Sequence
atgc intronic sequence ATGC exonic sequenceTGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
Basic information
species | Glycine max |
transcript | GLYMA05G28580.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g30450.1 (Oryza sativa), 5'ss of exon 3
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtatt-cttc------ataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATTCTTGGTGAGGTGGCCAACTTCGCAGCATATGCATTTGCTCCTGCAATACTTGTCACTCCTCTAGGAGCGCTGAGCATCATATTCAGgttttacacatatctttgcgtctaggaaataattttgattaatcagtagtatgttgtttccttaacactcttttattcattcag-----------------------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G092991_T04 (Zea mays), 5'ss of exon 4
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaagg-------aacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATTCTAGGCGAGGTAGCCAATTTTGCAGCATATGCATTTGCCCCTGCCGTACTTGTTACTCCTCTAGGAGCTCTAAGCATCATATTTAGgtagagctttactgtcatcgtagatttccttgcacctagtgttg---cgttcctgtttaatgttttgctcatgcag-tgcag-------------------------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G092991_T03 (Zea mays), 5'ss of exon 3
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattat-taggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATTCTAGGCGAGGTAGCCAATTTTGCAGCATATGCATTTGCCCCTGCCGTACTTGTTACTCCTCTAGGAGCTCTAAGCATCATATTTAGgta--gagctttactgtcatcgtagatttccttgcacctagtgttgcgttcctgtttaatgttt-tgctcatgcag-------------------------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: AT4G13800.1 (Arabidopsis thaliana), 5'ss of exon 3
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATTGTTGGGGAGATAGCCAATTTTGCAGCATATGCATTTGCACCGGCTATTCTAGTAACACCTTTGGGAGCTTTAAGTATTATTTTCAGgtat------ctgtatccactatgcc-tatctctttccgttgtgtctgcgttaacgtagtttcctgaaaacgaaaaccgtgttatgcag-----------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G23870.1 (Arabidopsis thaliana), 5'ss of exon 3
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaagg--aacatggtattcttcat-aacattaattattaggat----gtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATTGTTGGGGAAGTAGCTAATTTTGCAGCCTATGCATTTGCACCGGCTATTTTGGTAACACCTTTGGGAGCTTTAAGTATTATATTCAGgtattcttattgttgaaaatggcatcagtatcatatatttagattatagactatggttttcttga---aaacaaagatccatgtttt-atgcag-------------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0029g00620.t01 (Vitis vinifera), 5'ss of exon 2
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATTTTTGGGGAGATAGCTAATTTTGCTGCTTATGCATTTGCTCCTGCAATTCTTGTAACCCCTTTGGGAGCTCTAAGCATTATTTTCAGgtatggcctaagatagatttgccatc--caagatttaagaaaagtaaa-------tgaaaaacattctaaagaaaattttgcttcttgcag---------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ15113 (Selaginella moellendorffii), 5'ss of exon 3
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATATTTGGCGAGGTTGCAAACTTTGCAGCGTATGCGTTTGCTCCTGCGATACTTGTCACGCCTTTAGGAGCTTTGAGTATTATAGTAAGgtgagtgg-aggataaagcgtgaagctggatttcttacagt-ttgaggctgttttttttacag-------------------------------------------------------------------------------------
upper sequence: GLYMA05G28580.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ16080 (Selaginella moellendorffii), 5'ss of exon 3
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
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TGATATTTGGCGAGGTTGCAAACTTTGCAGCGTATGCGTTTGCTCCTGCGATACTTGTCACGCCTTTAGGAGCTTTGAGTATTATAGTAAGgtgagtgg-aggataaagcgtg-aagatggatttcttaca-gtttgaggctgtttttttacag-------------------------------------------------------------------------------------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|192306078|gb|FG993668.1|FG993668EST: GCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTT-CAG TGCAATACTAGCTCACTTTATCTTAAAAGAGAGGTTGCACATATTTGGTGT
genomic: GCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaaca ... catgatgcagTGCAATACTAGCTCACTTTATCTTAAAAGAGAGGTTGCACATATTTGGTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATTGTTGGGGAAGTAGCCAATTTTGCAGCTTATGCATTTGCTCCTGCACTACTTGTAACTCCTTTGGGAGCTTTAAGTATCATTTTCAGgtaaggaacatggtattcttcataacattaattattaggatgtttctgctttctttgacacaaatgtggatgcacatcttcatccatcaaattttaatttggatgctgcttgcattttagaaagttacaaactaatatcatgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT