Sequence
atgc intronic sequence ATGC exonic sequencegtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcctccaaagtatttttcccgtaattcatttactaaaacatttatgccttgatcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g25734.1 (Oryza sativa), 3'ss of exon 6
gtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttat-----atcctccaaagtatttttccc---gtaattcatt-tactaaaacatttatgccttgatcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
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gtaagta-tgttgtgtttg--tatgttataattcaaaacctcc-tgtagtttctatggtctatctttttttacatttccttcaaagtaatttatcatgctgcaactttcacttttcgtccttgt------agAACTGTAAGATACACCATTCAGTAGTTGGACTCCGGTCCTGCATTTCTGAAGGCGCAATAATAGAGGACTCATTACTCATGGGAGCTGACTACTACGAG
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 6
--------gtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcc----tccaaagtatttttcccgtaattcatttactaaaacat----ttatgccttg-atcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
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gtaagcatttcagaaccttcacattctactgatctgctctgtacatgagatttatacaattcttaacaaagatgtcaaatataatgagattaatttatttataggaaactaaccttgtattccatactttgtgc-catagAACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 6
--------gtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcc----tccaaagtatttttcccgtaattcatttactaaaacat----ttatgccttg-atcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
| || | | || |||| | ||| || |||| | || || | | || ||| | | ||| ||||| || | || | || |||| | || |||||||||| || ||||||||||| ||||| || || ||||||||||| |||||||| || || || ||||| ||| ||||||| || || || || |||
gtaagtatttcagaaccttcacattctactgatctgctctataaatgagatttatacaattcttaacaaagatgtcaaatataatgagattgatttatttataggaaactaactttgtattccatattttgttc-catagAACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG
upper sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT5G48300.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcctccaaagtatttttcccgtaattcatttactaaaacatttatgccttg-atcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
|| | || | | | | | | ||| || || | ||| || || ||| ||| || || ||||||||||||| || || || ||||| |||||||||||||| |||||||| ||||||||||| || || || | ||| ||||||| || || || || |||
---------------------------------------gtaca-atcaaatcgcttctgttcgatatatgctttacg-----gacatacgaattcaccaatgtcttatgaattttgggcacagAACTGCAAAATTCATCACTCTGTGGTTGGACTCCGTTCCTGCATATCAGAAGGTGCTATTATTGAAGATTCGTTATTAATGGGAGCTGATTATTACGAGMapped 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|71771872|gb|DR969809.1|DR969809EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAA AACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAA
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtg ... gtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAA
EST:
gi|32941128|gb|CF045947.1|CF045947EST: CAGACAGTGTTATTGGTGAGGGATGTGTTATTAAA AACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAA
genomic: CAGACAGTGTTATTGGTGAGGGATGTGTTATTAAAgtaagtagtg ... gtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttcccgtaattcatttactaaaacatttatgccttgatcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
taattcatttactaaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtagtgttttgttttactatagcatatttgaaaacctatatatagactttatatcctccaaagtatttttcccgtaattcatttactaaaacatttatgccttgatcttgtgcacacagAACTGCAAGATACACCATTCTGTAGTTGGACTCCGTTCTTGCATATCTGAAGGTGCTATCATAGAGGACACTTTACTAATGGGTGCGGACTACTATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA