Sequence
atgc intronic sequence ATGC exonic sequenceTAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattatatccctgaagaagataatgattataagctacttcacaaaaggttatcattgtcaatactggatcaaataatgctcaaggcagctggtttc...
Basic information
species | Glycine max |
transcript | GLYMA08G25600.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G25600.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv12s0055g00580.t01 (Vitis vinifera), 5'ss of exon 20
TAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattatatccc-tgaagaagata---------atgattataagctacttcacaaa-aggttatcattgtcaatactggatcaaataatgctcaaggcagctggtttc---------------
|| ||| ||||||||||| ||| |||| |||| ||||| || || || | || | ||||||||||||||||| || ||||||||||| ||||||||| ||||| | || ||| |||||||| || | ||||| | | || || ||||| | | | | | || | |||
TAGGCCATACACTTTCAGTTATGCTGAACTAAAAAATGCCACTGGAGACTTCAGTCCTTCTAATAAGCTTGGAGAGGGTGGATTTGGACCTGTCTATAAGgtaggtcattatcctatcgagcttatatatttttttatgattatgagtatgattacaaacatgggatttttctcaatcattcctttttttttttttttggtaataattttatattcaattcgttag
upper sequence: GLYMA08G25600.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv12s0055g00610.t01 (Vitis vinifera), 5'ss of exon 2
TAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattatatccc-tgaagaagata-------atgattataagctacttcacaaa-aggttatcattgtcaatactggatcaaataatgctcaaggcagctggtttc---
|| ||| ||||||||||| ||| |||| ||| ||||| || | || || | || | ||||||||||||||||| || ||||||||||| ||||||||| ||||| | || ||||| |||||||| | | || || | | ||| || ||||| | | | || | | |
TAGGCCATACACTTTCAGTTATGCTGAACTAAGAAATGCCACTGAAGACTTCAGTCCTTCTAATAAGCTTGGAGAGGGCGGATTTGGACCTGTCTATAAGgtaggtcattatcctattgagcagatatttttttatgattatgattatgattacgaacatggtatttttctcaatcttctttttttttttgtcataattttatattcgttag
upper sequence: GLYMA08G25600.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv12s0055g00590.t01 (Vitis vinifera), 5'ss of exon 20
TAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattatatccc-tgaagaagata----------atgattataagctacttcacaaa-aggttatcattgtcaatactggatcaaataatgctcaaggcagctggtttc----------
|| ||| ||||||||||| ||| |||| |||| ||||| || || || | || | ||||||||||||||||| || ||||||||||| ||||||||| ||||| | || ||| |||||||||| | ||||| | | ||| || ||| | | | | | ||| |||
TAGGCCATACACTTTCAGTTATGCTGAACTAAAAAATGCCACTGGAGACTTCAGTCCTTCTAATAAGCTTGGAGAGGGCGGATTTGGACCTGTCTATAAGgtaggtcattatcctattgagcttatattttttttttatgattataattatgattacaaacatggtatttttctcattctccttttttttttttttttttgcaataattttatattcgttag
upper sequence: GLYMA08G25600.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv12s0055g00590.t01 (Vitis vinifera), 5'ss of exon 45
TAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaa--tattatatccctgaaga-agata-------atgattataagctacttcacaaa-aggttatcattgtcaatactggatcaaataatgctcaaggcagctggtttc----
|| ||| |||||||| || ||| |||| |||| ||||| || || || | || | ||||||||||||||||| || ||||||||||| ||||||||| ||||| ||| | ||| |||||||| || | ||||| | | || || ||||| | | | | | | | ||
TAGGCCATACACTTTTAGTTATGCTGAACTAAAAAATGCCACTGGAGACTTCAGTCCTTCTAATAAGCTTGGAGAGGGTGGATTTGGACCTGTCTATAAGgtaggtcattatcctgttgagcttatatatttttttatgattatgagtatgattacaaacatgggatttttctcaatcattctttttttttttatatatatattcaattcgttag
upper sequence: GLYMA08G25600.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv12s0055g00660.t01 (Vitis vinifera), 5'ss of exon 10
---TAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattatatccctg-aagaagata-------atgattataagctacttcacaaa-aggttatcattgtcaatactgg-atcaaataatgctcaaggcagctggtttc------------------
|| ||| ||||||||||| ||| |||| ||| ||||| || | || || | || | ||||||||||||||||| || ||||||||||| ||||||||| ||||| | || ||||| |||||||| | | || || | | ||| || |||||| | | || || | | | |
TGCTAGGCCATACACTTTCAGTTATGCTGAACTAAGAAATGCCACTGAAGACTTCAGTCCT---AATAAGCTTGGAGAGGGCGGATTTGGACCTGTCTATAAGgtaggtcattatccttttgagcagatatttttttatgattatgattatgattacgaacatggtatttttctcaatatttttgttttttattgttttttgtttttttgtaataattttatattcgttagMapped 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|120491096|gb|EH219263.1|EH219263EST: TTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAG GGGACACTTAATGATGGAAGAGTCATTGCTGTGAAACAACTATCTGTGGGA
genomic: TTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattat ... tttcttctagGGGACACTTAATGATGGAAGAGTCATTGCTGTGAAACAACTATCTGTGGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGCCCTACACTTTCAGCTATTCTGAGTTAAAGAATGCTACAAATGATTTTAATCTTGAAAATAAGCTTGGAGAGGGAGGTTTTGGACCTGTTTATAAGgtaatattatatccctgaagaagataatgattataagctacttcacaaaaggttatcattgtcaatactggatcaaataatgctcaaggcagctggtttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaaga