Sequence
atgc intronic sequence ATGC exonic sequenceGAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttagaagtttgatcttctttgcttattgtggcgtcttgtttggatgaccctacttcaaaatggataaagcctctgactcttgtgaatttgactcttgaatggtgttaaag
Basic information
species | Glycine max |
transcript | GLYMA17G07040.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g14460.3 (Oryza sativa), 5'ss of exon 6
GAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttaga------------agtttgatcttctttgcttattgtgg-cgtcttgtttggatgaccctacttcaaaatggata--aagcctctgactcttgtga-----atttgactcttgaatggtgtt--aaag
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GAGGCCAAAAACACTGCAACTTTGAAGGCTCAGATTGACAAGCTGCAACAGGAACGCGATGAGTTCCAAAAAATGGTTATTGGCAATCAGgtagaattgccatgccatagtcttatttttttagatcaatctgttcatcttgcttgcttactttgttttcggagaagttattaatgtgtatactgatgggaccaatatcttgctttctaattttctttttaag
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G147500_T04 (Zea mays), 5'ss of exon 6
GAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttagaa-gtttgatcttctttgcttattgtggcgtcttgtttggatgac-cctacttcaaaatggataaagcctctgactcttgtgaat-ttgactcttgaatggtgttaaag--------------
|| || ||||||||||| ||||||||| | || ||||| ||||||||||| || | |||||||| |||| ||||||||| || |||||||||||| | | || || || ||| || | || | | | || || || | | || | | || |||| || || ||
GAGGCCAAAAACACTGCTGCTCTGAAGTCTCAGATTGATAAGCTGCAACAAGAACGTGATGAATTTCAGAAAATGGTTATAGGAAATCAGgttagactgccttattttattc-cttcgagtatcatcctaaccatagcatgtttattttgttattgcattgatatttggtgatgaggtatgttgaacctgtcctgaccttctttggttcttctgcaag
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 6
lower sequence: AT5G57410.3 (Arabidopsis thaliana), 5'ss of exon 6
GAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttagaagtttgatcttctttgcttattgtggcgtcttgtttggatgaccctacttcaaaatggataaagcctctgactcttgtgaatttgactcttgaatggtgttaaag
||||| ||||||||||||||| ||||| | || ||||| ||| | || |||||||||||||||||||| || ||||| |||||||| ||||| || ||| || | ||| | | || || || | | ||| | ||||| | | | ||| | | ||||| |
GAAGCCAAAAACACTGCAGCTTTGAAGTCTCAGATTGAAAAGTTACAGCAGGAGAGGGATGAATTCCAAAGGATGGTGATTGGTAACCAGgtctga---ttgtgtttgctcttggattaactactttatcttagaggaaattgtactgat---gatggattctctgcatttcttc--ttttatttctgaatag--------
upper sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 6
GAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttagaagtttgatcttctttgcttattgtggcgtcttgtttggatgaccctacttcaaaatggataaagcctctgactcttgtgaatttgactcttgaatggtgttaaag
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GAAGCAAAAGCTACAGCAGCTTTTAAGGCTCAAATAGAAAAATTGCAGCAGGAGCGGGATGAATTTCAAAGGATGGTTATTGGTAATCAGgttagga-------ctcttttgttaattat------ctagttagtgcttgttatgtgaaaatgcataga--ttctaaaagcattcaatcctatttgtttatggtgccaaagMapped 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|192323206|gb|FK016337.1|FK016337EST: AGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAG CAAGTAAAGACTCAACAAATGCATGAGATGAAGAAGAAGGAAAAAGA-TAC
genomic: AGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttagaagtt ... ggtgttaaagCAAGTAAAGACTCAACAAATGCATGAGATGAAGAAGAAGGAAAAAGAATAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGCTAAAAACACTGCAGCTCTGAAGGCCCAAATTGAGAAGCTGCAACAGGAGAGGGATGAATTCCAGAGAATGGTTATTGGTAATCAGgttagaagtttgatcttctttgcttattgtggcgtcttgtttggatgaccctacttcaaaatggataaagcctctgactcttgtgaatttgactcttgaatggtgttaaag
- - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG