Sequence
atgc intronic sequence ATGC exonic sequenceGTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttcccctcatatgctgcatgaggttgattaggggtttaaattaacttatactacgttctctgtctctcattttatgaaccct...
Basic information
species | Glycine max |
transcript | GLYMA09G04620.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 16
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 5'ss of exon 15
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttcccctcatatgctgcatgaggttgattaggggtttaaatta---acttatactacgttctctgtctctcattttatgaaccct---------------------------------------------------------------------------------------
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TTATGTCCACAGTAAGTTGATGATAATTGATGACCGCATCACATTGATTGGATCAGCTAACATAAATGATAGAAGCTTGCTTGGATCAAGAGATTCTGAGgtatgctttt---ctcatattcctgtgtccactatattttggtacgttgcaccttaacttgtatggttatctgatgaggagtatttgcttttcaattaactctatttggtaaatggcaaatcgcttacatcaagtaatgttttaatgttggatgtcgattatctgatagtttacccttgtcaccttgtag
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G066485_T01 (Zea mays), 5'ss of exon 15
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttcccctcatatgctgcatgaggttgattaggggtttaa--attaacttatactacgttctctgtctc-tcattttatgaaccct----------------------------------------------------------------------------------------------
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TTATGTACATAGCAAGTTAATGATAGTTGATGACCGCATCACATTGATTGGCTCAGCTAATATTAATGATAGAAGCTTGCTTGGATCAAGAGACTCCGAGgtatgcacttgtatcagttagatgcactccgtgaaataagaatcaagagacacttcattactgagtacatctaattttaaagtagagctaacttgagaatattttttccatcgcgcaatggacattctttgtactaagttaagagcaaataccttgtattgtgctggagttatgatgcctccccttccaccttgtag
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G158008_T01 (Zea mays), 5'ss of exon 6
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttc---catacccttttcccctcatatgctgcatgaggttgattaggggtttaaattaacttatac-tacgttctctgt-ctctcattttatgaaccct
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ATATGTGCACAGTAAATTGATGATTATTGATGATCGCATGGCATTGATTGGCTCAGCCAACATAAATGATAGAAGCTTGCTTGGATCTAGGGATTCTGAGgtatgacttgtatgtttgcatggtgctctttttttaacatagaaatgacctt---ctcaaatttttgtatgtgcacagtatatatgctccggctccatgcagg--
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 16
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 5'ss of exon 16
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttcccctcatatgctgcatgaggttgattaggggtttaaatta-actt-atactacgttctctgtctctcattttatgaaccct----
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GTATGTTCACAGTAAAATCATGATAGTTGATGACCGTGCTGCATTGATTGGATCTGCCAATATTAACGACCGGAGTTTGCTTGGCTCAAGAGATTCTGAGgtcatattt--tactcacgtactttcttgtgctaagcaatgatttccaaaagcctatttcatacttgaaactaaggt----gaagatcataatagaaaacaaaaag
upper sequence: GLYMA09G04620.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv05s0077g01830.t01 (Vitis vinifera), 5'ss of exon 17
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgta-cagttccatacccttttcccctcatatgctgcatgaggttgattaggggtttaaatt---aacttatactacgttctctgtctctcattttatgaaccct
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GTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTGAGgtatcacttctcaagcatccctttgctttatact-tattcattcttctacaggttcatgcttcagagctaaaacctatcatatgtgattaaaaa-aaaaacc--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|151393683|gb|EV263558.1|EV263558EST: GATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAG ATTGGTATAGTTTTAGAAGACAGAGAGTTTATTGGTTCTTATATGGATGGA
genomic: GATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttcc ... tggatttcagATTGGTATAGTTTTAGAAGACAGAGAGTTTATTGGTTCTTATATGGATGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttcccctcatatgctgcatgaggttgattaggggtttaaattaacttatactacgttctctgtctctcattttatgaaccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcccc