Sequence
atgc intronic sequence ATGC exonic sequencegtaaataattttacacttatcatattgaatgggttgtatgcttgatggctgtaaagcttggttgctgatggatttctttgctttggtttacagCCTGATAAAACTTCTGGCACAATCAAGGAACAGCTTGCAGCTATAGCACCGACGCTCGAACAGCTGTGGAAACAGAAAGAAGAGAGAGTGAAGGAGTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G02180.3 (Glycine max), 3'ss of exon 3
gtaaataattttacacttatcatattgaatgggttgtatgcttgatggctgtaaagcttggttgctgatggatttctttgctttggtttacagCCTGATAAAACTTCTGGCACAATCAAGGAACAGCTTGCAGCTATAGCACCGACGCTCGAACAGCTGTGGAAACAGAAAGAAGAGAGAGTGAAGGAGTTTT
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--------gttagtaactacttgact--atgtcttatattgttagtaaagtggcaaactaatttcctatgcgtattttttattct-ttcacagCCTGAGAATACTTCTGGAACTATCAAAGAACAGCTTGCAGCTATAGCACCAGTACTTGAACAGTTATGGCAACAAAAGGAAGAAAGAATTAAGGAGTTCT
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G46450.1 (Glycine max), 3'ss of exon 3
----------------------------gtaaataattttacacttatcatattgaatgggttgtatgct-tgatggctgtaa--agcttggttgctgatggatttctt--------tgctt--tggtttacagCCTGATAAAACTTCTGGCACAATCAAGGAACAGCTTGCAGCTATAGCACCGACGCTCGAACAGCTGTGGAAACAGAAAGAAGAGAGAGTGAAGGAGTTTT
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gttagtaactattttgactatgtattatattggcaataatacactacgcattagctaaagattttactctgtgatgcatttaaatagtaaagtagcaaactaatttcctatgcatattgtttattctttcacagCCTGAGAATACTTCTGGAACTATCAAAGAACAGCTTGCAGCTATAGCACCAGTACTTGAACAGTTATGGCAACAAAAAGAAGAAAGAATTAAGGAGTTCT
upper sequence: Vv19s0090g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G02200.1 (Glycine max), 3'ss of exon 2
gtaaataattttacacttatcatattgaatgggttgtatgcttgatggctgtaaagcttggttgctgatggatttctttgctttggtttacagCCTGATAAAACTTCTGGCACAATCAAGGAACAGCTTGCAGCTATAGCACCGACGCTCGAACAGCTGTGGAAACAGAAAGAAGAGAGAGTGAAGGAGTTTT
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--------gttagtaactacttgact--atgtcttgtattgttagtaaagtggcaaactaatttcctatgcatattttttattct-ttcacagCCTGAGAATACTTATGGAACTATCAAAGAACAGCTTCCAGCTATAGCACCAGTACTTGAACAGTTATGGCAACAAAAGGAAGAAAGAATTAAGGAGTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttgatggctgtaaagcttggttgctgatggatttctttgctttggtttacagCCTGATAAAACTTCTGGCACAATCAAGGAACAGCTTGCAGCTATAGCACCGACGCTCGAACAGCTGTGGAAACAGAAAGAAGAGAGAGTGAAGGAGTTTT
tgctgat putative branch site (score: 3)
tttctttgcttt putative PPT
atttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataattttacacttatcatattgaatgggttgtatgcttgatggctgtaaagcttggttgctgatggatttctttgctttggtttacagCCTGATAAAACTTCTGGCACAATCAAGGAACAGCTTGCAGCTATAGCACCGACGCTCGAACAGCTGTGGAAACAGAAAGAAGAGAGAGTGAAGGAGTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG