Sequence
atgc intronic sequence ATGC exonic sequenceTTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgttcagtttcccttccttttagcaattttgtttgttctattttgttacttaatgaaaccttggtatatactaatag
Basic information
species | Glycine max |
transcript | GLYMA15G10940.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g05160.1 (Oryza sativa), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtc--tgttgttcagtttcc-----cttccttttagcaattttgtttgttctattttgttacttaatgaaaccttggtatatactaatag
||| |||||||||||||||||||||||||||||||| ||||||||||| || | || || ||||| || ||||| || |||| ||| | || |||||||| | | | | ||| | | | ||| | || | | | | | |||| || || ||| | || ||
TTTAACCGGAAAACCTCTTTTCCCTGGGAAGAATGTGGTTCATCAACTTGATATAATTACAGATCTACTAGGAACACCTTCTCCAGAAACAATATCTAGGgtcagtatggattgacttcaaaaaattgcttattacttagttccaataaaatcctataatgcttatatctacattcacttatgc-aacag
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgt-tgt-tcagtttccct---tccttttagcaattttgtttgttctattttgttacttaatgaaaccttggtatatactaatag
||| || ||||||||||||||||| ||||| ||||| || |||||||| || | || || |||||| | || || || ||| ||||| || ||||||| || ||| || | | | | ||| || | ||| | ||| | ||| | ||| ||| ||||
TTTAACAGGAAAACCTCTTTTCCCCGGGAAAAATGTGGTGCATCAACTTGATATAATTACAGATCTTTTGGGGACACCTTCTACAGAAGCAATATCTAGGgtaagtatgtgtcgccatacataagtgttttatgccgactaattttctaatggttggagttacatgtactctt--tatgcactag---
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G089484_T01 (Zea mays), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgttcagtttcccttccttttagcaattttgtttgttctattttgttacttaatgaaaccttggtatatactaatag
|| || ||||||||||||||||| ||||| ||||| || |||||||| || | || || ||||| |||||||| || |||| ||||| || | ||||| || || ||| | || | | || | | | | || ||||| | || | |||
GTTAACTGGAAAACCTCTTTTCCCGGGGAAAAATGTGGTACATCAACTTGATATAATTACAGATCTCCTTGGAACACCTTCTCCCGAAGCAATATCAAGGgtaggta---cattttagcatcaatatgtttgttgtactgcaacaaaagtggag--taatgcttctacataattgccctgtag
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgttcagtttcccttccttttagcaattttgtttgttctattttgttacttaatgaaaccttggtatatactaatag
|| || || |||||||||||||| ||||| ||||| || |||||| | || || ||||| ||| | || |||||||||||| ||||||||||| ||||| ||| |||| || | | || |||| |||||| || | || | | || | | || |
CTTAACAGGGAAACCTCTTTTCCCCGGGAAAAATGTGGTCCATCAATTGGATCTGATGACGGATATGCTGGGAACTCCATCTGCTGAAGCCATTGGAAGGgtatgt-gttcctttccacaatgcttaagca---ttgtttctttttttggctgaatttcttacactgaaacag----------
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgttcagtttcccttccttttagcaattttgtttgttctattt--tgttact-taatgaaaccttggtatatactaatag--------------------------
||| || ||||||||||| || ||||| || ||||||||||| ||| | || || ||||||||||| | ||||| || ||| |||||||||||||||||||||| | | | ||||| | | || |||| ||| ||| ||| | | | | || | | |
TTTAACTGGAAAACCTCTCTTTCCTGGAAAAAATGTTGTTCACCAATTGGATCTGATGACTGATCTCTTGGGAACCCCGTCTGCAGAAGCCATTGCTAGGgtctgtttcctatgataaactggttttactattcactttggttccattgcatgtcactgtgtctatgcgatagttcgctttgtttgctcaactattggtcttatgaggtcag
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: PP1S80_71V6.2 (Physcomitrella patens), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgt----ctgttgttcagtttcccttccttttagcaattttgtttgttctattttgttacttaatg-aaaccttggtatatactaatag------------
||||| ||||| || ||||| ||||| |||||||| ||||||||||| || | |||||||| | ||||||| |||||||| ||| | | ||||| | || | || || ||| | || | || ||| | || || || || | | | | |
GTTGACTGGAAAGCCGCTTTTTCCTGGAAAGAATGTCGTTCATCAACTGGATTTGATGACTGACATGCTTGGAAGTCCATCTCCAGAAACAGTCCAGAGGgtgagatcatagtcctgtcaaattttagtttgggaaggtctgaagtaaggaaaagttgcatactgtgaattttcagctgaattgagtgtaacaacctcgg
upper sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 5
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 5
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgttcagtttcccttccttttagcaattttgtttgttctattttgttacttaatgaaacct-tggtatatactaatag----------------------
||||||||||| || ||||||||||||||||||||||||||||| || || |||||||| || | ||||||| ||||||| ||| || || ||||| | | |||| |||| | || || | | | | | | || ||| ||| ||| | ||| |
GTTGACCGGAAAGCCACTTTTCCCTGGGAAGAATGTTGTTCATCAGCTGGATCTTATGACAGACATGCTTGGAAGTCCATCTTCAGAAACCGTTCAAAGGgtaaga-gcacagtcctgaaatacttta---acttggtgaggctcaat--gcaagtgaaagaatcctatggagagttttaagcggcataaattcctgattctgtctMapped 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|208300798|gb|GE100675.1|GE100675EST: ACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGG GTACGAAATGAGAAAGCTCGGAGATATTTGAGCAGCATGCGAAAGAAGAAG
genomic: ACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgtt ... atactaatagGTACGAAATGAGAAAGCTCGGAGATATTTGAGCAGCATGCGAAAGAAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGACCGGAAAACCTCTTTTCCCTGGGAAGAATGTTGTTCATCAACTAGACCTTATGACTGATCTTCTTGGAACTCCATCTCTTGAAGCCATTGCTAGGgtctgttgttcagtttcccttccttttagcaattttgtttgttctattttgttacttaatgaaaccttggtatatactaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC