Sequence
atgc intronic sequence ATGC exonic sequencegtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
Basic information
species | Glycine max |
transcript | GLYMA04G09200.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G09200.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G21600.1 (Arabidopsis thaliana), 3'ss of exon 1
--gtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
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gtgtgtgaattcccagtgactctaattgctcatttcttcgatttctctagagt-ctgtgctcattcttcaattgtaaattgttt--tgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG
upper sequence: GLYMA04G09200.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g01770.t01 (Vitis vinifera), 3'ss of exon 1
gtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
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gttagtttttctgattttctcgtttttttagatgagaattg--tgctattgatgaaagggaatattttggggtttctttgttttttattttttggttgtagATGTATGTTACTCCTCCGGACACTGATGTGTACGCCATTCCAAGGGTTCTTGCGCCAATGCCGCAGAAG
upper sequence: GLYMA04G09200.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ25581 (Selaginella moellendorffii), 3'ss of exon 1
gtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
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-----------------------------------------------gtaagtttaaagctggtgttcgctgccttcgtttggctgaatggatcttt-cagATGTATGTCACACCTCCGGATACTGATGTTTATTCAATCCCCAAGGTTATCGGGAAAATGCCGAAGCAG
upper sequence: GLYMA04G09200.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ22312 (Selaginella moellendorffii), 3'ss of exon 1
gtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
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--------------------------------gtaagtttaaagctggtgttcgct-----accttcgttggctgaat---ggatcttt---------cagATGTATGTCACGCCTCCGGATACTGACGTTTATTCAATCCCCAAGGTTATCGGGAAAATGCCGAAGCAGMapped 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|207843277|gb|GD816879.1|GD816879EST: TCATTCGCAAGCCCCCCGACCCCGACAACGATGTCTACGATTTCAGAGAG ATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTC
genomic: TCATTCGCAAGCCCCCCGACCCCGACAACGATGTCTACGATTTCAGAGAGgtttctaacc ... tcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
tctttgttc CT-rich tract
ttttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG