Sequence
atgc intronic sequence ATGC exonic sequenceTTCTGGAACTACTGGGATGCGCCCAGATCTCATTATCAATCCTCATGCATTTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtactatgactaaaaaattgcatgaagattatcatacaacaaaagccttatgcgtggtgattatcatataaattatcaaattttttaatttgaagttttt...
Basic information
species | Glycine max |
transcript | GLYMA13G26190.1 |
intron # | 28 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G26190.1 (Glycine max), 5'ss of exon 28
lower sequence: LOC_Os10g35290.1 (Oryza sativa), 5'ss of exon 23
TTCTGGAACTACTGGGATGCGCCCAGATCTCATTATCAATCCTCATGCATTTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtacta---tgactaaaaaattgcatgaagattatcat---------acaacaaaagccttatgcgtggtgattatcatataaattatcaaattttttaatttgaagttttt------------------------------------------------------------
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CTCTGCTAATACTGGGATGAGGCCAGATCTCATCATTAATCCCCATGCATTTCCTTCACGAATGACTATAGCAATGCTCTTAGAGTCGATAGCAGCAAAGgtacaaacttctttcataggttgagagaagcttgcatttttttcttcattttgaaagaaatat-catgattgttgcgagagagagacagagattccttgtttccaattcttctcatttaagtatgatagcgtcttggtactttctttactcactgaagtcttgtcttcacag
upper sequence: GLYMA13G26190.1 (Glycine max), 5'ss of exon 28
lower sequence: GRMZM2G388892_T02 (Zea mays), 5'ss of exon 24
TTCTGGAACTACTGGGATGCGCCCAGATCTCATTATCAATCCTCATGCATTTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtactatgactaaaaaattgcatgaagattatcatacaacaaaagccttatgcgtggtgattatcatataaattatcaaattttttaatttgaagttttt--
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CTCTGCAAATACTGGCATGAGACCAGATCTGATCATTAATCCTCATGCATTTCCTTCAAGAATGACAATAGCAATGCTTTTAGAGTCTATGGCAGCTAAGgtaccaatatttacttctcaca-ggttctgagcagg-ggcgacgaccgggggggggggggcacagggggcaatgctccaccctaatgctcccctaattctat
upper sequence: GLYMA13G26190.1 (Glycine max), 5'ss of exon 28
lower sequence: AT1G29940.1 (Arabidopsis thaliana), 5'ss of exon 25
TTCTGGAACTACTGGGATGCGCCCAGATCTCATTATCAATCCTCATGCATTTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtac-------------tatgactaaaaaattgcatgaagattatcatacaacaaaagccttatgc-gtg-gtgattatcatataaattatcaaattttttaatttgaagttttt------------------------------------------------
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TAATGGAGTTACTGGAATGCGTCCAGATCTCATCATTAACCCGCATGCTTTCCCATCAAGAATGACAATTGCTATGCTTTTGGAATCTATTGCTGCTAAGgtatccttcagaatttttctccttagaaatttgtctgattcttaggttccatcgacg--ctgatgctgtgcatcttcttttcatgtgttgttgaacccttcccatttttatttttagctggtaagtaaagtatatgtaatgcttatatcctcggcttttacag
upper sequence: GLYMA13G26190.1 (Glycine max), 5'ss of exon 28
lower sequence: Vv13s0084g00600.t01 (Vitis vinifera), 5'ss of exon 24
TTCTGGAACTACTGGGATGCGCCCAGATCTCATTATCAATCCTCATGCATTTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtactatgactaaaaaattgcatgaagattatcatacaacaaaagccttatgcgtggtgattatcatataa-attatcaaattttttaat-ttgaagttttt
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TTCAGGAGTTACTGGAATGCGCCCAGACCTTATTATTAATCCCCATGCATTTCCTTCAAGAATGACAATTGCAATGCTTTTGGAATCTGTTGCTGCTAAGgtaacggaaacacaaaacagc--cataattttgacttttctgttgtatcacctgatatcactttttgctattattctggtggtttacaatcttgatggtttaMapped 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|58018270|gb|CX705012.1|CX705012EST: TTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAG GGAGGTAGCTTACGTGGAGAATTTGTAGATGCAACTCCATTTCGAAGTTCG
genomic: TTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtactatgac ... cttcttgcagGGAGGTAGCTTACGTGGAGAATTTGTAGATGCAACTCCATTTCGAAGTTCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTGGAACTACTGGGATGCGCCCAGATCTCATTATCAATCCTCATGCATTTCCTTCCAGGATGACAATTGCTATGCTTTTGGAATCTGTTGCTGCTAAGgtactatgactaaaaaattgcatgaagattatcatacaacaaaagccttatgcgtggtgattatcatataaattatcaaattttttaatttgaagttttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT