Sequence
atgc intronic sequence ATGC exonic sequencegtctcttttcaataccccatttccacttcctttccatatatttcctttgttttggtttgtgatctctaacaatgatttcgagttatatgtatgtatatgtatctctacagGCATAGATGGACGGGTAGATATGAGGCTCATCTATGGGACAACAGTTGCAGAAGAGAAGGACAAACTCGAAAGGGAAGGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g40070.1 (Oryza sativa), 3'ss of exon 2
gtctcttttcaataccccatttccacttcctttccatatatttcctttgttttggtttgtgatctctaacaatgatttcgagttatatgtatgtatatgtatct-ctacagGCATAGATGGACGGGTAGATATGAGGCTCATCTATGGGACAACAGTTGCAGAAGAGAAGGACAAACTCGAAAGGGAAGGCAAG
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---------caac-caatgtttatatttttttttcagacgtgattttgaatcttaatagc-atgcatatgagctttagtaaattacctgctcttgaaattgttggtttcagGCATAGATGGACAGGGCGATATGAGGCTCATCTCTGGGATAATAGCTGTAGAAGAGAAGGGCAGAGTCGCAAGGGTAGGCAAG
upper sequence: Vv04s0023g00950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g42570.1 (Oryza sativa), 3'ss of exon 2
gtctcttttcaataccccatttccacttcctttccatatatttcctttgttttggtttgtgatctctaacaatgatttcgagttatatgtatgtatatgtatctctacagGCATAGATGGACGGGTAGATATGAGGCTCATCTATGGGACAACAGTTGCAGAAGAGAAGGACAAACTCGAAAGGGAAGGCAAG
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--caattttcttctagtcgataaaaaataatatatatgcatgtt-tatataaaaatttttaagttcttcatacgtat---aatcacgt---tgttaatctgtcttt-cagGCATAGATGGACAGGAAGATATGAAGCTCATCTGTGGGATAATAGCTGTAGGAGAGAAGGCCAAAGTCGCAAGGGGAGACAGG
upper sequence: Vv04s0023g00950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G366434_T01 (Zea mays), 3'ss of exon 2
gtctcttttcaataccccatttccactt-cctttccatatatttcctttgttttggtttgtgatctctaacaatgatttcgagttatatgta----tgtatatgtatctctacagGCATAGATGGACGGGTAGATATGAGGCTCATCTATGGGACAACAGTTGCAGAAGAGAAGGACAAACTCGAAAGGGAAGGCAAG
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---------------tatatatatatatatatatatacgtgttgaggttggtaataacaaatgtttttgaaaacgcactatatatatgcataattttgagtattcttgtttacagGCATAGATGGACAGGGCGGTATGAGGCTCATCTATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtgatctctaacaatgatttcgagttatatgtatgtatatgtatctctacagGCATAGATGGACGGGTAGATATGAGGCTCATCTATGGGACAACAGTTGCAGAAGAGAAGGACAAACTCGAAAGGGAAGGCAAG
ctctaac putative branch site (score: 2)
tatctct putative PPT
ttatatgtatgtatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctcttttcaataccccatttccacttcctttccatatatttcctttgttttggtttgtgatctctaacaatgatttcgagttatatgtatgtatatgtatctctacagGCATAGATGGACGGGTAGATATGAGGCTCATCTATGGGACAACAGTTGCAGAAGAGAAGGACAAACTCGAAAGGGAAGGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA