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgt ... ttttgtgcagTGGCAATGCCCAATATGTTTAAAGAATTACTCTCTCGAGAACTTGATGATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGGATCCAGAATGAGGATTGCTGGAAGGTTCAAGCCTTGTGTTCACATGGGCTGTTTTGATCTTGAAACTTTTGTGGAATTGAATCAACGCTCACGCAAGgtcagattgtgcttgcagaagcacattcaaatatatatatgtaaactaggcctgttttgaacattttctgtagttggtccaggccaggcctaatttatgc
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT