Sequence
atgc intronic sequence ATGC exonic sequenceGTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttgctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatgatgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
Basic information
species | Glycine max |
transcript | GLYMA18G49660.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G49660.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g25940.2 (Oryza sativa), 5'ss of exon 9
GTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttgctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatgatgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
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ATTGCACGTGTCTACTATCCTGGTCTGCCAAGTCACCCAGAACATCACATTGCCAAGAGTCAGATGACCGGCTTTGGTGGTGTCATTAGTTTTGAGgt----actttcttctctttaattctcatct-----cacctgtggatataac-accacccatttaaatttctaaaataccttgt-ctgtgcag--------------------------------------------
upper sequence: GLYMA18G49660.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G075153_T03 (Zea mays), 5'ss of exon 10
GTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttgctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatgatgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
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ATTGCTCGTGTCTACTATCCTGGCTTGCCAAGTCACCCTGAACATCACATTGCCAAGAGTCAAATGACTGGCTTTGGCGGTGTTGTTAGTTTTGAGgtaaatat-----agttcttgaatcagatataccttgcactaaattgttgggaacatgacatgattttttatgatatattttgtgtag-------------------------------------------------
upper sequence: GLYMA18G49660.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G113873_T02 (Zea mays), 5'ss of exon 9
GTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttgctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatgatgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
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ATTGCCCGTGTCTACTATCCTGGCTTGCCTAGCCACCCTGAACATCACATTGCCAAGAGTCAAATGACTGGCTTTGGTGGTGTGGTTAGTTTTGAGgta--aattt---aattcttgaattaattgtactttgtactaagttgttgagaacatgacatagttcagtgatatacat-attccttctgtag--------------------------------------------
upper sequence: GLYMA18G49660.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G01120.1 (Arabidopsis thaliana), 5'ss of exon 9
GTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttgctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatga-tgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
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GTGAGTCATGTGTACTATCCAGGCCTTCCAAGTCATCCCGAACATGAACTCGCCAAGCGACAAATGACTGGTTTTGGAGGTGTGGTCAGTTTCGAGgt---aatatgatctatcaccaacctaatctctatctactccagattagcatttaagtatgatcctgaacaccttgattatctttcttgggtag--------------------------------------------
upper sequence: GLYMA18G49660.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv14s0108g01110.t01 (Vitis vinifera), 5'ss of exon 9
GTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttg---ctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatgatgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
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GTGAAATGCGTCTATTATCCAGGCTTGCCAAGTCACCCTGAACATCATATTGCCAAGCGACAGATGACTGGTTTTGGTGGAGTAGTCAGTTTTGAGgtaagcatttgtaaccattttcatgtgctggtgtgaggttgttcatctgga-agttggattttaagtgcttattgctatttaaatttgcag-------------------------------------------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|9900068|gb|BE609036.1|BE609036EST: AGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAG ATTGATGGAGATCTACATACCACAATAAAGTTTATTGATTCACTGAAAATC
genomic: AGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaattt ... aataatgcagATTGATGGAGATCTACATACCACAATAAAGTTTATTGATTCACTGAAAATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAAGCGGGTCTACTATCCAGGCTTGCCGAGTCATCCTGAACATGAGCTTGCCAAGAGGCAGATGACTGGTTTCGGTGGTGTTGTCAGTTTTGAGgtgggaatttgctaagttgcgattcaaatatgtggtttcctaataacacaattacttttttttttcttttatcaagaatgatgtattggataccatcatatggcatatttttgataattaaattgccaataatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG