Sequence
atgc intronic sequence ATGC exonic sequencegtgaaattataatatactgctgcttaaatttaaggttatttttgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC
Basic information
species | Glycine max |
transcript | GLYMA02G15180.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G15180.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G142507_T02 (Zea mays), 3'ss of exon 3
gtgaaattataatatactgctgcttaaatttaaggttatttttgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC
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--gtaatgaagatata----tactgggtcatgtgattttcctttttctatttatttccaggttagtgtc--tgacttgcatgttctttgtctgttagGAAAGAATGTGCGTGCACAGGGGTTAGGTTCTTTGCTATCTTGTCAATGCAGAGGTCCGGGAGTGGATGGGTTGAGACGTTGTTGAATAGCCATCCTAAT
upper sequence: GLYMA02G15180.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM5G877077_T01 (Zea mays), 3'ss of exon 2
gtgaaattataatatactgc-tgcttaaatttaaggttatttttgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC-----
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--gtaacgaagatatactgtgtcctctgattt----tgcctttttcag-----gttagtgactgacttgtgggtgttc-tttg-------tctgttaggaaagAATGTGCGTGCACGGGGGTTAGGTTCTTTGCTATATTGTCAATGCAGAGGTCAGGGAGTGGATGGGTTGAGACATTGTTGAATAGCCATCCTAATATTAG
upper sequence: GLYMA02G15180.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM5G877077_T02 (Zea mays), 3'ss of exon 2
gtgaaattataatatactgc-tgcttaaatttaaggttatttttgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC
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--gtaacgaagatatactgtgtcctctgattt----tgcctttttcag-----gttagtgactgacttgtgggtgttc-tttg-------tctgttagGAAAGAATGTGCGTGCACGGGGGTTAGGTTCTTTGCTATATTGTCAATGCAGAGGTCAGGGAGTGGATGGGTTGAGACATTGTTGAATAGCCATCCTAATMapped 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|192300989|gb|FG988904.1|FG988904EST: TTGGGAGATTCCTTATGTGCACTACCCCTAACCCCCAAAACTTACAGCAG GGCGGAATGTGCTT
genomic: TTGGGAGATTCCTTATGTGCACTACCC-TAACCCC-AAAACTTACAGCAGgtgaaattat ... tctttgttagGGCGGAATGTGCTT
EST:
gi|7684913|gb|AW755561.1|AW755561EST: CCTTGGGAGATTCCTTATGTGCACTACCCTAACCCCAAAACTTACAGCAG GGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCA
genomic: CCTTGGGAGATTCCTTATGTGCACTACCCTAACCCCAAAACTTACAGCAGgtgaaattat ... tctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC
tctttgtt CT-rich tract
tttgaattttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaattataatatactgctgcttaaatttaaggttatttttgcagaatctgtttgaattttatttatattgcttcatttggtatgtctttgttagGGCGGAATGTGCTTGCCACCCTGTGCGCTATTTCGCTATTTTGTCAATGCAGAGATCTGGGAGTGGATGGTTTGAGACGTTTTTGAACAGTCACGCTAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA