Sequence
atgc intronic sequence ATGC exonic sequenceTAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcgtaaaatgactctgtttactttaactatgtatactgcctagtgcttgtgacttcctccggtctcaaagtagaaaaaaaaaaacttatttca...
Basic information
species | Glycine max |
transcript | GLYMA17G14820.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G061099_T01 (Zea mays), 5'ss of exon 6
TAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaat----cgtaaaatgactctgtttactttaactatgtatactgcctagtgcttgtgacttcctccggtctcaaagtagaaaaaaaaaaacttatttca
|| | | || || |||||| || ||||| | || || || || || || |||||||||||||||| ||||| || || ||||||||||||||||| || || || || | | ||| | | | | || || | | | | ||| | | | || ||
CAATCTGAAGAGCAAATTCTGGGGACAATCCATTCAATTGGATCCTAATGGTGTGCTAACTTTAGAGTTTGATGATGGAGAAATTTTCCAATGGAGCAAGgtataaattgcttgtcaatggataatgctcatattatttcctttcttttattgacaattatg-cagctattgtccctctagtctatcgtctaca-ctggttg--
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 7
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 5'ss of exon 6
TAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcgtaaaatgact-ctgtttact--ttaactatgtatactgccta---gtgcttgtgacttcctccggtctcaaagtagaaaaaaaaaaacttatttca
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TAACCTCAGGTCAAAGTTTTGGGGGAGGTCGATTCAAGTCGAACCTGTTGGAGTTTTGACTCTGGAGTTCGATGATGGAGAAGTATTTCAGTGGAGCAAGgtatatacaaagtattaactactgctttcaagttacttttgcagatttttcatttgtccctgaagtaactttatacttcatctttgttcttag-------------
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 7
lower sequence: AT4G12460.1 (Arabidopsis thaliana), 5'ss of exon 6
TAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcgtaaaatgactctgtttactttaactatgtatactgcctagtgcttgtgacttcctccggtctcaaagtagaaaaaaaaaaacttatttca
||| | ||||| ||||||||||| || || || || ||||| || || ||| | |||| || |||||||||||||| ||||| || ||||||||||| |||| || || || ||| | | | | | || | ||||| || | | || | | | |||
AAACCTCCGGTCGAAGTTTTGGGGGAGATCGATCCAACTTGAACCCGTTGGAATCTTGACTCTCGAGTTTGATGATGGAGAAATTTTCCAGTGGAGCAAAgtatgtataatacaa--actacaaaactcctgtccttttccgcattttatttcttgtccctgagactgatcactctatgcttatctttgtttttag----
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv02s0154g00240.t01 (Vitis vinifera), 5'ss of exon 7
TAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcgtaaaatgactctgtttactttaactatgtatactgcctagtgcttgtgacttcctccggtctcaaagtagaaaaaaaaaaacttatttca-----------
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TAACCTACGAACAAAATTTTGGGGACGATCAATTCAGCTCGACCCTGTGGGAGTTTTGACCCTTGAGTTTGATGATGGTGAGGTTTTCAAATGGAGCAAGgtgtgtgctgctgcttgattttgcttg-tgcgttttcattttttg---gatacctgtt-ttttaaggggaaaaaaaaaataaaatctaaaatgtgtttatattgtccttag
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 5'ss of exon 5
TAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcgtaaaatgactctgtttactttaactatgtatactgccta-gtgcttgtgacttcc-----tccggtctcaaagtagaaaaaaaaaaacttatttca-----------------------
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TAACCTACGAACAAAATTTTGGGGACGATCAATTCAGCTCGACCCTGTGGGAGTTTTGACCCTTGAGTTTGATGATGGTGAGGTTTTCAAATGGAGCAAGgtgtgtgctgctg--ctattgtgcttgtgcaagaaatattgcttgcttgtgtgttttcattttttggatacctgttttttgaggggaaaaaaaaaaaaaaaatctaaaatgtgtttatattgtccttagMapped 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|6746936|gb|AW317392.1|AW317392EST: GAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAG GTCACGACTACAATTTATAATCTTATCCTTGGCAAAATATATTGTGATCAT
genomic: GAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcg ... tttctcctagGTCACGACTACAATTTATAATCTTATCCTTGGCAAAATATATTGTGATCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAACATTCGGTCAAAGTTTTGGGGAAGGTCAATTCAGCTTGACCCAGTGGGAGTTCTGACCCTAGAGTTTGATGATGGTGAAATATTTCAGTGGAGCAAGgtataaatcgtaaaatgactctgtttactttaactatgtatactgcctagtgcttgtgacttcctccggtctcaaagtagaaaaaaaaaaacttatttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaaa