Sequence
atgc intronic sequence ATGC exonic sequence...tatgtcttttcacatttctattataatgacctgtttttccatgtagattggctgaacaggttgtccactgatttctttattttattttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
Basic information
species | Glycine max |
transcript | GLYMA05G37870.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 9
tatgtcttttcacatttc---tattataatgacctgtttttccatgtagattggctgaacaggttgtccactgatttctttattttattttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
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-acgtggattgaaatttgacgttttctaccacattttttttccagaaaaactgcttagatttgctgcta--tgtcatcctctttatactttttttttctgcagCTCTCTTTTCAGATGTGGACGAATCAGATGCAAGATACGTTGAACTCAAAAAAGAAGGGTGACAATGCTTTTCGACAGAAGGATTTTACTGCTGCCATTG
upper sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G63500.1 (Arabidopsis thaliana), 3'ss of exon 8
tatgtcttttcacatttctattataatgacctgtttttccatgtagattggctgaa--caggttgtccactgatttctttattt-----tattttcctat-caag-----cagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
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-gtttctttcttaatcacaattgtctcattgtgtatttgggattgggctaccttgtttcttattgtaatctgattactttttccgcctgcttttttctgtgcaaaaatttcagCTTTCGTTCCAGATGTGGACCAATCAGATGCAGGACTCGCTGAACTTCAAGAAGAAGGGTGATGTTGCTTTCCGACATAAAGAATTTGCAAATGCCATCG
upper sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 10
tatgtcttttcacatttctat-tataatgacct-gtttttccatgtagattggctgaacaggttgtccactgatttctttatt-ttattttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
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---gttaaattggaaccagatctgtgtccactttgttaaatggtgtagtatcaggcactaagctatacatggtcttgctaattattgtttttctagcttgcagCTTTCATTCCAGATGTGGACCAACCAGATGCAAGAAACATTGAACTCAAAGAAAAAGGGTGATGTTGCTTTCCGGCACAAAGATTTTAGAGCTGCAATTGMapped 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|192328399|gb|FK020110.1|FK020110EST: GGGTATAAAGACGACGAGGGCGCAGCAACTGAG CTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAG
genomic: GGGTATAAAGACGACGAGGGCGCAGCAACTGAGgtttgttttt ... tatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattggctgaacaggttgtccactgatttctttattttattttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
cactgat putative branch site (score: 3)
tttctttattttattt CT-rich tract
atttctttattttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgtcttttcacatttctattataatgacctgtttttccatgtagattggctgaacaggttgtccactgatttctttattttattttcctatcaagcagCTTTCATTCCAAATGTGGACGAACCAGATGCAGGAAACGTTGAACTCAAAGAAGAAAGGGGATGCTGCTTTTCGGCACAAGGATTTTAAAACTGCAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - tgacctg
- - - - - - - - - - - - - - - - - - - ccatgta
- - - - - - - - - - - - - - - - - - - - - - - - tggctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtccac