Sequence
atgc intronic sequence ATGC exonic sequence...ccttttttcttccttccatttagttgctttggtaataaaaattttgctctgtgcattgattgtcttctctgtcctcataatatctgttggcttattacagAACAAGAAAGATTTTTGGGATTTCTCTCTCTCTCTTTCTTATCAACCTGGCCTCTATAATGGAGCGAGCTGATGAAAATCTCCTTCCAGCTGTTTATAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g59450.1 (Oryza sativa), 3'ss of exon 1
--ccttttttcttccttccatttagttgctttgg--taataaaaattttgctctgtgcattgattgtcttctctgtcctcataatatctgttggcttattacagAACAAGAAAGAT---TTTTGGGATTTCTCTCTCTCTCTTTCTTATCAACCTGGCCTCTATAATGGAGCGAGCTGATGAAAATCTCCTTCCAGCTGTTTATAAA
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ctctgtttgaaaaatatccccaggattacatgaaattcatcaataaattatcct-tggtttgttttttgtaaccattctc-taacatatgtt--cttctttcagGGCAAAGAAGATGTTTTTTGGTTTTTCCGTTTCTCTTATCCTCATCAACCTAGCTTCCATAATGGAGCGGGCTGATGAGAATCTCCTTCCGGCAGTTTAC---
upper sequence: Vv04s0023g01270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G462325_T03 (Zea mays), 3'ss of exon 1
ccttttttcttccttccatttagttgctttggtaataaaaattttgctctgtgcattgattgtcttctct-gtcctcataatatctgttggctta-ttacagAACAAGAAAGATTTTTGGGATTTCTCTCTCTCTCTTTCTTATCAACCTGGCCTCTATAATGGAGCGAGCTGATGAAAATCTCCTTCCAGCTGTTTATAAA
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--gttacattatctagcatacaacagcaacaaagcctctaacattatctacagaatttactgttacatatcataaccctagtatttttttcttttcttgcagAACAAACAAGATACTTGGTTTCTCTGTATCTCTCATCCTCATCAATCTGGCTTCAATTATGGAGCGTGCTGATGAGAATCTCCTTCCAGCAGTTTACAAG
upper sequence: Vv04s0023g01270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G38460.1 (Glycine max), 3'ss of exon 1
--ccttttttcttccttccatttagttgctttggtaataaaaattttgctctgtgcattgattgt-cttctctgtcctcataatatctgttggcttattacagAACAAGAAAGATTTTTGGGATTTCTCTCTCTCTCTTTCTTATCAACCTGGCCTCTATAATGGAGCGAGCTGATGAAAATCTCCTTCCAGCTGTTTATAAA
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ttcctttcctttttttttcctgtgcctgagctga-aacaatgatttcag-ctatggcttacttatgccttattcttcttaatttataaatttttttgc-acagAACAACACAGATCTTTGGTGTGTCTCTCTCACTCATTCTTATCAACCTGGCTGCTATAATGGAGCGTGCAGATGAAAACCTTCTTCCATCTGTCTACAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctctgtgcattgattgtcttctctgtcctcataatatctgttggcttattacagAACAAGAAAGATTTTTGGGATTTCTCTCTCTCTCTTTCTTATCAACCTGGCCTCTATAATGGAGCGAGCTGATGAAAATCTCCTTCCAGCTGTTTATAAA
cattgat putative branch site (score: 4)
tcataatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttttttcttccttccatttagttgctttggtaataaaaattttgctctgtgcattgattgtcttctctgtcctcataatatctgttggcttattacagAACAAGAAAGATTTTTGGGATTTCTCTCTCTCTCTTTCTTATCAACCTGGCCTCTATAATGGAGCGAGCTGATGAAAATCTCCTTCCAGCTGTTTATAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - -ccttcca
- - - - - - - - - - - - tgctttg
- - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -tgcattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgttgg