Sequence
atgc intronic sequence ATGC exonic sequence...accattggagtcttgttaccatggttttggtgaagttcattctagttttgtcttgatggtggaaattcctttctttaagacagcttttatctatgtctagAGGGCACGCTTTTCATTCATGGGAGGTAAAGGTGGATCTCTCTGGAAGCAGGTTACGTTTAAGTTGTCACATGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G416386_T01 (Zea mays), 3'ss of exon 8
accattggagtcttgttaccatggttttggtg--aagttcattctagttttgtcttgatggtggaaattcctttctttaagacagcttttatctatgtctagA---GGGCACGCTTTTCATTCATGGGAGGTAAAGGTGGATCTCTCTGGAAGCAGGTTACGTTTAAGTTGTCACATGAAAG
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-ggattacaacttcttttatttcctcatggaggtaggtgtattc-gcctttatgtattacatgatcttttttgtctttgttgctatacatttctacttgcagAACAGGGCACGTTTTTCATTCATGGGTGGTAAAGGTGGGTCCCTGTGGAAGCAAATGTCATTCCACCTATCTGGTCAAAG
upper sequence: Vv13s0019g04170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G35580.1 (Glycine max), 3'ss of exon 8
--accattggagtcttgttaccatggttt-tggtgaagttcattctagttttgtcttg-atggtggaaattcctttctttaagacagcttttatctatgtctag-
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ataataattaagcaacatagcttctcttcatattgaagtaaaat---gcttcaccatatactacttataatcctatatttattcttctttccatcttgattagGGAAGAGCACGCTTTTCATTTATGGGAGGAAAAGGCGGATCACTTTGGAAGCAGTTAGTGTTCAGATTGTCCCATCAAAG
upper sequence: Vv13s0019g04170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G31970.1 (Glycine max), 3'ss of exon 11
---accattggagtcttgttac-catggttttggtgaagttcattctagttttgtcttg-atggtggaaattcctttctttaagacagcttttatctatgtctagA-GGGCACGCTTTTCATTCATGGGAGGTAAAGGTGGATCTCTCTGGAAGCAGGTTACGTTTAAGTTGTCACATGAAAG
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tataataatcaagcagcatagcatctcttcatattgaaataaaat---gcttcatcatatactacttataatcctatatttattgttctttccatctaattagGGAAGAGCACGCTTTTCATTTATGGGAGGAAAAGGCGGATCACTATGGAAGCACTTAATGTTCAGATTGTCTCATCAAAG
upper sequence: Vv13s0019g04170.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G28880.1 (Arabidopsis thaliana), 3'ss of exon 9
accattggagtcttgttaccatggttttggtgaagttca-ttctagttttgtcttgatggtggaaattcctttctttaagacagcttttatctatgtctagAGGGCACGCTTTTCATTCATGGGAGGTAAAGGTGGATCTCTCTGGAAGCAGGTTACGTTTAAGTTGTCACATGAAAG
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---gttggtactctattctcctgaagtcccaatagtttaatgctattactgttttcttctaaagaatgtttcttccaattaca----ttgttccagGCTAGAGG--ACGATTTTCTTTCATGGGCGGTAAAGGTGGATCTCTCTGGAAGCAATTGACATTTAGTTTATCTGATCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtcttgatggtggaaattcctttctttaagacagcttttatctatgtctagAGGGCACGCTTTTCATTCATGGGAGGTAAAGGTGGATCTCTCTGGAAGCAGGTTACGTTTAAGTTGTCACATGAAAG
tcttgat putative branch site (score: 4)
cttttatct putative PPT
ttttatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accattggagtcttgttaccatggttttggtgaagttcattctagttttgtcttgatggtggaaattcctttctttaagacagcttttatctatgtctagAGGGCACGCTTTTCATTCATGGGAGGTAAAGGTGGATCTCTCTGGAAGCAGGTTACGTTTAAGTTGTCACATGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
-ccattgg
- - - - - - - - - ccatggt
- - - - - - - - - - - - - - - - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagacag