Sequence
atgc intronic sequence ATGC exonic sequencegtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 3'ss of exon 2
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaat-taacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
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--gtgctctttttctggtccttaattacttggcatttctttattagttcatttgtattaaaatgatacttggt-----atcatgcttg-gtgtttgcgtttgttaatttgtt---------tatctctaac-gatattttttaactcc-attatatcctgctgacaatataacagAACTGGTTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAACTCTGTCATTGCTGGACGTTACCATGTCACAGAATATCTGGGTTCAGCAGCATTCAGT
upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G34510.1 (Glycine max), 3'ss of exon 2
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
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-----------------------------------------------------------------------tgtaggtactattgttatgttggaaagtctgtattcttgtcattggtctgtgttccttttggccttgacatgccatctgaacccatgttttgttgct---cagAACTGGCTTTGAGGAGGACAAGAATTTCCATGTTGTTTTAAATTCTGTACTAGCTGGGCGCTATCATGTCACCGAGTATCTGGGATCAGCTGCATTTAGC
upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 2
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
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-----------------------------------------------------------------------tgtaggtactattgttatgttgcaaagtcagtattcttgtcattggtctgtgttccttttggccttgacatgctatctgaacccatgttttgttgct---cagAACTGGCTTTGAGGAGGACAAGAATTTCCATGTTGTTTTAAATTCTGTACTAGCTGGGCGCTATCATGTCACTGAGTATCTGGGATCTGCTGCATTTAGC
upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G06160.1 (Glycine max), 3'ss of exon 4
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
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----------------------------------------------------------------attttttgctat--gctgtaaa-gtatgatt-tcttgactgtttc-tatgttctccctttttttaac---ctttatagtccttcttaaactaagtttttgttgct--cagAACTGGCTTTGAGGAGGACAAGAATTTCCATGTTGTTTTAAATTCTGTAATAGCTGGGAGGTATCATGTTACTGAGTATTTGGGATCTGCTGCATTTAGC
upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G33560.1 (Glycine max), 3'ss of exon 2
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacacc-gtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
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----------------------------------------------------------------------gattttttgttatg-ttgtaaagtatgatttcttgtctg-tttctatgttctcccttttttaacctttatactctttcttaaacttagtttttgttgct---cagAACTGGCTTTGAGGAGGACAAGAATTTCCATGTTGTTTTAAATTCTGTAATAGCTGGAAGGTATCATGTTACTGAATATTTGGGATCTGCTGCATTTAGC
upper sequence: GRMZM2G181002_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 8
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
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------------------------------------------------------------gccagtttcaagttcacaacttttcc-----accagttttgccatt--gggaactttgct-tgttctaacaggaagtttcttatct-caatttctgttttgtggtg-----cagAACTGGGTTTGAGGAGGACAAAAACTTCCATGTTGTTTTAAATTCAGTCATAGCTGGGCGCTATCATGTTACCGAGTATCTTGGGTCAGCTGCATTCAGCMapped 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|32930222|gb|CF035034.1|CF035034EST: GAGGAAGAGTTTGAAACTTTCAATCTTAAGATTGTGCATAGAAAAAACAG AACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCAT
genomic: GAGGAAGAGTTTGAAACTTTCAATCTTAAGATTGTGCATAGAAAAAACAGgtattttctt ... taattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
tctcctgtt CT-rich tract
ttttaaaagatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttctttaaatgattgttccatctgttaatcttgttaaagcataaaaaaatgatatggtaatttccagttatctattgtccttgtgtgcctgtgttcacagtgtggcacctacgccgtatttttaaaagatattttatatcttctaacaccgtctcctgttaattaacagAACTGGCTTTGAAGAAGACAAAAATTTCCATGTTGTTCTCAATTCTGTCATTGCTGGGCGTTATCATGTATCAGAGTATTTGGGGTCAGCTGCTTTCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT