Sequence
atgc intronic sequence ATGC exonic sequencegtcggcttactcttagttttgccattgttgatgataccttaatctgtagtgtcaattgattgaatttgaaaattgaaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
Basic information
species | Glycine max |
transcript | GLYMA12G06690.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G06690.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G114126_T01 (Zea mays), 3'ss of exon 3
gtcggcttactcttagttttgccat-tgttgatgataccttaatctgtagtgtcaat----tgattgaatttgaaaattgaaattgct-----tgaa-atagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
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--cttcctattctttactgagccccatacagaaaataacttctcttttatctttcatgtgatgattcatgctaatgcttttacctgttcctgctgaatgcagTTGATGGAATACTGTGAGTTGTTAGACAAAGCAGATGAATGTGAGGATCCATACATGCGTATGGTTTATGCTT
upper sequence: GLYMA12G06690.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 3
---gtcggcttactcttagttttgccattgttgatgatacct-taatctgtagtgtcaattgattgaatttgaaaattg-aaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
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gttagtgttatacatctaattctcctgtgtttgtaagtatttgttgttttttgtgtgtactgtatta---taacatttgcaaatttctc---acagATAATGGAGTATTCTCATTTGTTGGATCAAGCAGATGAATGCGAAGATCCATACTTGCGTTTAGTATATGCTT
upper sequence: GLYMA12G06690.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 3
gtcggcttactcttagttttgccattgttgatgat-accttaatctgtagtgtcaa--ttgattgaatt--tgaaaattgaaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
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gtatg-tgccatctagtttgtataagtttgatgtttatcttggtagattgtctctagcctgtttcaaatgttgcaaattgtgaatgcttgtgacagTTAATGGAATACTCCCACCTGTTAGATAAAGCAGATGAATGCGAGGATCCTTACATGCGATTGGTGTATGCTTMapped 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|193682919|gb|FK625067.1|FK625067EST: TATATTTGAACCAATGACTATGATTCAGAAGATTGCTGAG TTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCA
genomic: TATATTTGAACCAATGACTATGATTCAGAAAATTGCTGAGgtcggcttac ... cttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttaatctgtagtgtcaattgattgaatttgaaaattgaaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
aattgat putative branch site (score: 4)
aattgattgaatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcggcttactcttagttttgccattgttgatgataccttaatctgtagtgtcaattgattgaatttgaaaattgaaattgcttgaaatagTTGATGGAGTACTCCTACTTGTTAGATCAAGCAGATGAATCAGAGGATCCATACATGCGGTTAGTTTATGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT