Sequence
atgc intronic sequence ATGC exonic sequencegtgtgttttgtttatatgtttagttttgcttgtttgtctgtttctttaattatatccgaggaaaagagaatttgttcaatttagttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
Basic information
species | Glycine max |
transcript | GLYMA10G07340.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G155323_T01 (Zea mays), 3'ss of exon 2
gtgtgttttgtttatatgtttagttttgcttgtttgtctgtttctttaattatatccgaggaaaagagaatttgttcaatt--tagttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
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---------------------gtttctgatctttagatgcaaacttaagatacccctttacatgattcagtttgctttagtgctcactgaataataacgtaagatctta-attccagTGGAAATCAGTGGAGAGGTTGGGTGCAACAGTGGTCCTTGAGGGGGACTCATATGATGAAGCTCAGTCATATGCAAAATTGCGTTGCCAGCAGGAAGGCC
upper sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 2
gtgtgttttgtttatatgtttagttttgcttgtttgtctgtttctttaattatatccgaggaaaagagaatttgttcaatttag-ttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
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-----------------gttgagtgttgtttggt-gttgctcttgttgcttgtttttacttatgattgtatcttcacaattttgattttgaacttctggactttttatgtgtacagTGGAAGTCTGTTGAGAGATTGGGTGCGACAGTTGTTCTTGTGGGGGATTCGTATGATGAAGCACAGGCATATGCTAAACAACGGGGTGAAGAGGAGTGTC
upper sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ38617 (Selaginella moellendorffii), 3'ss of exon 2
gtgtgttttgtttatatgtttagttttgcttgtttgtctgtttctttaattatatccgaggaaaagagaatttgttcaatttagttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
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------------------------------------------------------------gtaaggtcctttcgtttt-cagagataatcgaacagcgttattgtga-gttgcagTGGCAATCAGTCAAGCGTCTCGGTGCCACCGTTGTACTCGTCGGTGATTCATACGATGAAGCTCAAGCGTATGCAAAGCAACGGAGCCTGGAGGAAGGAC
upper sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ31528 (Selaginella moellendorffii), 3'ss of exon 2
gtgtgttttgtttatatgtttagttttgcttgtttgtctgtttctttaattatatccgaggaaaagagaatttgttcaatttagttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
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-------------------------------------------------------------gtaagatcctttctttttcagagataatcgaacagcgttattgtga-gttgcagTGGCAATCAGTCAAGCGTCTCGGTGCCACCGTTGTACTCGTCGGTGATTCATACGATGAAGCTCAAGCGTATGCAAAGCAACGGAGCCTGGAGGAAGGACMapped 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|308097901|gb|HO761072.1|HO761072EST: TGAATTGCAGTGCGGTGATTGCTATGCCTGTCACCACTCCGGAAATCAAG TGGAAATCGGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCA
genomic: TGAATTGCAGTGCGGTGATTGCTATGCCTGTCACCACTCCGGAAATCAAGgtgtgttttg ... gacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaagagaatttgttcaatttagttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
aatttgttcaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgttttgtttatatgtttagttttgcttgtttgtctgtttctttaattatatccgaggaaaagagaatttgttcaatttagttatgtgtttttgtttcttgtgacattgcagTGGAAATCCGTGGAGGCGCTGGGTGCTACAGTTGTGCTCGTGGGGGATTCATATGATGAAGCACAAGCGTATGCTAAGAAGCGGGGGGTAGAGGAGGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG