Sequence
atgc intronic sequence ATGC exonic sequence...attgtgtgtagattgatgtattggttggtctgacttaaattgacttctttctctccccatgttttttgtttctcatgtgattaaattttatttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
Basic information
species | Glycine max |
transcript | GLYMA10G29600.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G29600.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g37837.1 (Oryza sativa), 3'ss of exon 7
attgtgtgtagattgatgtattggttggtctgacttaaattgacttctttctctcccca-tgttttttgtttctcatgtgattaaattttatttactg--cagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
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-------gtagac--atcggaagcttcacacatcttaagc-accttgttacatgcggaactgtcttttgatgtctaatcatttcttcattgtctattatacagATTGGCCTACCGTACCAACTTGTCTCCATTGTGTCTGGTGCTCTTAATGATGCTGCAGCTAAGAAGTATGATTTAGAAGCATGGTTCCCTGCATCAAAAA
upper sequence: GLYMA10G29600.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g10190.1 (Oryza sativa), 3'ss of exon 7
attgtgtgtagattgatgtattggttggtctgacttaaattgacttctttctctccccatgttttttgtttctcatgtgattaaattttatttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
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-----gtagagatcagaagcttcgtacatcttaagcaccttg-ttacatcctgaactgtcttttgatgtctaataatttcttcattgtccatta-tacagATTGGCCTACCGTATCAACTTGTCTCCATCGTGTCTGGTGCTCTTAATGATGCTGCAGCTAAGAAGTATGATTTAGAAGCATGGTTCCCTGCATCAAAAA
upper sequence: GLYMA10G29600.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G172101_T01 (Zea mays), 3'ss of exon 7
attgtgtgtagattgatgtattggttggtctgacttaaattgacttctttctctccccatgttttttgtttctcatgtgattaaattttatttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
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-----gtaataatcagtatgttg--tgatctt-tataacctagtttgtc---ctccctgagttgtctaaatttt---tatttaatgtccatct--tgcagATTGGGCTACCATACCAAGTTGTTTCCATTGTCTCTGGCGCTCTTAATGATGCTGCTGCTAAGAAATATGATTTGGAAGCATGGTTCCCTGCATCAAAGA
upper sequence: GLYMA10G29600.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0128g00370.t01 (Vitis vinifera), 3'ss of exon 7
attgtgtgtagattgatgtattggttggtctgacttaaattgacttctttctctccccatgttttttgtttctc------atgtgattaaattttatttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
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-----atg-aaagaaatggatctgctcttgtgatatgatgattattccttagtgaagaatgcccttttttccgccctggaatgtaactccatttcctctattacagCTAAACATTCCCTATCAAGTTGTTGCCATTGTTTCTGGTGCCTTGAATGATGCAGCTGCAAAGAAGTATGATTTGGAAGGATGGTTCCCTGCATCCCAGAMapped 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|27426738|gb|CA938258.1|CA938258EST: GGGACATGCATGAGGAAATGCTGAAGAACTCTGAAGATTTCTACAAAGCG TTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGAT
genomic: GGGACATGCATGAGGAAATGCTGAAGAACTCTGAAGATTTCTACAAAGCGgtatgataca ... tttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttctctccccatgttttttgtttctcatgtgattaaattttatttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
ttttattt CT-rich tract
tcatgtgattaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgtgtgtagattgatgtattggttggtctgacttaaattgacttctttctctccccatgttttttgtttctcatgtgattaaattttatttactgcagTTAAATCTTCCCTATCAAGTTGTTTCCATTGTATCTGGTGCATTGAATGATGCTGCAGCAAAGAAGTATGATCTAGAAGCATGGTTTCCAGCCTCTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- tgtgtgt
- - - - - - -tgatgta
- - - - - - - - - - -tggttgg
- - - - - - - - - - - - - - -ctgactt