Sequence
atgc intronic sequence ATGC exonic sequencegtattgcatgaagcctctatcaactttaggaaatagtcattttcccaggttaggtggtatgttttctgaatcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
Basic information
species | Glycine max |
transcript | GLYMA07G26540.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 3'ss of exon 3
gtattgcatgaagcctctatcaactttaggaaatag-tcattttcccaggttaggtggtatgttttctga-atcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
||| || | | ||| | | | || |||| || | | | | || |||| | | | | ||| ||||| ||||| || || || |||||||||||||||||| || | ||||| || |||||||| || || || ||| ||||||| ||||| || ||||| |
gtaatggagcagccctattcttttcctctttcacagctcatattgtctcg------agaacagttactgatagcacacgatgctg-cagAACCTTGAGGCAAAGAAGATAAACGATGAAAAGAAAGCAGCACTTGCAGCCCAATTTGCAGCAGAGGCTACACTTCGAAGGGTTCATGCAGCACAGAAGG
upper sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 3
gtattgcatgaagcctctatcaactttaggaaatagtcattttcccaggttaggtggtatgttttctga-atcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
| ||| | |||| |||| | || || | || | | ||| | | ||| | | || || | ||||| |||||||| || || || || || |||||||| || || |||||||||||||||||||| ||||| ||||| | ||||| |||||||| || || |
-----gtatgcttctaatatctcctttgttctttgatcgcttatttatatt-gattctatatataatgatgttgtatgttg-tcacagAACCTTGAAATCAAGAAGATAAATGAAGAAAAGAAGGCTTCCATGGCAGCTCAGTTTGCAGCAGAAGCTTCTCTTCGTAGGGTTCATGCTGCTCAAAAGG
upper sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattgcatgaagcctctatcaactttaggaaatagtcattttcccaggttaggtggtat-gttttctgaatcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
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gtattgttcgataatctttccttggttcgatgatgttcacctttcgtttcttaagcttatagacatatgatatcaaccttgctg-cagAATCTAGAAATCAAGAAAATCAATGAGGAAAAGAAAGCATCAATGGCTGCTCAGTTTGCTGCTGAAGCCACTTTAAGAAGAGTCCATGCTGCTCAAAAGG
upper sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 3
gtattgcatgaagcctctatcaactttaggaaatagtcattttcccaggttaggtggtatgttttctgaatcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
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------------------gtatgtatcaaaatctccctccttacgatcatgatttggctggatatctgattatgaactatgttgcagAATCTAGAAATCAAGAAGATCAATGAGGAGAAGAAGGCTTCCATGGCTGCTCAGTTTGCTGCTGAAGCTACCTTAAGAAGGGTCCATGCTGCTCAAAAGG
upper sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G01750.2 (Arabidopsis thaliana), 3'ss of exon 4
gtat---tgcatgaagcctctatcaacttt-aggaaatagtcattttcccaggt-taggtggtatgttttctga-atcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
|||| |||| ||| | ||| | | || ||| | | | | | | ||| ||| |||| || || | ||||| |||||||| || ||||| ||||| ||||| | || |||||||||||||| ||||| || |||||||||||| ||||||| |||||||| || || |
gtatgtttgcaatgtttctcagttgcttttcattttccaatctcttttatttttctggattctgtatttgatgatatcgcat-cttgtcacagAACCTTGAAATCAAGAAAATAAACGAAGAAAAAAGGGCTTCAATGGCAGCTCAATTTGCTGCAGAAGCCACTCTTCGAAGGGTTCATGCTGCTCAAAAGG
upper sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 3
gtattgcatgaagcctctatcaactttaggaaatagtcattttcccaggttaggtggtatgttttctgaatcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
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gtattgcatgaaacc-cttccatttttctttataagttttgtgtgtgtgtgttttgcagttttgtcctaa-caattgttttttgcagAATCTCGAGATCAAGAAAATCAATGATGAAAAGAAGGCCTCCATGGCTGCTCAATTTGCAGCAGAAGCCACTCTTAGAAGGGTTCATGCTGCGCAGAAGGMapped 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|298197858|gb|HO039397.1|HO039397EST: CAAAGGTTGATGGGAAGCTAAAACTAACCGAATCTCTTCTAGAAAGCAAG AATCTTGAAATTNNNNNNNTCAACGATGAAAAGAAAGCATCAATGGCAGCT
genomic: CAAAGGTTGATGGGAAGCTAAAACTAACCGAATCTCTTCTAGAAAGCAAGgtattgcatg ... tttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagtcattttcccaggttaggtggtatgttttctgaatcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
tatttct CT-rich tract
aatatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgcatgaagcctctatcaactttaggaaatagtcattttcccaggttaggtggtatgttttctgaatcgaatatttctggcagAATCTTGAAATTAAAAAAATCAACGATGAAAAGAAAGCATCAATGGCAGCTCAGTTTGCAGCTGAAGCCACTCTTAGAAGGGTCCATGCTGCCCAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC