Sequence
atgc intronic sequence ATGC exonic sequencegtaagcagtgcttttactgtagcatatttgaaaacctttctatacttcttttattttctccaaagtaatttctcataattcatttactaaaacgtttatgccttgatcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g25734.1 (Oryza sativa), 3'ss of exon 6
gtaagca-gtgcttttactgtagcatatttgaaaacctttctatacttct----tttattttctccaaagtaatttctca--taattcatt-tactaaaacgtttatgccttgatcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
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gtaagtatgttgtgtttgtatgttataattcaaaacctcctgtagtttctatggtctatctttttttacatttccttcaaagtaatttatcatgctgcaactttcacttttcgtccttgt------agAACTGTAAGATACACCATTCAGTAGTTGGACTCCGGTCCTGCATTTCTGAAGGCGCAATAATAGAGGACTCATTACTCATGGGAGCTGACTACTACGAG
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 6
-----------gtaagcagtgc-ttttactg--tagcatatttgaaaacctttctatacttctt--ttattttctccaaagtaatttctcataattcatttactaaaacgt----ttatgccttg-atcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
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gtaagcatttcagaaccttcacattctactgatctgctctgtacatgagatttatacaattcttaacaaagatgtcaaatataatgagat-taatttatttataggaaactaaccttgtattccatactttgtgc-catagAACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 6
-----------gtaagcagtgc-ttttactgtagcatatttgaaa--acctttctatacttctt--ttattttctccaaagtaatttctcataattcatttactaaaacgt----ttatgccttg-atcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
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gtaagtatttcagaaccttcacattctactgatctgctctataaatgagatttatacaattcttaacaaagatgtcaaatataatgagat-tgatttatttataggaaactaactttgtattccatattttgttc-catagAACTGCAAAATTCACCATTCTGTGGTTGGGCTGCGATCTTGCATATCAGAAGGTGCAATTATTGAAGACACGTTATTAATGGGGGCAGATTATTACGAG
upper sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 6
lower sequence: AT5G48300.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagcagtgcttttactgtagcatatttgaaaacctttctatacttcttttattttctccaaagtaatttctcataattcatttactaaaacgtttatgccttg-atcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
|| | | | || | || | | | ||| || | ||| ||| || || ||||||||||||| || | || ||||| ||||||||||| || |||||||| ||||||||||| || || || ||| ||||||| || || || || |||
---------------------------------------gtacaatcaaatcgcttctgttcgatatatgctttacgg---acatacgaattcaccaatgtcttatgaattttgggcacagAACTGCAAAATTCATCACTCTGTGGTTGGACTCCGTTCCTGCATATCAGAAGGTGCTATTATTGAAGATTCGTTATTAATGGGAGCTGATTATTACGAGMapped 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|56691604|gb|CX129507.1|CX129507EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGATGTGTTATTAAA AACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAA
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGATGTGTTATTAAAgtaagcagtg ... gtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAA
EST:
gi|166581786|gb|EG229204.1|EG229204EST: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGATGTGTTATTAAA AACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATC
genomic: TTGATGCTGATGTGACAGACAGTGTTATTGGTGAAGGATGTGTTATTAAAgtaagcagtg ... gtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatttctcataattcatttactaaaacgtttatgccttgatcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
ataattcatttactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcagtgcttttactgtagcatatttgaaaacctttctatacttcttttattttctccaaagtaatttctcataattcatttactaaaacgtttatgccttgatcttgtgcacacagAACTGCAAGATAAACCATTCTGTAGTTGGACTCCGATCTTGCATATCTGAAGGTGCTATCATAGAGGACAGTTTACTAATGGGTGCGGACTACTATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA