Sequence
atgc intronic sequence ATGC exonic sequencegtgggttttacgattgaatgtataaatatcatgattgtgacaatgaagaattgttgggtccattcctgttttgatttttacagtatcgaatcggtttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0151g00290.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G081977_T02 (Zea mays), 3'ss of exon 4
-----gtgggttttacgattgaat--gtataaatatcatgattgtgacaatgaagaattgttgggtccattcctgttttgatttttacagtatcgaatcggtttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA------------------------------------------
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gtaagtcgaatctcgtgttcgcatcagttgtaataactcgatcgttgt--ttcagcatcgccgaactgaactgtgcccatgcccttgcct------gccggtttccg-cagGTGATGCTGAAGATGAAGAGTCGGCACGTCGGTGGCACCATCACGAAGAAGAAGAAGAGTAAGTAGTGTGCCGTGTGCGAACGTTCATACAAACTATTGC
upper sequence: Vv07s0151g00290.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM5G815449_T01 (Zea mays), 3'ss of exon 4
-----gtgggttttacgattgaat--gtataaatatcatgattgtgacaatgaagaattgttgggtccattcctgttttgatttttacagtatcgaatcggtttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA
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gtaagtcgaatctcgtgttcgcatcagttgtaataactcgatcgttgt--ttcagcatcgccgaactgaactgtgcccatgcccttgcct------gccggtttccg-cagGTGATGCTGAAGATGAAGAGTCGGCACGTCGGTGGCACCATCACGAAGAAGAAGAAGA
upper sequence: Vv07s0151g00290.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G16330.1 (Glycine max), 3'ss of exon 5
gtgggttttacgattgaatgtataaatatcatgattgtgacaatgaagaattgttgggtccattcctgttttgatttttacagtatcgaatcggtttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA
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---------------gtattttttc-catcaagaat-tcatagc-aggtgggattgggtacatgtattgtctattcatcataacgtt---tgcaatcatttcagGTGATGCTGAAAATGAAGAGCAGACATGTAGCAGGAACCATTACCAAAAAGAAAAAGA
upper sequence: Vv07s0151g00290.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G03500.1 (Glycine max), 3'ss of exon 5
gtgggttttacgattgaatgtataaatatcatgattgtgacaatgaagaattgttgggtccattcctgttttgatttttacagtatcgaatcggt--ttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA
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----atattacaattcaattgg--gataccagaaaaaatgaattcgaggcaggtggaattgggtacatgtattgttcattcatcataaagcttgcaatcatttcagGTGATGCTGAAAATGAAGAGCAGACATGTTGCAGGAACCATTACCAAAAAGAAAAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgttgggtccattcctgttttgatttttacagtatcgaatcggtttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA
ttttgat putative branch site (score: 4)
tttccttc putative PPT
tgttttgattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggttttacgattgaatgtataaatatcatgattgtgacaatgaagaattgttgggtccattcctgttttgatttttacagtatcgaatcggtttccttcagGTGATGCTGAAGATGAAAAGCAGACACGTAGCTGGGACCATCACCAAGAAGAAAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA