Sequence
atgc intronic sequence ATGC exonic sequenceTTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
Basic information
species | Glycine max |
transcript | GLYMA18G31780.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
|| |||||||| || |||||||| ||||| ||||||||||||||||||||| |||| || ||||| || || || |||||||| || |||||||||||||||||| || | | | | | ||||| | |||| | | || |||| | |||| | || | ||
ATTTATTGCTGGAGTTGCTGATGATAATGGCTATGGCTGGGCAATAGCAAAAGCTCTTGCTGCAGCTGGTGCCGAGATTCTTGTTGGTACATGGGTACCTgtaagttgatctcattcac------gaagtgtat-----cattatagatgttctggtggaaacacttaattctcattctcatcttcag-----------------------------------
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
||||||||||| || |||||||||||||| |||||||||||||| ||||| |||| || || || || |||||||||||||| || |||||||| ||||||||| || ||| || || | | | | | ||| |||| | || | | | | || | ||| | |||
GTTCATTGCTGGAGTTGCTGATGACAATGGCTATGGCTGGGCAATTGCAAAGGCTCTTGCTGCTGCTGGTGCTGAAATTCTTGTTGGTACATGGGTGCCTgtaagtggatccaact---cttgcagtgttcaatagggatcatttttttttttcctctttgtcattcacttaatggagagttctacctgca--cag---------------------------
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G125052_T01 (Zea mays), 5'ss of exon 1
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
||||||||||| || |||||||| ||||| ||||| |||||||| ||||| | || || || || || |||||||| ||||| || |||||||| || ||| || || | || | | | | | | | ||||| | |||||| | ||| || | | ||| || | | | | |||
ATTCATTGCTGGAGTTGCTGATGATAATGGCTATGGATGGGCAATTGCAAAGGCACTTGCTGCGGCTGGTGCTGAAATGCTTGTTGGTACATGGGTGCCGgtatgttgat----cagactttta---aagatttctttgcattggtcacttttgc--tgatccattgtc--ttatgtagtat-tctactttgacag---------------------------
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G070422_T03 (Zea mays), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
||||||||||| || |||||||| ||||| ||||| |||||||| || || | || || || || || |||||||||||||| || |||||||| || ||| || || | || ||| | || | | | | ||||| |||||| | | ||| | | | ||| || || |||
ATTCATTGCTGGAGTTGCTGATGATAATGGCTATGGATGGGCAATTGCGAAGGCACTTGCTGCGGCTGGTGCTGAAATTCTTGTGGGTACATGGGTGCCGgtatgttgat----cagactct--tacag-atttctttgcattgaacacttttgct---gatcgattgtct-tatgtagtattcttctttga-cag---------------------------
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttg-tacattgtttacttttaccctgaaatgatggcatc-tctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
||||||||||||| | |||||||| ||||| ||||| ||||| |||||||||||||| || || || ||||||||||| | || || || ||||| ||||||||| ||| || ||| | || | |||| | ||||| | | || ||| |||| | || ||| |
TTTCATTGCTGGTATAGCTGATGATAATGGCTATGGTTGGGCCATAGCAAAATCTCTTGCTGCTGCTGGAGCTGAAATATTGGTTGGGACTTGGGTTCCTgtaagt---catttttggttcagctgcttttagtttccttcattgctaaattatactaacctatgaatggatggtctactag-------------------------------------------
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
|| ||||||||||| |||||||||||||||||||| ||||||||||| |||||||| ||||| ||||| |||||||||||||| ||||||||||| |||||||||||| ||| |||| | | | |||| | | |||| | | | | || ||| | || | || | |||||||| ||| | | || ||
CTTTATTGCTGGTGTTGCTGATGACAATGGATATGGTTGGGCAATAGCCAAATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaa--ttaatgatc----------acatatat-cattctctgctttaatcacagagtaat-------ctgagccatgtcaaaccattggattactaactgggaagctccttgtgtag
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S29_256V6.1 (Physcomitrella patens), 5'ss of exon 2
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
|| ||||| |||||||| |||||| | || | ||||||||| || || ||| |||| |||||||| |||||||||||||||||||| || ||||| || ||||| |||| | | || || | | || || | ||| | || || | | | | ||| | | || | | | || |||| ||| ||||||
GTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGGCCATTGCCAAAGCTCTGGCAGCAGCTGGAGCTGAAATTCTTGTCGGAACCTGGGTGCCGgtaagc---tatt-ttaaccttgttg-aatttgattattcatcac---cacttgaattgccactcttaggttattatgacaagtttaatttgatcgagcctctttttggaca-----atgcag
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S99_59V6.1 (Physcomitrella patens), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattac-tgattctggtgtagtgtgttt-gtacattgtttacttttaccctgaaatgatggcatctctgtgaaat---atacaagtggtcaggtactaactttgaacattttcatgcag
||||||||||||||||||||||| | || | ||||||||| || || ||| | || ||||||| ||||||||||| |||||||| || ||||| |||||| || | || ||||| | | | || | | | || | | || || | | ||||| | | | || | | | | | |||| ||| ||||||
GTTCATTGCTGGTGTGGCTGATGATCAAGGTTTTGGCTGGGCTATTGCCAAAGCCCTGTCAGCAGCTGGAGCTGAAATCCTTGTCGGAACCTGGGTGCCTgtacgttctttgaacctgattgaatttttgatcattcagcagaactgctagtgctgttct----tggt--ctactctgcggagttttatttgatcgattttctttttcttttggaca-----atgcagMapped 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|15813360|gb|BI785635.1|BI785635EST: AATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCT GCTTTAAATATATTTGAGTCCAGTTTACGACGTGGAAAATTTGACGAGTCA
genomic: AATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaat ... tttcatgcagGCTTTAAATATATTTGAGTCCAGTTTACGACGTGGAAAATTTGACGAGTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTCGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatattactgattctggtgtagtgtgtttgtacattgtttacttttaccctgaaatgatggcatctctgtgaaatatacaagtggtcaggtactaactttgaacattttcatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA