Sequence
atgc intronic sequence ATGC exonic sequence...tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagagaaaatcttatttttctaaagaaaaagctgacttctgtaattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
Basic information
species | Glycine max |
transcript | GLYMA07G38820.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g52460.1 (Oryza sativa), 3'ss of exon 10
---------tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagagaaaatcttatttttctaaagaaaaagctgacttctgtaattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
| | | ||| | | || | |||| || | || | | | ||| ||| | | | ||| ||| | || | |||||||| || || |||||||||||||| ||||||||||| |||||||||||||||||||| ||||| | ||| | ||||| |||
tgatggtgatagtactacataggtacgaa-----attttctttttaaaacagatcaaatgaaaactctctgtaacttttgatcatttttgaattc----acttatgcagCCACCGAGATTCAGCTTTTATGATGCTAATAAACCAATGTACACATCACGGAGAAACTTACCGCCATCTATGATCAATAATAGTAAG
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G391936_T04 (Zea mays), 3'ss of exon 10
tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagagaaaatcttatttttctaaagaaaaagctgacttctg--taattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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tcattttctcagctctggcattattcttttgaatgtttgtgg--tgttgcagtgattgtgaaacattgaactcttttgctcacctttgattgaactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGGAGAAACCTACCACCATCTATGGTCAACAATA-----
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G391936_T01 (Zea mays), 3'ss of exon 6
tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagagaaaatcttatttttctaaagaaaaagctgacttctg--taattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
|| ||| | | | | | | ||| |||| | || || | | | | | || ||| || | || | | | | ||||| || ||||| || || || ||||| | |||||||||||||||||||||||||||| |||||||||| | | | ||||||| |||
tcattttctcagctctggcattattcttttgaatgtttgtgg--tgttgcagtgattgtgaaacattgaactcttttgctcacctttgattgaactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGGAGAAACCTACCACCATCTATGGTCAACAATAGTAAG
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 10
lower sequence: AT5G19220.1 (Arabidopsis thaliana), 3'ss of exon 10
-tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagaga--aaatcttatttttctaaagaaaa-agctgacttctgtaattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
| || || | || ||| | |||||| || | |||| | | || | || || || || | | || || ||| | ||| |||| ||||| || || || || || |||||||| ||||||||| |||||||| | ||||||||||| || ||||| |||
gtaaagacaaatattctcccaga-caactttcttttccaagatattgttcacaatcatatatagttgttatattaaatataacttacgtctaca--ccttttagCCTGGGGCATTTAGTTTCTACGACGCGGCAAAACCAATATATACATCAAGGAGAAACCTGCCACCATCAAAAATAGACAACTCTAAG
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g02880.t01 (Vitis vinifera), 3'ss of exon 10
---------------------------------------------------------------tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagagaaaatcttatttttctaaagaaa-aagctgacttctgtaatt--------ttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
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gtatgtattggaacatatatatatatcattgctcttaatcagcttctaagttctaaggctcatgtcttatgtttggtattagggaaaaactgtttgagggaaatgctgcccaaccttagtctgagtttcacatggcaatgatttaagttttataattcttcatgtttttcagCCACCAAGGTTTAGTTTTTATGATGCAACAAAGCCAATGTACACATCAAGAAGAAATTTACCACCTTCAAAGATCGATGATAGCAAGMapped 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|11413026|gb|BF425046.1|BF425046EST: TAGGTACTATCAGATCATTCTTTGAGGCAAATCTTGCCCTCACTGAGCAT CCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGG
genomic: TAGGTACTATCAGATCATTCTTTGAGGCAAATCTTGCCCTCACTGAGCATgtgagtgtca ... attttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagagagaaaatcttatttttctaaagaaaaagctgacttctgtaattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
ttttttc CT-rich tract
agaaaatcttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttttcatttagtttcaaagaactactttccttgttcaatgattgagagagaaaatcttatttttctaaagaaaaagctgacttctgtaattttttcagCCACCCAGGTTTAGCTTTTATGATGCAGCCAAACCAATGTATACATCACGGAGAAACTTACCACCATCAAAGATTGACAATAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG