Sequence
atgc intronic sequence ATGC exonic sequencegtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatatttcttttttatagtaatttcccgcatctggcttcgctttccacttattattaaattgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
Basic information
species | Glycine max |
transcript | GLYMA02G09390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G017525_T01 (Zea mays), 3'ss of exon 3
gtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatatttcttttttatagtaatttcccgcatctggcttcgctt-tccacttattattaaattgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
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------------------------gtaagtgaaatatatcttttcttctagttttaagctgctaccgagtt----gctcgtggtagatttgtacaa-gttcttcagcggtgaattttattgatttgttgaatattgtctt---tttttgcagGGAGAAATGCAGCAACTCCGGGACAAACTTGCTATTGCAGAAAGGGCTGCAAGATCAGAAGCTCAACTGAAA
upper sequence: GLYMA02G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G14840.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatatttcttttttatagtaatttcccgcatctggcttcgctttccacttattattaaattgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
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----------------------------gtcattgctgatacata--ttaatatttaaattctcttgctgcttcaaattgtgattcatattcacggagattaacttatacta-------ttgccacc-accgttatgtttgg-----acagGGAGAAATGCAACAACTACGCGACAAACTTGCCATAGCTGACCGAGCTGCAAAATCTGAAGCTCAGCTGAAG
upper sequence: GLYMA02G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatatttcttttttatagtaatttcccgcatctggcttcgctttccacttattattaaattgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
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---------------------------gtttactttgatatgatggcccctctcctagatt--------cttaggacgcaaattatttgcagtgagcaagg-cccatccatatctaca-ttctcacttcttgatcctcaacttttttgcagGGAGAAATGCAGCAACTTCGTGATAAGCTCGCCATAACAGACCGGGCTGCAAAATCCGAGGCACAGTTAAAA
upper sequence: GLYMA02G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatat-ttcttttttatagtaatttcc-cgcatctggcttcgctt-tccacttattattaa-attgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
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gtgatgcctgtaaggcagtggcttgaagaacgta-gatttttgcaggtca-ttgctgatacatattaatatttaaattctcttgctgcttcaaattgtgattcatattcacggagattaacttatactattgccaccaccgttatgtttggacagGGAGAAATGCAACAACTACGCGACAAACTTGCCATAGCTGACCGAGCTGCAAAATCTGAAGCTCAGCTGAAG
upper sequence: GLYMA02G09390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G01750.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatatttcttttttatagtaatttcccgcatctggctt----cgctttccacttattattaaattgaattctt-atagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
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--------------------------------gttacttttgatattttatttttgggcttctgttactgcttcgagttgtgattcatattcacaggaaccattgtaacttgagtaagtgcattctttaaccattttcctgtttctttttggacagGGAGAAATGCAACAACTACGTGACAAACTTGCCATAGCTGATCGAGCTGCAAAATCTGAAGCTCAGCTAAAGMapped 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|24205581|gb|BU964834.1|BU964834EST: ATAAAGTGATGCCTGTCAAACAATGGCTTGAAGAACGCCGATTCTTGCAG GGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCA
genomic: ATAAAGTGATGCCTGTCAAACAATGGCTTGAAGAACGCCGATTCTTGCAGgtaatatttt ... attcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCA
EST:
gi|9565448|gb|BE474957.1|BE474957EST: AAGAACGCCGATTCTTGCAG GGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCA
genomic: AAGAACGCCGATTCTTGCAGgtaatatttt ... attcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatttcccgcatctggcttcgctttccacttattattaaattgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
ttcttat CT-rich tract
acttattattaaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatttttttgttttactctgccaattcatctgaatttagtggttgagtttttgaattccattactctttctgcttatatttcttttttatagtaatttcccgcatctggcttcgctttccacttattattaaattgaattcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCAAAATATGAAGCACAGTTGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC