Sequence
atgc intronic sequence ATGC exonic sequence...ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 8
ctggaaaatgttcta--tactgatttctgaacgcc----acttgtgttgctctttataatctca-tcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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-tggaatatttgttagttgttggcagctcactacttaatacttatgtcagttatgattgccacaatgttgaggtgttctt------attttttaatttattttgtagACTTGAGAACACGCTAAACTATGGTCTTGAACGAGTCTGGGCTGTTGGATACATGAAGGGTTCAAGAAG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 8
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctgagatgttctttgttttatatcttgaactattctgt----agACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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---ttacatgtttttaagatttcaccaaaattagtttgaaattgagattatggatatattcc-agtcatctttaaatttttatggtggtgcaatctgcttgcagGCTTGAGAACACATTGAACTATGGTCTTGAAAGAGTTTGGGCTATTGGATATCTGAAGGGTTCACGCCG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 8
--ctggaaaatgttctatactgattt---ctgaacgccacttgtgttgctctttataatc-tcatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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tttttcataacatttctccttgaattattttgaaatatatctgagattatggatatatctgtcatttttaaatttttatggttgtgtaatatg------cttgcagGCTTGAGAACACATTGAACTATAGTCTTGAAAGAGTTTGGGCTATTGGATACCTGAAGGGTTCACGTCG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 8
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctg--agatgt-tctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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ctattttatttccgtttacagtttttaa--gctgatactaaatgtagttggaagtatattttggaagatatatactaattctccatttcaatgtatt-tgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatct-catcctgagatgtt-ctttgttttatatc-ttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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-tttacagt-ttttaagctg-ttactaaatttagttggaagtatactttgtaagatatatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------------------------------------------ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccatt-tgtaatcccaatttcctaatgtct-gttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 12
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctg--------agatgttcttt-----gttttatatcttgaactattc-tgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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gtaactcgtatgctgt-ctgcattggagctgctattgattttgtctttaaaaacttccttcaatttttcaaaaatcttcatccaacagttttttacttaatacttgacatctagGCTTGAGAATACATTGAACTATGGCCTTGAGAGGGTTTGGGCTATTGGACACATTAAAGGTTCACGCCG
upper sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 8
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatc---tcatcctgagatgttctttgttttatatcttgaactatt-ctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
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----tgttttttcttaatgtagtgatagatgatagatgattaaacctttagagttatgctagtctttaatttccgacagactgaaccttcttcattaactacagGCTCGAGAACACGTTGAATTATGGTCTTGAAAGAGTTTGGGCTGTTGGATACATGAAAGGTTCACGCCGMapped 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|26457397|gb|CA828980.1|CA828980EST: ACTGGATCTGAAGATGGTACAGTTCGTATATGGCATTCGACAACTTACAG ACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATA
genomic: ACTGGATCTGAAGATGGTACAGTTCGTATATGGCATTCGACAACTTACAGgtaacatgtt ... tattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATA
EST:
gi|32865242|gb|CF004924.1|CF004924EST: GAAGATGGTACAGTTCGTATATGGCATTCGACAACTTACAG ACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATA
genomic: GAAGATGGTACAGTTCGTATATGGCATTCGACAACTTACAGgtaacatgtt ... tattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttataatctcatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
ctattct CT-rich tract
ttctttgttttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatctcatcctgagatgttctttgttttatatcttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT