Sequence
atgc intronic sequence ATGC exonic sequence...acttttaatgtgaagctagcttgaattggtttctgacaaaaatcacaaaacagtggtaaatgctttgctctttgaattgacatgttattgctaagtgcagGAAGTTCACTCTTCCTTTACTTTCATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
Basic information
species | Glycine max |
transcript | GLYMA20G31940.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31940.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G39190.2 (Arabidopsis thaliana), 3'ss of exon 7
acttttaatgtgaagctagcttgaattggtttctgacaaaaatcacaaaacagtggtaaatgctt--tgctctttgaattgacatgttattgctaagtgcagGAAGTTCACTCTTCCTTTACTTTCATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
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-ctgttcgtgctagtatctatgttatttccttaattttgtggtt-taagtttacagcaagtatctagtatgctttgactgaccgaagtacttcattttgaagGAAGCTCACGCACGATTTTCCTATATCCGGGTTCCAAAAGTATATCAGCATCTAACGCGCAAAAGAGTTTTGACCATGGAATGGATGGTTGGTGAAAGCC
upper sequence: GLYMA20G31940.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G39190.1 (Arabidopsis thaliana), 3'ss of exon 7
-acttttaatgtgaagctagcttgaattggtttctgacaaaaatcacaaaacagtggtaaatgctttgctctttgaattgacatgttattgctaagtgcagGAAGTTCACTCTTCCTTTACTTTCATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC----
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tcgtgctagtatctatgttatttccttaattttgtggtttaagtt-tacagcaa--gtatctagtatgct--ttgactgaccgaagtacttcattttgaaggaagCTCACGCACGATTTTCCTATATCCGGGTTCCAAAAGTATATCAGCATCTAACGCGCAAAAGAGTTTTGACCATGGAATGGATGGTTGGTGAAAGCCCAAC
upper sequence: GLYMA20G31940.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0019g04130.t01 (Vitis vinifera), 3'ss of exon 7
acttttaatgtga--agctagcttgaattggtttctgacaaa-aatcacaaaacagtggtaaatgctt-tgctctttgaattgacatgttattgctaagtgcagGAAGTTCACTCTTCCTTTACTTTCATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
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atatgcaaagagacaggctgatacctgtttattcttactgcatagtcaatttccaagattaaatgttcctgctcctc--cttaactgtttgtttct--gtacagGAAACTCATTCCTCCTTTTCATTTATTCGTGTTCCAAAAGTTCTTCGACATCTAAGTCGAAAGAGAGTGCTAACTATGGAGTGGATGGTGGGTGAGAATCMapped 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|26268090|gb|CA819153.1|CA819153EST: TTGGTGAATTGGATTACACTTTAGAGGCTGCAAATGCTTCAAAGTTTCTG GAAGTTCACTCT
genomic: TTGGTGAATTGGATTACACTTTAGAGGCTGCAAATGCTTCAAAGTTTCTGgtaataaata ... ctaagtgcagGAAGTTCACTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaaacagtggtaaatgctttgctctttgaattgacatgttattgctaagtgcagGAAGTTCACTCTTCCTTTACTTTCATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
aattgac putative branch site (score: 3)
tttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttttaatgtgaagctagcttgaattggtttctgacaaaaatcacaaaacagtggtaaatgctttgctctttgaattgacatgttattgctaagtgcagGAAGTTCACTCTTCCTTTACTTTCATGAATGTGCCAAAAGTATTTCCACATTTAACTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTTGGTGAAAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - gcttgaa
- - - - - - - - - - - - - - - ttctgac
- - - - - - - - - - - - - - - - - - - - aatcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacatg