Sequence
atgc intronic sequence ATGC exonic sequencegttattgaataattttccaaactcttttttattaaatgattttacgtaggatctaaggtaagatttttttgttggcctcagACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTGAGGAAAAAG
Basic information
species | Glycine max |
transcript | GLYMA12G30990.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G30990.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G08320.2 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------------------------------------------------------gttattgaataattttcca--aactcttttttattaaatgattttacgtaggatctaaggtaagatttttttg--ttggcct---cagACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTGAGGAAAAAG
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gtactttaactttcatcatcatcatttcctatacattttatttgactcccccgaggagacatatccattcctatatatgtacttactttttagtaaccttttttacctgaattaattcgt-taacttcttgtttaaatgttcttaaatctggattatgcagACGTTGAGACGTTTGGCCCAAAATAGAGAAGCTGCTCGCAAAAGCCGTCTTAGGAAAAAG
upper sequence: GLYMA12G30990.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 6
-----------------gttattga-----ataattttccaaactcttt---tttattaaatgattttacgtaggatctaaggtaagatttttttg--ttggcctc-agACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTGAGGAAAAAG----------------------------------------
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gttatgagaaaaatagtattaacaacaaacataattttcccatatctataaacatgtagcagtaatatctctagcgtttgagttaacagttttgaggattggtttccagACACTGAGACGTTTGGCACAAAACAGAGAAGCAGCAAGAAAGAGTAGGCTGAGAAAGAAGGCGTATGTGCAGCAGCTAGAATCCAGTAGGATTAAGCTCAMapped 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|27424595|gb|CA936115.1|CA936115EST: AGAAAGGGAGCTGGTTCTACATCAGACAAACCACTTGATGCAAAG ACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTG
genomic: AGAAAGGGAGCTGGTTCTACATCAGACAAACCACTTGATGCAAAGgttattgaat ... ttggcctcagACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattaaatgattttacgtaggatctaaggtaagatttttttgttggcctcagACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTGAGGAAAAAG
tttttttgtt CT-rich tract
taagatttttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattgaataattttccaaactcttttttattaaatgattttacgtaggatctaaggtaagatttttttgttggcctcagACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTGAGGAAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA