Sequence
atgc intronic sequence ATGC exonic sequencegtatatgattttagatttgcctcttcatatgttcacgtctacttttcaatgtctttcagagatcatacgtatggatatttgaacttagcttttgattgattatatgacaaggtgttgcttactggagtctaccgttaaatgctgtttagGTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGTCATGATGGAATGGTCCGATTATGGCAGTCGAATCTCAATGGCGTTTGGC
Basic information
species | Glycine max |
transcript | GLYMA01G43410.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G43410.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G64350.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatatgattttagatttgcctcttcatatgttcacgtctacttttcaatgtctttcagagatcatacgtatggatatttgaacttagcttttgattgattatatgacaaggtgttgcttactggagtctaccgttaaatgctgtttagGTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGTCATGATGGAATGGTCCGATTATGGCAGTCGAATCTCAATGGCGTTTGGC
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------------------------------------------gtatcaa-attccgctgagaacttaattatagg-gtttgatttgcaattttggcataaaacataactaaattacactagtttttgtttttccttg--------tcagGTTTGGCAAATGGAATGGGACATGAGTGGCATGACTTTAGCTAGCACTGGAAGTGATGGAATGGTCAAATTGTGGCAGTCAAACTTAAACGGTGAGTGGC
upper sequence: GLYMA01G43410.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0025g01250.t01 (Vitis vinifera), 3'ss of exon 7
gtatatgattttagatttgcctcttcatatgttcacgtctacttttcaatgtctttcagagatcatacgtatggatatttgaacttagcttttgattgattatatgacaaggtgttgctt-actggagtctaccgttaaatgctgtttagGTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGTCATGATGGAATGGTCCGATTATGGCAGTCGAATCTCAATGGCGTTTGGC
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--------------------------------------------aaaagtacttattcttgatggttttagtaagca--tgaactca---tctgatgtgctgtattaatgaatatggtctgattgtcatatattcattgttg-tgattagGTGTGGCAGATGGAATGGGACATGAGCGGAATGACCTTGGCAACTACTGGAGGAGATGGGATGGTAAGGCTGTGGCAGTCTAACTTGAATGGTGTTTGGCMapped 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|151399603|gb|EV269474.1|EV269474EST: GAAGACTCCCAGTAGAGAGAGTTGCACTACTGTCGGGTCACGAGGGCATG GTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGT
genomic: GAAGACTCCCAGTAGAGAGAGTTGCACTACTGTCAGGTCACGAGGGCATGgtatatgatt ... tgctgtttagGTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgattatatgacaaggtgttgcttactggagtctaccgttaaatgctgtttagGTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGTCATGATGGAATGGTCCGATTATGGCAGTCGAATCTCAATGGCGTTTGGC
tgcttac putative branch site (score: 2)
ttatatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgattttagatttgcctcttcatatgttcacgtctacttttcaatgtctttcagagatcatacgtatggatatttgaacttagcttttgattgattatatgacaaggtgttgcttactggagtctaccgttaaatgctgtttagGTGTGGCAAATGGAGTGGGATATGAGTGGAATGACTTTGGCTACTACAGGTCATGATGGAATGGTCCGATTATGGCAGTCGAATCTCAATGGCGTTTGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA