Sequence
atgc intronic sequence ATGC exonic sequencegtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G180065_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g14932.1 (Oryza sativa), 3'ss of exon 6
gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
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gtaagcaggttgaccaccttgaagtactc------------cccagatgtttctgctctg------cttttgcttcatatagctgtcgtgctttcagGTATGTAGCACCAGAGTATGCAATGACAGGACACTTGCTTGTAAAAAGCGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGG
upper sequence: GRMZM2G180065_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 7
-gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
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gttagtcttgatatattctttcattctttgacttgtt-atttccatataatttaattt-----tttaaggttaaatgaaacttcta-------tgtagGTACGTTGCTCCTGAATATGCCATGACTGGACACCTACTTGTTAAAAGTGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAG
upper sequence: GRMZM2G180065_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G40500.1 (Glycine max), 3'ss of exon 6
-gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
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gttagtcttgatatattctatc--ttagactt--gttatttgcatataatttaattttgtaaggttaaattaaacttcta-------------tgtagGTACGTAGCTCCTGAATATGCCATGACTGGGCACCTACTTGTTAAAAGTGATGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGTAGGAAG
upper sequence: GRMZM2G180065_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 5
gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
| |||| | | | | | | |||| | | || | || | | ||| | | | || ||| ||| ||||||||| || || ||||| || ||||| ||||| | || |||||||||||||| || |||||||||||||| || ||||| | | || ||||| |||
-------gtttgtcatact--ctctcatcttttgtccttaacttagta-ttacctagtttaatgtgtagtaatgttactaaattgg----tttacagGTATGTAGCCCCTGAGTATGCTATGACTGGACATCTACTAGTAAAAAGTGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
cttctggccttttt CT-rich tract
aatttattttctgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatctgaatgtccttttacatttagccatgggtccatggcccagcaatttattttctgaatttaccttcaccttgtacttctggcctttttgcagGTATGTTGCACCGGAGTACGCCATGACAGGACACTTGCTTGTAAAAAGTGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG