Sequence
atgc intronic sequence ATGC exonic sequencegcactacattttctaaagcaagaaataagaatatatttggtcttctatttctcctttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g54510.2 (Oryza sativa), 3'ss of exon 5
gcactacattttctaaagcaagaaataagaatatatttggtcttctatttctcctttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
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gtattacttgtttaatcaaagaacactatgattcttttattctcaaatatccaaattct-aaattaaagcaactgcacagGACAATTGATCGCCGTAAAAGAGTTATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCATGGGAAGAATATAGTTCATTTTGATCTAAAGTGT
upper sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G01190.1 (Glycine max), 3'ss of exon 7
------------------------------------------------------gcactacattttctaaagcaagaaataagaatatatttggtct-----tctatttctcct-ttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
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gtaacttgatgcatgcatgggcttatatttcatcaatatttaatatgttttaaggcactcaaatgtgcagccttccatatgaaaaccctcatggactggtgatgtattatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTTCATTTTGATTTGAAATGT
upper sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 10
---------------------------------------------------------gcactacattttctaaagcaagaaataagaatatatttggtct-----tctatttctcctt--tatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
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gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
upper sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT5G57610.1 (Arabidopsis thaliana), 3'ss of exon 5
------gcactacattttctaaagcaagaaataagaatatatttggtcttctatttctcctttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
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gtaaaaaagtttcacctattcatgcattatatactattttcctagagtatccaattatctgacatcacattggttgactcctccagAACTATTGATCGTCGCAAAAGACTCATCATAGCCATGGATACTGCATTTGGGATGGAGTATTTGCACGGAAAGAACATTGTTCATTTCGATTTGAAGTGT
upper sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv11s0052g01480.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------------------------------------------------------------------gcactacattttctaaagcaagaaataagaatatatttggtcttctatttctcctttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
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gtaattgttttgatggtggtttactgaattgcagtttatgagtccttttaactttcttctgttttaggatgtaggctataaagcatatacttagaagtgctcattttttgctgaaaagaaatgaaaaattta---tttcctgtggaatgtgacaattttatgctattgaacagGACAATAGATCGTCGGAAGAGACGCATCATAGCTATGGATGCTTCATTTGGAATGGAGTATTTACATGGCAAGAATATTGTACATTTTGACTTAAAATGTMapped 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|28187624|gb|CB179234.1|CB179234EST: GAGTTTATGGTTAATGGGTCTCTCAAACAGTTCCTGAGGAAAAAAGACAG GACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGG
genomic: GAGTTTATGGTTAATGGGTCTCTCAAACAGTTCCTGAGGAAAAAAGACAGgcactacatt ... acttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagaatatatttggtcttctatttctcctttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
tttatcaaaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcactacattttctaaagcaagaaataagaatatatttggtcttctatttctcctttatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG