Sequence
atgc intronic sequence ATGC exonic sequenceGAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgcttgctgcaatctctctctccctctactctaaattattgctaagtagctaatgttttccatttttttttctttcctctgtttgcagtagttggtcattatcttaccactgatttctatgttacatctgtttttacttattgcaacaaatggtgtttcatactttcatttgtag
Basic information
species | Glycine max |
transcript | GLYMA02G43540.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G43540.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G126795_T01 (Zea mays), 5'ss of exon 3
GAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgcttgctgcaatctctctctccctctactctaaattattgctaagtagctaatgttttccatttttttttctttcctctgt-ttgc--agtagttg--gtcattatcttaccactgatttctatgttacatctgtttttacttattgcaa---caaatggtgtt--tcatactttcatttgtag-----
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GAAGCGGCAAATGGAACAACAAGAATCGGAGACAAATATGCAAATATTGTTAGTCTTCTTGCACTGCCTTAGAAAGCAAAAGCTGGAAGAGTTGAATGAGgtttgtcctacggatttttatggttctaaatttctgattccttcacacaacactaacattttagtgtcaagcgaccttcatcgatcttgctaattaaatgaaataaaagttttacttattgcatttctgtcactcttttgttttcttattctgaagtctattgttgttaatcatactcacatcttttcaacag
upper sequence: GLYMA02G43540.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G104920_T02 (Zea mays), 5'ss of exon 2
GAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgcttgctgcaatctc-----tctctccctcta---ctctaaattattgctaagtagctaatgttttccatttttttttctttcctctgtttgcagtagttgg--tcattatcttaccactgatttctatgttacatctgtttttact------tattgcaacaaatggtgtttcatactttcatttgtag
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GAAGCGGCAAATGGAACAACAAGAATCAGAGACAAATATGCAAATATTGCTAGTCTTCTTACACTGCCTTAGAAAGCAAAAGCTAGAAGAGTTGAATGAGgtttgtccttcgtatttttatggttctgaatttctggttctttcacacaattctaacattttaatgtcaagcaaccttcatcaatcttgctaattaaattaaatgaaatgaaagttttacctattgcatttatgttgctctttcttattctgaagtctattgttgttaatcatatt-cacatcttc-tcaacag
upper sequence: GLYMA02G43540.2 (Glycine max), 5'ss of exon 3
lower sequence: AT2G32950.1 (Arabidopsis thaliana), 5'ss of exon 3
GAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgcttgctgcaatctctctctccctctactctaaattattgctaagtagct--aatgttttccatttttttttctttcctctgtttgcagtagttggtcattatcttaccactgatttctatgttacatctgtttttacttattgcaacaaatggtgtttcatactttcatttgtag
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GAAGAGAAAAATGGAACAGGAAGAAGCTGAGAGGAACATGCAGATACTTTTGGACTTTTTGCATTGTCTAAGGAAGCAAAAAGTTGATGAACTAAATGAGgttggtttgtctgaattatggagtagcattgggctac-ctattgataattattctcgttgctcttcattccatttgcttcaaaatcttcactgggtttaga-------------------------------------------------------------------------------
upper sequence: GLYMA02G43540.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 5'ss of exon 3
GAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgctt-gctgcaatctctctctccctctactctaaattattgctaagtagctaatgttttccatttttttttctttcctctgtttgcagtagttggtcattatcttaccactgatttctatgttacatctgtttttacttattgcaacaaatggtgtttcatactttcatttgtag
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GAAAAGGAAAATGGAGCAAGATGAAGCAGAGAGAAATATGAAAATTCTGATGGAGTTCTTAAATAGTTTAAAGATGCAAAAAGTTGATGAGCTAAATGAGgtatgtttcgttaaattctccactttcatcgaat---aactttttcctcttgtttaattggactaagtgatttttatttatttatttggtatcaaatatatgt----------------------------------------------------------------------------Mapped 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|15814676|gb|BI786951.1|BI786951EST: TAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAG GTACAAACTGATCTCCACTTTATAAAAGAGGACATAAATGCTGTGGAGAAA
genomic: TAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgcttgc ... tcatttgtagGTACAAACTGATCTCCACTTTATAAAAGAGGACATAAATGCTGTGGAGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAAAGAAAAATGGAACAAGAAGAAGCTGAGAGAAATATGCAAATATTGTTAGACTTCTTGCATTGCTTACGCAAGCAAAAAGTTGATGAGTTGAAGGAGgtgtgcttgctgcaatctctctctccctctactctaaattattgctaagtagctaatgttttccatttttttttctttcctctgtttgcagtagttggtcattatcttaccactgatttctatgttacatctgtttttacttattgcaacaaatggtgtttcatactttcatttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG