Sequence
atgc intronic sequence ATGC exonic sequence...ctaaactttagtgaggggaaccaaacacctccttaattcgttgaagacatcatgatgatattaacagccagttataaatgcatgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 10
------------------------------------------------------------------------------------------------ctaaactttagtgaggggaaccaaacacctccttaattcgttgaagacatcatgatgatattaacagccagttataaatg-catgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
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gtacagattttgtatcttgtgatagtattgacatctcttttgagttttgcgatccactctgtgaatttatcaattttttttggggaaaaacttgatcaaaatcataatagtttcatatgttgttttctttcttgcattgaactcttattggtggtagtattcaaagttaatggagaacatgctatttgtttctgcagCTGGATCCGGAGCTTGAATTTGACCGTGAGGTGTATCCGCTTGGTCTTCTTCCAAATGTTGGTGTAGTTGTTGGTATTTCTCAGAGAATGTCCTTCTCGA
upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 11
ctaaactttagtgaggggaaccaaacacctccttaattcgttgaagaca-tcatgatgatatta-acagccagtta--taaatgcatgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
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ttacaattcatctggtggat----aggctatttgaagcaaataaattcagtctttccttcattctggaatcgattaatttattgaaattggcctcattttttagTTGGATCCGGAGCTGGAGTTTGATCGTGAAGTATACCCTTTGGGACTTCTTCCAAATGCTGGTGTAGTTGTTGGTGTTTCCCAGAGAATGTCATTTCCAG
upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 11
ctaaactttagtgaggggaaccaaacacctcct-taattcgttgaagacat--catgatgatattaacagccagttataaatgcatgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
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ttacaattca-tctggtggataggctatttgaggcaaataagttcagtcattccttcattctggaatcagttaatt--tactgaaattggcctcattttttagTTGGATCCGGAGCTGGAGTTTGATCGTGAAGTATACCCTTTGGGACTTCTTCCAAATGCTGGTGTGGTTGTTGGTGTTTCCCAGAGAATGTCATTTCCAG
upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 10
lower sequence: AT5G28350.2 (Arabidopsis thaliana), 3'ss of exon 11
------------------------------------------------------------------------ctaaactttagtgaggggaaccaaacacctcctta-attcgttgaagacatcatgatgatattaacagcca-gttataaatgcatgtcatgtg--atactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
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gtatgcatgctagtagagtccattttcactgccattggtagcttgtctttttgttctgatttttattgtctgtaacatcattgtttgacgacattgacattcaaacacatccctcttataaatttctatttttttcattgtttcaaaatgcatttttattatgttccattctctagCTGGATCCAGAGTTGGAATTTGATCGCGAGGTGTATCCCTTGGGACTTTTACCAAACGTGGGCGTCGTTGTCGGAGTTTCTCAGAGAATGTCATTTTCGG
upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 10
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 11
------------------------------------------------------------------------ctaaactttagtgaggggaaccaaacacctcctta-attcgttgaagacatcatgatgatattaacagccagttataaatgcatgtcatgtg--atactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
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gtatgcatgctagtagagtccattttcaccgccattggtggcttatctttttgttctgatttttattgtctgtaacattattgtttgacgacattgacattcaaacacatccctcttataaatttctaattttttcattgtttcaaatgcatttttattatgttccattcttcagCTGGATCCAGAGTTGGAATTTGATCGTGAGGTGTATCCCTTGGGACTTTTACCAAACGTGGGCGTCGTTGTTGGAGTTTCTCAGAGAATGTCATTTTCGG
upper sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 11
-----ctaaactttagtgaggggaaccaaacacct-ccttaattcgttgaagacatcatgatgatattaacagccagttataaatgcatgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
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tagaattaaattggatggagtactagttagtagttatcttgatatgcttctttcatcgctgtattcctagatgct--taattaa--cttgacat-tgacatt-tagTTGGATCCTGAGCTGGAATTTGACCGTGAGATATACCCTCTTGGGCTTCTTCCAAATGCTGGGGTGGTTGTGGGTGTTTCCCAGAGAATGTCATTTACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacatcatgatgatattaacagccagttataaatgcatgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
tattaac putative branch site (score: 1)
atgatattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaaactttagtgaggggaaccaaacacctccttaattcgttgaagacatcatgatgatattaacagccagttataaatgcatgtcatgtgatactgtagCTGGATCCGGAGCTTGAGTTTGATCGCGAGGTGTATCCTCTTGGTCTTCTTCCAAACGTTGGTGTGGTTGTTGGTGTTTCCCAGAGGATGTCCTTCTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG