Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
Basic information
species | Glycine max |
transcript | GLYMA08G14040.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G13000.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
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--------------------------------------------------gtaaacataact-ttactttgctctagctactccaatcttcctgaggctagcttgtttaaccattaactctctctggttattgtatatatat---tttaagGTGGTATGCTAAAAGGTTTCTGCATCCTGACATTGTGGCACCTTATGACTATGTATTCATCTGGGATGAAGACCTCGGCCTTGAAAACTTCGATGTAGAA
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G24570.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
||| | | | || | || | || || || | | | | ||||| | | ||| |||||||||| ||| | || |||| || |||||||| |||| ||| || ||||| || ||||||||||| || || || ||||| || |||||||||||
------------------------------------------------------------------gtatcaatatctttgctttaaccacttttttttatctggtttcttgactctctcatattgtgaacataa---------------gGTGGTATGCAAAGAGATTCTTGCACCCGGACATTGTAGCACGATACGATTATATATTCATATGGGATGAGGATCTTGGAGTTGATCACTTTAATGCAGAA
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatca-tgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
||||| | | ||| || || ||| | | || | | || | | | | ||| | | | |||||||||||| ||| ||||| |||| ||||| ||||| ||| |||||| ||||| || | |||||||||||||||||||| || |||||||| |||||
---------------------------------------------------------gtacca--aacgctctttattct-ttatggtagaaaatagtttggtgtgtttatgactactgactcccttggcacctggaaatatat-----tagGTGGTATGCAAAGAGGTTTTTGCACCCTGATATTGTAGCAAGATATGATTATATCTTCGTCTGGGATGAAGACCTGGGTGTCGAGCATTTTAACGCAGAA
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G26440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
| ||| | | | | | ||| || || ||| ||| | || || | || ||| | | || ||| | |||| | ||||||||||| || |||||||||||||||| || | ||||||||||| ||||| || || ||||||||||| || || |||||| | || | |||||
--------------------------------------------------gtaac----aaaacaaacactttttttttatctc---tcagt----ttccattgatctaa--agctttaaataaaacgttttgaatatgtttctattgaagGTGGTATGCTAAAAGGTTTCTGCATCCTGATATCATAGCACCATATGAATATATATTCATTTGGGATGAAGATCTTGGCGTTGAAAACTTCGACGCAGAA
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
||||| | | ||| ||| || | ||| | | || ||| || | || || | ||| ||| | |||| ||| | |||| | || |||||| | ||||||||||||||||| | ||||||||||||||||||||||| |||||||||||||| ||||| ||||||||||| || || ||||| ||||||||||||||
gtaaggagcttctgcaaaggattat---ttttgaacagaagtttc--------actttttct---ggtaggtttcaataagctatggtctgttttattcttttaact---tcattctttg------------caattttgt-----cctagGTGGTATGCCAAAAGATTTCTGCATCCTGACATTGTGGCGCCATATGACTATATATTTATCTGGGATGAAGATCTAGGAGTTGAGCATTTTAATGCAGAA
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 7
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
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gtaaggagcttctgcaaaggattat---ttttgaacagaagtttc--------actttttct---ggtaggtttcaataagctatggtctgttttattcttttaact---tcattctttg------------caattttgt-----cctagGTGGTATGCCAAAAGGTTTCTGCATCCTGACATTGTGGCGCCATATGACTATATATTTATCTGGGATGAAGATCTAGGAGTTGAGCATTTTAATGCAGAAMapped 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|193390001|gb|FK357658.1|FK357658EST: GCGGGCAATTCATGTGAGTGTTCGCAAACAGACCAAATG GTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTA
genomic: GCGGGCAATTCATGTGAGTGTTCGCAAACAGACCAAATGgtaagaatcc ... tccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
catttaatttttttcc CT-rich tract
aatcatgttatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatccattgcgctcgatcataaatattggatgacatattttccttgcaactcttaccatcattattgtttgcctaactaaagtcaaaagtgttctgctaattcaatcatgttatgatattaagcatttaatttttttccctcctagGTGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA