Sequence
atgc intronic sequence ATGC exonic sequencegtaagataagtggctatatttctcaagaatgttcagttctcttttggtctgattaacagtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
Basic information
species | Glycine max |
transcript | GLYMA10G43230.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g34710.1 (Oryza sativa), 3'ss of exon 2
gtaagataagtggctatatttctcaagaatgttcagttctcttttgg--tctgattaacagtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
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gtaagcaacctaatttgctttgttgaaggccttatggttggtttcagagtatgataatctg-attctcagtcatctgattta-agGTACTGAGGTTGAAAACAGAGAGCCTTGAAGCTGCAAATCCTGAAATTCTTGACGGGGTGGATGATCTTATGCAGCTAAGTTATCTAAGTGAGCCATCCG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G139583_T02 (Zea mays), 3'ss of exon 2
gtaagataagtggctatatttctcaagaatgttcagttctcttttg--gtctgattaacagtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
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gtaagtt--gcagatttcttttaagagtctgttctataatcactggaagcatggtcatttgaccgcccttcccttttta----agGTACTGAGATTGAAAACAGAGAGCCTTCAACCTGCAAATCCTGAAATTCTTGATGGAGTGGATGACCTTATGCAGCTAAGTTATCTAAGTGAACCATCAG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G113202_T01 (Zea mays), 3'ss of exon 2
gtaagataagtggctatatttctca---agaatgttcagt--tctcttttggtctgattaacagtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
||||| | | | | | ||||| | || ||||| | || || | |||| | | | | || || | | | |||| | | ||||| ||| || | || || |||||||| ||||||||||| |||||||| || ||||| ||||||||| ||| ||||||||||
gtaagtt--gcagatttctttctaagatagtctgttctataatcactggaagcatgatcatttgacccccacccttcccttttta-agGTACTGAGATTGAAAACCGAGTGTCTACAACCTGCAAATCCTGAAATTCTTGATGGAGTGGATGATCTTATGCAGCTAAGTTATCTAAGTGAACCATCAG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagataagtggctatatttctcaagaatgttcagttctcttttggtctgattaac--agtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
||||| ||| | | ||||||| ||| | ||| ||||| | || | ||| || | ||| | | ||||| | || || | | |||| | | || || || |||||||||||||||||||| ||||| || || ||||| || ||||| ||||| || |||||||
gtaag-taactttttgtatttct-aaggtagccaggttaatttttgaagtatttgatctgaaactactttcaaacttgaa-acagGTTATAAAAGTCATATCAGAGACTCTAGTACCTGCAAATCCTGATATTCTTGATGGAGTGGACGATCTTATGCAGCTTAGTTACTTAAATGAGCCATCAG
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagataagtggctatatttctcaag--aatgttcagttctcttttg---gtctgattaacagtactctttccccccttaatc--atagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
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gtaagtgattttgttaaattccctgggtgaatgtaaactattattgtaagtgtttgatcggaa--actatctcttcacttgattcaacagGTTTTAAAAGTCAAATCAGAGACTTTAGTACCTGCAAATCCTGATATTCTTGATGGAGTAGACGATCTCATGCAACTAAGTTATTTAAATGAGCCAGCAGMapped 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|14125695|gb|BG790133.1|BG790133EST: TAATAACAACTTCTGGAGACGAATCTGTTATTTCACTGCCTAATGGGAAA GTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTT
genomic: TAATAACAACTTCTGGAGACGAATCTGTTATTTCACTGCCTAATGGGAAAgtaagataag ... ttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttcagttctcttttggtctgattaacagtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
ctctttccccccttaa CT-rich tract
ttaatcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagataagtggctatatttctcaagaatgttcagttctcttttggtctgattaacagtactctttccccccttaatcatagGTTTTTAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGGGTGGATGACCTCATGCAACTAAGTTATTTAAACGAACCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA