Sequence
atgc intronic sequence ATGC exonic sequencegtgcgtgcgtgactgcgtgtccccttgtcaagtgtactaggttccacttggtaactatttaatctaagcactggtgatgtcctaattactgtagGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G089860_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g03400.2 (Oryza sativa), 3'ss of exon 3
--gtgcgtgcg-tgactgcgtgtccccttgtcaagtgtactaggttccacttggtaactatttaatctaagcactggtgatgtcctaattactgtagGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
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gtgtgtatgggcttcctatagctgccagtatccaat-tgttaatttccccttt-tggttttcttgttacaatgtgtgtatgatgatgatga-tgtagGCTGTAAAGGATGGGGCTGATGCCGTGATTGCTGTTGGTGGTGATGGAACACTTCATGAG
upper sequence: GRMZM2G089860_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G47330.1 (Glycine max), 3'ss of exon 3
gtgcgtgcgtgactgcgtgtccccttgtcaagtgtactaggttccacttggtaactatttaatctaagcactggtgatgtcctaattactgtagGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
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------ggttagtttggagtgtttgagataagttggttttatctcagctgatt-ccaatgagttgttgaattgctgt--ccttgttctatgtaGGCTATAAGGGAGGGGGCTGATGCTGTCATTGCTGTTGGAGGAGATGGAACTCTTCATGA-
upper sequence: GRMZM2G089860_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G39010.1 (Glycine max), 3'ss of exon 3
gtgcgtgcgtgactgcgtgtccccttgtcaagtgtactaggttccacttggtaactatttaatctaagcactggtgatgtcctaattactgtagGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
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------gtcagtttg-gagtgtttgagataagttggttttatgtcaattgcttccaatgagttgtta--aatcgttgtccttgcacta-tgtagGCTATAAGGGAGGGGGCTGATGCCGTCATTGCTGTTGGAGGTGATGGAACTCTTCATGAG
upper sequence: GRMZM2G089860_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT2G46090.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtgcgtgcgtgactgcgtgtccccttgtcaagtgtactaggttccacttggtaactatttaatctaagca----ctggtgatg-tcctaattactgt---agGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
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gtaaggagtagtgaaagtaatatactactttgctgggtacagtattctctgtcttgt--cgatttggttttatgatgatcctctgttgcttctaattatcctctcagGCTATAAGGGATGGTGCAGATGCTGTCATTGCGGTTGGAGGTGATGGAACACTTCATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttccacttggtaactatttaatctaagcactggtgatgtcctaattactgtagGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
tcctaat putative branch site (score: 2)
taactatttaatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcgtgcgtgactgcgtgtccccttgtcaagtgtactaggttccacttggtaactatttaatctaagcactggtgatgtcctaattactgtagGCTATAAAGGATGGGGTTGATGCCGTGATAGCTGTTGGAGGTGATGGTACACTTCATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG