Sequence
atgc intronic sequence ATGC exonic sequencegtaagtggattctgttctgtttttgtattttttttccccatttggtactattttgctgttttctgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
Basic information
species | Glycine max |
transcript | GLYMA10G35140.1 |
intron # | 29 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 29
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 27
gtaagtggattctgttctgtttttgtattttttttccccatttggtactatt---ttgctgttttctgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
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-------------gtttggaatgtctagttttgcattatactttatattattcatttgcagttataatgacacagatattttctatttgtta--tgaagGGTATTTTGGCAGATGTCCTAAAATGTCTTGGCGACAATAAGAAGCACATGAGGGAATGCACATTGACTGCTCTAGACTTATGGGTTGCTGCAGCTCAAC
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 29
lower sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 26
gtaagtggattctgttctgtttttgtattttttttccccatttggtactattttgctgttttc-tgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
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--gtttggaactaactcccatgttatctttact---cctgcatgcttttatttggtcgctaccataactgacaactgtttgt--ttgtta--tgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCATGGATTGCTGCAGCCCAAC
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 29
lower sequence: GRMZM2G009849_T01 (Zea mays), 3'ss of exon 9
gtaagtggattctgttctgtttttgtattttttttccccatttggtactattttgctgttttctgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
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--gtttggaactcactcgcatgctatctattttt---ctgcatgcttatttttggtcactacaataattaacaactgtttgtttg---tcatgaagGGTATTTTGGCAGATGTGCTGAAGTGTCTTGGTGACAATAAGAAGCACATGCGAGAATGCACATTGACTGCTCTAGATTCGTGGGTTGCTGCAGCCCAAC
upper sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 29
lower sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 18
gtaagtggattctgttctgtttttgtattttttttccccatttggtactattttgctgttttctg----tttgaacatt-tcttgaaatggtttgtt-gcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
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------gtttgttggcttctcatgatatttatttaatcc-tttgttgtgttttcattatcctttagaaacttgaagtttatcatggcattgtttttttgcagGGCATTCTTTCTGATATTCTGAAATGCCTTGGTGACAATAAAAAGCATATGAGAGAATGCACATTGACTACTCTAGATGCTTGGCTTGCTGCTGTTCATCMapped 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|208263771|gb|GE062939.1|GE062939EST: TTGGCAATGTTGCATCAGCAATGGGTCAAGCTGTAGAGAAGGCAAGCAAG GGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATG
genomic: TTGGCAATGTTGCATCAGCAATGGGTCAAGCTGTAGAGAAGGCAAGCAAGgtaagtggat ... tttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggtactattttgctgttttctgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
actatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtggattctgttctgtttttgtattttttttccccatttggtactattttgctgttttctgtttgaacatttcttgaaatggtttgttgcagGGTATTCTGTCTGATATATTGAAATGTCTTGGTGACAACAAGAAGCACATGAGAGAATGTGTACTGAATACCTTAGATGCTTGGCTGGCTGCTGTCCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT