Sequence
atgc intronic sequence ATGC exonic sequencegtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC
Basic information
species | Glycine max |
transcript | GLYMA13G28720.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagag--gggtaaggcttagatgttgataagttggtttagctaagtaa-tgacaaatgaatgtgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC
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--------------------------------------------------------------------------------------gtaaataattctcccccaacgatccaagcagaataagttctctatattct---gtcatgctaatcatgaaacttttttttccctgtggtc--tagGGTCTGGGGAAGACGCTTCAAACGATTTCTTTGTTGGCATATCTTCATGAATACAGGGGAATCAATGGTCCCCATATGGTGGTTGCTCCAAAATCAACAC
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttacccca-ctcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggc-agGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC
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---------------------------------------------------------------------------------------gtaaaccactaattatcttagcatataataagatttttcagctctcta-atgttatctgatgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 5
gtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC
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-------------------------------------------------tgatttttttttctataacatctcttatgtg-ttgttttatataatcaatttact----tttgatcaatcaga---atatactgacaacttggtattccta---------------------ccaccagGGTCTGGGTAAAACATTGCAAACCATTTCTTTATTGGGTTATCTGCATGAGTTTAGAGGAATAACTGGTCCCCACATGGTTGTTGCCCCAAAATCGACTCMapped 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|254345541|gb|GR851703.1|GR851703EST: TCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATG GGGCTTGGTAAA-CATTGCAA-CTATATCCTTAT
genomic: TCATACGATTGTATGAGAATGGAATAAATGGAATTCTGGCTGATGAAATGgtaggtgttt ... tgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC
tgttgat putative branch site (score: 4)
taagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttaccccactcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggcagGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG