Sequence
atgc intronic sequence ATGC exonic sequence...tatttaaagtatcactcattcacttggtaaaggtcgccaaagaaagcataaattctctagcatagtttagaaggtaactattattcatcgctatatgcagTAATCAGCCACTGAGAGTATACAACACGATGAAATATACGGCAATAGCATGTGGGGATGCTGAGGTTTTCATAAAATTTGCAAGAGCTGGTTACAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA07G31080.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G31080.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108364_T01 (Zea mays), 3'ss of exon 2
-------tatttaaagtatcactcat-tcacttggtaaaggtcgccaaagaaagcataaattctctagcatagtttagaaggtaactattattcatcgctatatgcagTAATCAGCCACTGAGAGTATACAACACGATGAAATATACGGCAATAGCATGTGGGGATGCTGAGGTTTTCATAAAATTTGCAAGAGCTGGTTACAAGGAG
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ctctgcgcgtgtacagcatccaaaatgtgactcttgtatagttgctcaactaggtgt---tttgattgtactgttta-----tttacatcattttgctttgtatccagGAATCAACCTCTGCGCGTGTACAGCATGGTGAAATATGCTGCAATAGCACGAGGCGATGCTGAAATCTTCATGAAATTTGCAAGAGCTGGATACAAAGAGMapped 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|5057967|gb|AI736443.1|AI736443EST: AATTTAAGCCACTCTTTTGCTGAAGGGCTGGCTCACAGTGTTGGTTTCAG TAATCAGCCACTGAGAGTATACAACACGATGAAATATACGGCAATAGCATG
genomic: AATTTAAGCCACTCTTTTGCTGAAGGGCTGGCTCACAGTGTTGGTTTCAGgtgcatattt ... ctatatgcagTAATCAGCCACTGAGAGTATACAACACGATGAAATATACGGCAATAGCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcataaattctctagcatagtttagaaggtaactattattcatcgctatatgcagTAATCAGCCACTGAGAGTATACAACACGATGAAATATACGGCAATAGCATGTGGGGATGCTGAGGTTTTCATAAAATTTGCAAGAGCTGGTTACAAGGAG
aggtaac putative branch site (score: 3)
taactattattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttaaagtatcactcattcacttggtaaaggtcgccaaagaaagcataaattctctagcatagtttagaaggtaactattattcatcgctatatgcagTAATCAGCCACTGAGAGTATACAACACGATGAAATATACGGCAATAGCATGTGGGGATGCTGAGGTTTTCATAAAATTTGCAAGAGCTGGTTACAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - -tcactca
- - - - - - - - - - cacttgg
- - - - - - - - - - - - - - - - - - - aaagaaa