Sequence
atgc intronic sequence ATGC exonic sequence...aaaaacttctagttttctaaatttcagttctttaagcttgttttctagtttattttagcttttcattccttaatatttagttaccctttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g02510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G01440.1 (Glycine max), 3'ss of exon 3
aaaaacttctagtttt-ctaaatttcagttctttaagcttg--ttttctagt-ttattt-tagcttttcattccttaatatttagttaccct-ttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
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------ttctagtccaactgttattatgctccgttaatatgaaatttctaataccatatatattttttcatggagtattaattaaccttcctgcattacgaaacagGCTAGCCTACTTGCACGAAGGATTAGAACCCAAAGTTGTCCACCGAGATGTAAAATCCAGTAACATTCTTTTGGACAAAAAGTGGAATGCTAAAGTATCA
upper sequence: Vv03s0063g02510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G01490.1 (Glycine max), 3'ss of exon 3
aaaaacttctagttttctaaatttcagttc-tttaagcttgttttctagtttattttagcttttcattccttaatatttagttaccct-ttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
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--ctagtacaattgctatcatgctccgttaatacgaaatttctatattgccaataatattctttcatggagtattaattaaccttcctacattacaaaacagGCTAGCCTACTTGCACGAAGGATTAGAACCCAAAGTGGTCCACCGAGATGTAAAATCCAGTAACATTCTTTTGGACAAAAAGTGGAATGCTAAAGTATCA
upper sequence: Vv03s0063g02510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G12570.1 (Glycine max), 3'ss of exon 3
-aaaaacttctagttttctaaatttcagttctttaagcttgttttctagtttattttagcttttcattccttaatatttagt-taccctttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
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taatgttatcatgctctgtagactgta-tccatgattgttccagtttatgttatcttaatgattc-tatctcaacaattaatgtttctacattatgaaacagGCTAGCCTATCTGCATGAAGGTTTAGAACCCAAAGTTGTGCACCGGGATATAAAATCCAGTAACATTCTTTTGGATAAAAACTGGAATGCCAAAGTATCA
upper sequence: Vv03s0063g02510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G04780.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------aaaaacttctagttttctaaatttcagttc---tttaagcttgtt---ttctagtttattttagcttttcattccttaatatttagttaccctttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
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gtgtgtttaatgttcattgagttttctttctccttttactgtgatttgcttatgtttatcgggtttcatgctctgtagtctgtatccatgattgttccattttatgtcatcttaatcatgctatcttgacaattaatttttctacattatgaaacagTTTAGCCTATTTGCATGAAGGTTTAGAGCCCAAAGTTGTGCACCGGGATATAAAATCCAGTAACATTCTTTTAGATAAAAACTGGAATGCCAAAGTATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtttattttagcttttcattccttaatatttagttaccctttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
ccttaat putative branch site (score: 4)
ttaccctttttctgtt putative PPT
ttaatatttagtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaacttctagttttctaaatttcagttctttaagcttgttttctagtttattttagcttttcattccttaatatttagttaccctttttctgttgtagGCTTGCCTATTTGCATGAAGGGTTAGAACCCAAAGTTGTACACCGAGATGTAAAATCCAGTAACATTCTTCTGGATAGAAAGTGGAACCCAAAAGTATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
aaaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctttt