Sequence
atgc intronic sequence ATGC exonic sequencegtttgctaacatttgctgattgtgttgtaatttctgtacactgcaaatttggatatagagtctcattaagaagaaaaagggagaagtcccctgagtgttctaattggttgattgcctgacaccttcgtttttcatcttctatcttgcatagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G177061_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g47270.1 (Oryza sativa), 3'ss of exon 2
gtttgctaacatttgctgattgtgttgtaatttctgtacactgcaaatttggatatagagtctcattaagaagaaaaagggagaagtcccctgagtgttctaattggttgattgcctgacaccttcgttttt-catcttctatcttgcatagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
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----------------------------gtttgctattcctaacattggctgctgtgtgctcttgttcattagctgcaatttagag---catgatttttct--------gagtgtccgacaccttttcttttgcatatatcatctagca--gGTTATTGCCGTGAAGCAACTTGACAGAAATGGCCTACAAGGAAACCGAGAATTTCTCGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
upper sequence: GRMZM2G177061_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G28730.1 (Glycine max), 3'ss of exon 2
gtttgctaacatttgctgattgtgttgtaatttctgtacactgcaaatttggatatagagtctcattaagaagaaaaagggagaagtcccctgagtgttctaattggttgattgcctgacaccttcgtttttcatcttctatcttgc-atagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
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---------------------------------------------aagttatctgtctgctctcaattttcct----gttgattattgctctgt-tactataact--ctgcctctttcataatttttaatgatgaaatcattctcgttgcagGTAGTTGCTGTAAAACAGCTTGACCGAAATGGTCTTCAAGGAAATCGAGAGTTTTTGGTGGAAGTTCTTATGCTCAGTCTCTTGCATCATCCAAATCTTG
upper sequence: GRMZM2G177061_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G10360.1 (Glycine max), 3'ss of exon 2
gtttgctaacatttgctgattgtgttgtaatttctgtacactgcaaatttggatatagagtctcattaagaagaaaaagggagaagtcccctgagtgttctaattggttgattgcctgacaccttcgtttttcatcttctatcttgcatagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
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--------------------------aagttatttgtctgctggaaattt----------tcccatt-------------gattattgctctgt-tactataacta-tgcctctttcgtaatcttcattaatgaaatcattctcttcgcagGTGGTTGCTGTAAAACAGCTTGACCGAAATGGTCTTCAAGGAAATCGAGAGTTTTTGGTGGAAGTTCTTATGCTCAGTCTCTTGCATCATCCAAATCTTG
upper sequence: GRMZM2G177061_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0020g01770.t01 (Vitis vinifera), 3'ss of exon 2
gtttgctaacatttgctgattgtgttgtaatttctgtacactgcaaatttggatatagagtctcattaagaagaaaaagggagaagtcccctgagtgttctaattggttgattgcctgacaccttcgtttttcatcttctatcttgcatagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
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--------------------------------------------aatcttttatatatggaat-atggattgctgaataatgttaatcact---gtgtctcatctggt--atttattgat-ttttggttcaatgaattattgtatttgcagGTAGTTGCTGTGAAACAACTTGACCGAAATGGCCTTCAAGGAAATAGAGAATTCTTGGTGGAGGTTCTCATGCTTAGCCTCTTACATCACCCAAACCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctaattggttgattgcctgacaccttcgtttttcatcttctatcttgcatagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
ccttcgtttttcatct CT-rich tract
tttttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgctaacatttgctgattgtgttgtaatttctgtacactgcaaatttggatatagagtctcattaagaagaaaaagggagaagtcccctgagtgttctaattggttgattgcctgacaccttcgtttttcatcttctatcttgcatagGTCATTGCTGTGAAGCAACTTGATAGAAATGGTTTTCAAGGAAATCGTGAATTCCTTGTGGAGGTTCTCATGCTAAGTCTCTTGCACCATCCTAATCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG