Sequence
atgc intronic sequence ATGC exonic sequence...tgtagagatagtaattttactggactcgttaattcagatggaaaaccctgattggttgcgtgtttggatcatattaatgatgtttgaataatttcaggagCTCTTTGAAGGTTATTACTTCTGTCAGGCACAAAGAGTGGATTTCTTTCAAAGAGCTAAGCCACATAAGGACCATCCCACAATCCTCAG
Basic information
species | Glycine max |
transcript | GLYMA12G31100.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G31100.2 (Glycine max), 3'ss of exon 3
lower sequence: AT2G27450.2 (Arabidopsis thaliana), 3'ss of exon 2
tgtagagatagtaattttactggactcgttaattcagatggaaaa----ccctgattggttgcgtgtttggatcatattaatgatgtttgaataattt-------------caggagCTCTTTGAAGGTTATTACTTCTGTCAGGCACAAAGAGTGGATTTCTTTCAAAGAGCTAAGCCACATAAGGACCATCCCACAATCCTCAG
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----gtcattgttgctcttcgaaattgttt--ctcagatttataagtgtttttgattgatctagtatcca-atcgtcttagctagtcttatgtagtttagtttctgtataacagGAACTTTTTGAAGGATATTACTTCTGTCAAGCACAAAGAGAAGACTTCTTTAAGCGAGCCAAGCCTTACAAGAACCATCCTACCATTGCAAG
upper sequence: GLYMA12G31100.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0080g00560.t01 (Vitis vinifera), 3'ss of exon 2
tgtagagatagtaattttactggactcgttaattcagatggaaaaccct-----gattggttg----cgtgtttggatcatattaatgatgttt--gaataatttcaggagCTCTTTGAAGGTTATTACTTCTGTCAGGCACAAAGAGTGGATTTCTTTCAAAGAGCTAAGCCACATAAGGACCATCCCACAATCCTCAG
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--------caataaatgcttttaacaccataccacaaaggagtagctctccctaaatcctttatattcatttttagtttttaccttgtgtgcttatgggttcatccagGAACTATTTGAAGGATATTACTTCTGTCAAGCACAGAGGGAGGATTTCTTTCAGCGAGCTAAGCCTTACAAGGGTCATCCTACAATTCTGAGMapped 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|18040291|gb|BM308585.1|BM308585EST: ATCATTCTGATTCAGGAG
genomic: ATCATTCTGATTCAGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctgattggttgcgtgtttggatcatattaatgatgtttgaataatttcaggagCTCTTTGAAGGTTATTACTTCTGTCAGGCACAAAGAGTGGATTTCTTTCAAAGAGCTAAGCCACATAAGGACCATCCCACAATCCTCAG
tattaat putative branch site (score: 2)
atcatattaatgatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtagagatagtaattttactggactcgttaattcagatggaaaaccctgattggttgcgtgtttggatcatattaatgatgtttgaataatttcaggagCTCTTTGAAGGTTATTACTTCTGTCAGGCACAAAGAGTGGATTTCTTTCAAAGAGCTAAGCCACATAAGGACCATCCCACAATCCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - ttactgg
- - - - - - - - - - - - - - - - - - - - - - accctga
- - - - - - - - - - - - - - - - - - - - - - - - - - tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtttg