Sequence
atgc intronic sequence ATGC exonic sequence...ctactactagattatactgccatatgttttaccatgtggactatgacgagaaccatctttacgcattactatatcgtatctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g35910.1 (Oryza sativa), 3'ss of exon 2
------ctactactagattatactgccatatgttttaccatgtggactatgacgagaaccatctttacgcattactatatcgtatctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
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actattcattttttaattcttataactacatatttaatgttatta--tttgccaattatcagagctgagcctga-tatgtc-tatatgttt--ttatttcttgcagCCCGCTCATCAGGGACAACGGTGACATTTGTCATAATAGATGGATTGTTTATTACCGTTGCATCTGTTGGTGATTCGCGTTGTGTACTAGAAGCTGAAGG
upper sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G36150.2 (Glycine max), 3'ss of exon 2
ctactactagattat-actgccatatgttttaccatgtggactatg-acgagaaccatctttacgcattactatatcgtatctgttgggttgtctt-ttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
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---aaacatgatgaagaatatcaattactaatggaagttaatggtgtaactgacttgtgattgatagtttttatacttctgaattaatatttttttgttacagGCCAAAAATCTGGAACAACTGTCACCTTTGTCATTATAGAAGGATGGGTTGTAACAGTTGCATCAGTTGGTGATTCCCGTTGCGTCCTTGAATCTTCTGA
upper sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G04210.1 (Glycine max), 3'ss of exon 2
ctactactagattatactgccatatgttttacca-tgtggactatgacgagaaccatctttacgcattactatatcgtatctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
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tgactggtaggtcttatatttttgaattacccgagtttttgttatatttttctcaacttgtatgc-tgattttatatacattattttctttgcttgtacagCACAAACATCAGGAACAACTGTAACCTTTATGATTGTAGAAGGATGGGTTTTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTTGAGCCTTCCGA
upper sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA14G09020.1 (Glycine max), 3'ss of exon 3
-----ctactactagattatactgccatatgttttaccatgtggactatgacgagaaccatctttacgcattactatatcgtatctgttgggttgtctt-ttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
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atcaattactaatggaagttaatggtgtaa---ctgacttgtgat---tgacagtttttatacttctgatttaatatttttttgttattatattttgttgttgcagGCCAAAAATCTGGAACAACTGTCACCTTTGTCATTATAGAAGGATGGGTTGTAACAGTTGCATCAGTTGGTGATTCCCGTTGCGTACTTGAATCTTCTGA
upper sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G04040.1 (Glycine max), 3'ss of exon 2
ctactactagattatac-tgccatatgttttaccatgtggactatgacgagaaccatctttac--gcattactatatcgtatctgttgggttgt---cttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
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------tgtgatggtaggtcttatatttctgaattactgagtttttgttatatttttcttaacttgtatgctgattttatatacattattttctttgcttgcacagCACAAACATCGGGAACAACTGTAACCTTTATGATTACAGAAGGATGGGTTGTAACAGTTGCATCAGTTGGTGATTCCCGTTGCATACTGGAGCCTTCTGA
upper sequence: GRMZM2G052699_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv18s0001g10700.t01 (Vitis vinifera), 3'ss of exon 3
ctactactagattatactgccatatgttttaccatgtggactatgacgagaaccatctttacgcattactatatcgt------atctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
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------cttgattttctctctgcatgctgctgcattctcctttttttaagagtcttttcatctcatttaaatgtgacttgaaaatttgatatggctactttttcagCACGAACTTCAGGAACAACTGTTACCTTTGTTATAATAGAAGGATGGGTGGTAACTGTTGCTTCCGTTGGTGATTCACGGTGCATACTTGAATCTGCTGAMapped 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|76292056|gb|DV031624.1|DV031624EST: AGCGCTGGTTGCTGCATTCGTCAAAACCGATAAGGATTTCCAGACTAAAG CACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCA
genomic: AGCGCTGGTTGCTGCATTCGTCAAAACCGATAAGGATTTCCAGACTAAAGgtatgttaga ... tcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCA
EST:
gi|33770855|gb|CF273149.1|CF273149EST: AGCGCTGGTTGCTGCATTCGTCAAAACCGATAAGGATTTCCAGACTAAAG CACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCA
genomic: AGCGCTGGTTGCTGCATTCGTCAAAACCGATAAGGATTTCCAGACTAAAGgtatgttaga ... tcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgagaaccatctttacgcattactatatcgtatctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
ttgtctttt CT-rich tract
attactatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctactactagattatactgccatatgttttaccatgtggactatgacgagaaccatctttacgcattactatatcgtatctgttgggttgtcttttacagCACGTTCTTCAGGGACAACTGTGACATTTGTCATAATAGATGGATTGGTCATCACTGTTGCATCAGTTGGTGATTCCCGTTGTGTACTACAAGCTGAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG