Sequence
atgc intronic sequence ATGC exonic sequence...agaatttgtttgataacgaccaatggaagctggtaatttggtagtatatctatttttatctttcctcattctcaactctttacaatgcatactttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
Basic information
species | Glycine max |
transcript | GLYMA02G33340.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G33340.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g71280.1 (Oryza sativa), 3'ss of exon 2
----agaatttgtttgataacgaccaatggaagctggtaatttggtagtatatctatttttatc---tttcctcattctcaactctttacaatgcatactttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
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gacatgcatttatgtgatattaactttcgttgacc--caacctattccttcccttgttttattcaaattacaactaattcagcattttaaaataaatt-----gcagCTGGAGTTCCAACTGAGAATATACTATATCTTGGAGGCCCAAACATTGCCTCAGAGATTTATAACAAAGAATATGCAAATGCTCGAATCTGTGGGTCCAA
upper sequence: GLYMA02G33340.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G41540.2 (Arabidopsis thaliana), 3'ss of exon 2
--agaatttgtttgataac----gaccaatggaagctggtaatttggtagtatatctatttttatctttcctcattctcaactctttacaatgcatactttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
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gtaagctttttcttcttccttttgctccttttatattg--agtctattgacacaatcttgcttagttttcttgaatt---ggttcttactttggtgtttgtggtagCTGGTGTGCCGATTGACAATGTCCTGTATCTTGGTGGACCAAACATTGCTGCTGAAATTTACAACAAGGAATATGCCAATGCTAGAATCTGTGGAGCTGC
upper sequence: GLYMA02G33340.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g09000.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------------------agaatttgtttgataacgaccaatggaagctggta-atttggtagtatatctattttta--------tctttcctcattctc-aactctttacaatgcatacttt---gacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
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gtaagggcctttgttttactatttattggtttctcaaatcttggctctatgttttgtttcttgtgaattaa---aagtccatatatttcttggaacatttgccttaagaagagcttttatttctatgatctaagccttttttatatatccttgctgggcagCTGGTGTAGCTATGGAAAACATTCTTTACCTTGGAGGACCAAACATTGCCTCAGAGATTTACAACAAGGAGTATGCGAATGCTCGAATATGTGGAGCTGA
upper sequence: GLYMA02G33340.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S323_18V6.2 (Physcomitrella patens), 3'ss of exon 3
agaatttgtttgataacgaccaatggaagctggtaatttggta-gtatatctatttttatctttcctcattctcaactctttacaatgcatactttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
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-tcacttgtgtgtgtatgtatcatctaattggtttttttaaaaagtgtaataagatgagttgcttgagaattgcaactgactggtgggggatgtgattcagCCGGAGTGCCTTCTGAGAATGTCCTATATCTTGGAGGTCCAAATATTGCTTCTGAAGTTTATAACAAGGAGTACGCCAATGCACGGATCTGTGGGTCAGAMapped 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|7795871|gb|AW781268.1|AW781268EST: AGAGCCTGTTCCTCATATTATAACTCCCACAGTAATGATTAACCAAGCAA CTGGAGTGCCTATGGAGAACATACTGTATCTT
genomic: AGAGCCTGTTCCCCATATTATAACCCCCACAAAAATGATTAACCAAGCAAgtaagatttt ... actttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatctatttttatctttcctcattctcaactctttacaatgcatactttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
tatttttatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaatttgtttgataacgaccaatggaagctggtaatttggtagtatatctatttttatctttcctcattctcaactctttacaatgcatactttgacagCTGGAGTGCCTATGGAGAACATACTGTATCTTGGTGGTCCAAATATTGCCTCAGAAATATACAACAAGGAGTATGCCAATGCCCGAATTTGCGGAGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - -ttgtttg
- - - - - - - - - - - - -gaagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgca