Sequence
atgc intronic sequence ATGC exonic sequenceACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
Basic information
species | Glycine max |
transcript | GLYMA08G44450.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G020775_T01 (Zea mays), 5'ss of exon 2
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcata-gcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
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ATCAAATTGACCATCTGTGAAGGAGAAGATGGCACTGAATCATCAAATGGAGATGTGTTGATCTTTCCAGATATGATCAGATATAAgtaagctgcaagcgtggtaactaataaacatgtggtatttatgcgtcaaagtaaactaatctgttaattttcaatctgtga--aataatatttttgcag---------
upper sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G000280_T01 (Zea mays), 5'ss of exon 2
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
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ATCAAATTCACCATCTGTGAAGGAGAAGATGGCACTGAATCATCAAATGGAGATGTGTTGATCTTTCCAGATATGATCAGATACAAgtaagttgtgagcgtcctaaactaata----aacatgtggtt-----gtgaaggatat----tgactggctgacccatt-ttagtgtgtgacataatatgtttgcag
upper sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G147041_T01 (Zea mays), 5'ss of exon 1
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcata-gcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
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------------------------------------------TCAAATGGAGATGTGTTGATCTTTCCAGATATGATCAGATATAAgtaagctgcaagcgtggtaactaataaacatgtggtatttatgcgtcaaagtaaactaatctgttaattttcaatctgtga--aataatatttttgcag---------
upper sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G55900.1 (Arabidopsis thaliana), 5'ss of exon 2
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
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ACTTTACTCACAATATGTGAGGGACATGATGGTTCAGAGACATCAAATGGGGATGTTCTGATATTTCCAGATATGATCAGATACAGgt-actactca--gttaatattgtggttgatgattcttaat--------aaacggtaactcattttggc--aatttcaaaaaaatgcag------------------
upper sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G26620.1 (Arabidopsis thaliana), 5'ss of exon 2
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtactta--tagttccagttctg--tttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
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ACTCGACTCACAATATGTGAGGGGCATGATGGAACAGAGACATCCAATGGTGATGTACTTATTTTTCCTGATATGATCAGATACAGgtaaggggtgaagtcttcctagttggagatttcttagatttggtttcgtttttt----ctatcaacagttgggacttttttttgacagttttgatttaacaaaaattgcag
upper sequence: GLYMA08G44420.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv19s0015g00750.t01 (Vitis vinifera), 5'ss of exon 2
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaa--attgcag
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ACCCGCTTAACAATATGTGAAGGACATGATGGAACTGAGACATCAAATGGAGATGTATTAATATTTCCAGACATGATCAGATACAGgtca--aattacaattctgtttgaattt----gttatggatgctcttgtagaa-tactttttcccctgcttaac-----actaattatggttttagtaaagaaatgcagMapped 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|192308912|gb|FK002136.1|FK002136EST: GAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAG GAGATTAACCCATTTTGATGTTGAGACATTTGTTGAAGAAGTTCTAGTCAA
genomic: GAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtactt ... gaaattgcagGAGATTAACCCATTTTGATGTTGAGACATTTGTTGAAGAAGTTCTAGTCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCTGCTTAACAATATGTGAGGGGCATGATGGGACTGAAACATCAAATGGAGATGTATTAATTTTTCCAGACATGATCAGATATAGgttagtacttatagttccagttctgtttcatagcttctaattcccctataaaagttctcctttgtttgcttaattccttattaacattagttttagtgaaattgcag
- - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - GAGATG