Sequence
atgc intronic sequence ATGC exonic sequencegtgactcactcattcataccacaatcagccttcaccaattgaaattaaacctcatcaattaataactatgatttcaattttttatcgtgtgtttctgtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
Basic information
species | Glycine max |
transcript | GLYMA10G26890.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 1
gtgactcactcattcataccacaatc-agccttcaccaattgaaattaaacctcatcaattaataactatg-atttcaattttttat-cgtgtgtttctgtg-tgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
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------------gtaaggctccgatcgagacctatccattccagagcagtctcgatc--tcgtcacccatggatttcgagatttgatgcgcccttttttttggctcgcagTTCGTGGCGGATGGGGTGTTCTTCGCGGAGCTGAACGAGATGCTGACGCGCGAGCTCGCGGAGGACGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCA
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G53870.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgactcactcattcataccacaatcagccttcaccaattgaaattaaacctcatcaattaataactatgatttcaattttttatcgtgtgtttctgtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
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gtgaattgtgtgattctgtt-cattttgttctt-tcaatgga--------tttatcgtattggaactgttttggtaactgtgt----tgagattttgattttgtagTTTGTAGCGGACGGTGTGTTCTACGCTGAATTGAATGAGGTTCTTACAAGAGAGCTAGCAGAGGATGGTTACTCTGGTGTTGAGGTTAGGGTTACTCCTA
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgactcactcattcataccacaatcagccttcaccaattgaaattaaacctcatcaattaataactatgatttcaattttttatcgtgtgtttctgtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
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-------------gtgaattgtgatt--tcattttttgttttcagtggacttctctagctg-----tatcgtattggaactgatctg---gttactgtgtttgtagTTTGTAGCGGATGGTGTATTCTACGCTGAATTGAATGAGGTTCTCACAAGAGAGCTAGCAGAGGATGGTTACTCTGGTGTTGAGGTTAGGGTTACTCCAA
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 1
gtgactcactcattcataccacaatcagccttcaccaattgaaattaaacctcatcaattaa--taactatgatttcaattttttatcgtgtgtttctgtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
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---gtctgatcatatgttcttttattttcctttgttttctgagctaccaatcggaaagttatgtttgttaaagtttcggtaacttattttgt-tttctct---tacagTTCGTAGCTGATGGAGTTTTCTTTGCTGAGCTGAACGAGGTTCTCACCAGAGAGCTGGCCGAGGATGGCTACTCTGGTGTCGAGGTTAGGGTTACGCCAAMapped 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|298167771|gb|HO013034.1|HO013034EST: GCCGTCTCCGATCTCCGACAATGGCGACCCAAATGAGCAAAAAGAGAAAG TTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGA
genomic: GCCGTCTCCGATCTCCGACAATGGCGACCCAAATGAGCAAGAAGAGAAAGgtgactcact ... gtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcaattaataactatgatttcaattttttatcgtgtgtttctgtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
taataac putative branch site (score: 1)
tttctgt putative PPT
aattaataactatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgactcactcattcataccacaatcagccttcaccaattgaaattaaacctcatcaattaataactatgatttcaattttttatcgtgtgtttctgtgtgcgcagTTCGTAGCTGATGGAGTGTTCTTCGCTGAACTGAACGAGGTTCTGACAAGAGAGTTGGCCGAGGACGGTTACTCCGGCGTGGAAGTTAGGGTTACGCCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG