Sequence
atgc intronic sequence ATGC exonic sequencegtattttcttttcattgaatgttagatttcatgtatgcatatacaactatgggagaaaatttcttatctgatttgaattgttgttgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g42540.1 (Oryza sativa), 3'ss of exon 1
-----------------gtattttcttttcattgaatgttagatttcatgtatgcatatacaac-tatgggagaaaatttcttatctgatttgaattgttgttgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
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gtttgcgattccggcgcatccttccttcttcccggtttattattctcccccattgatgttctgtgcgctttcggttgttcaatattgattttgggtt----ctgcagATAGGAAGTGGGGGAAGGGGAAGGACAAGATTGATGATGAGGACATCACCTTCCAGCGCATGGTCGCAAAG
upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G146786_T01 (Zea mays), 3'ss of exon 1
--gtat-tttcttttcattgaatgttagatttcatgtatgcatatacaactatgggagaaaatttc---ttatctgatttgaattgttgt---tgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
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gtgtgcgcctccttccactgatttatcgatttgcctaccctgttttccccgttgggcgttctcatcgaattcccgagtttggctccgtgcatgtgcagACAGGAAGTTTGGTAAAGGGAAGGATAAGATCGACGATGAGGACATCACCTTCCAGCGCATGGTTGCAAAG
upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G28980.2 (Glycine max), 3'ss of exon 1
----------------------gtattttcttttca-----ttgaat--gttagatttcatgtatgcatatacaactatgggagaaaatttcttatctgatttgaattgttgttgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
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gtattattcattccattcttttttttttttttctcaagtttttcaattggttgttgttgttgtttaaagttttgatttttcgtggattttgattactgggtatgtttcaatttcgcagATAAGAAATGGGGCAAGGGGAAAGATAAGATTGACGATGAAGACATTACTTTCCAACGCATGGTTGCAAAG
upper sequence: Vv16s0039g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G33570.2 (Glycine max), 3'ss of exon 1
-------------------gtattttcttt---tcattgaat--gttagatttcatgtatgcatatacaactatgggagaaaatttcttatctgatttgaattgttgttgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
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gtattcattccattcctaatttttttcttcaagtttttcaattggtcgtcgttgttgtttaaagttttgattttccgtggattttgattactgggtatgtgtcaatttcgcagATAAGAAATGGGGTAAGGGAAAAGATAAGATTGACGATGAAGACATTACTTTCCAACGCATGGTTGCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcatatacaactatgggagaaaatttcttatctgatttgaattgttgttgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
atctgat putative branch site (score: 4)
agaaaatttcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttcttttcattgaatgttagatttcatgtatgcatatacaactatgggagaaaatttcttatctgatttgaattgttgttgcagATAAGAAATGGGGAAAAGGGAAGGACAAAATTGATGATGAAGATATCACTTTCCAGCGCATGGTTGCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA