Sequence
atgc intronic sequence ATGC exonic sequencegtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G35410.1 (Glycine max), 3'ss of exon 2
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatag-atataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
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-------tgataagatttaatct-tctatatatatttattctcttcctct----------cgcatgataaaattcatctcatttgatggtactcccccttttggtgatgtgtttaaagCCATCCAAACGCAGTTGGTATATGGTCAAAAGAGCAAATTGAAGCATGGAAACCCATTGTGGATGCTGTTCATGCCAAAGGTGGTATATTCTTCTGTCAG
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
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-------------gtaatttgtttatgacttacctttgcttgatgaatgaaaa-agaagacac-tgtttaatgtgat---tttg---ttaattactttttattatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G00980.1 (Glycine max), 3'ss of exon 2
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
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----------------gtacctacaca-cttatttcaattctctcatttctgctaattataatttg--caccttcactccagtactatcactatacataataataatacatgtcaagGTATCCACACACACCTGGCATATGGACAAAACAGCAAGTCCAAGCGTGGAAACCCATTGTGGATGCCGTTCATGCCAAAGGTGGTATCTTCTTTTGTCAG
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G25570.1 (Glycine max), 3'ss of exon 2
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
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----tcacaataaaatttaatcgtttatatt-tattcattttcc---tctcgaca---------tgataaaattcatctctttgatgatacttccccttttgatgatgtgtataaagCCATCCAAACGCAGTTGGTATATGGTCAAGAGAGCAAATCGAAGCATGGAAACCCATTGTGGATGCTGTTCATGCCAAAGGTGGTATATTCTTCTGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
gattaat putative branch site (score: 3)
tttttcccatctat putative PPT
ttgatagatataagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattacagcaaacactactttctcaacttctgttcattttctaagtttaaataaaaaatatatgatcaagttgatagatataagattaattatctggtttttcccatctatgtagCTATGCACATACCCCGGGTATATGGACAAAAGAGCAAGTTGAAGCCTGGAAGCCCATTGTAGATGCTGTTCATGCTAAAGGCAGTATCTTTATTTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT