Sequence
atgc intronic sequence ATGC exonic sequence...atccataataatagtccccttgttttatttttcccttttgcctcattcagtgccgtgttatctttgagtacttgtaaagagatttgggattcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
Basic information
species | Glycine max |
transcript | GLYMA02G01220.3 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01220.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os05g04340.2 (Oryza sativa), 3'ss of exon 9
atccataataatagtccccttgttttatttttcccttttgcctcattcagtgccgtgttatctttgagtacttgtaaagagatttgggattcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
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-------------------gtaaattatatcttgcttccatcgaaatcactccctttttgttgtt---tacctcctacttaactgactattctct--cagGTTCTGGGTACCCCTACACGAGAGGAGATTAAGTGCATGAACCCAAATTACACCGAGTTTAAATTTCCGCAAATCAAAGCTCACCCATGGCACAAG
upper sequence: GLYMA02G01220.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g19150.4 (Oryza sativa), 3'ss of exon 8
atccataataatagtccccttgttttatttttcccttttgcctcattcagtg-ccgtgttatctttgagtacttgtaaagagatttgggattcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
||| | || |||| | | || || ||| || || ||||| || | || | || | ||| ||||| | || || || ||||||||||||||||| ||||||||| || ||||| ||||| || || || ||||| |||||||| |||||||| |||
-------gtaacatctgatttagtttagtggaa--tattattctatgtagtttcccccttttcttttagctcatgcaggagacttactgtacttcattcagGTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG
upper sequence: GLYMA02G01220.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G155836_T01 (Zea mays), 3'ss of exon 9
atccataataatagtccccttgttttatttttcccttttgcctcattcagtgccgtgttatctttgagt-acttgtaaagagatttgggattcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
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----------------------gtaaactactatctttgtcccgattaaactcctgcatatcgttgctttacctccaatttaatctc--atcctctctcagGTTCTGGGCACACCCACACGTGAAGAAATTAAGTGCATGAATCCAAATTATACCGAGTTTAAATTCCCGCAAATCAAAGCTCACCCATGGCATAAG
upper sequence: GLYMA02G01220.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 3'ss of exon 9
atccataataatagtccccttgttttatttttcccttttgcctca---ttcagtg-ccgtgttatctttgagtacttgtaaagagatttggg-attcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
| | | | ||| ||||| | ||| | || ||| || | | || || || | | |||| ||| |||||||||||| || ||||| ||||| || ||||| ||||| |||||||| |||||||| || || ||||| |||||||||||||| || |||||||| |||
-----tggtgctgagtctgcagttgctcctttccatcttgtttgtgattttagtatccatcccttattaatgtgttttctacaatattttcttatttgcatgcagGTTTTGGGCACCCCAACAAGAGAGGAAATTAAGTGCATGAATCCCAATTACACAGAATTTAAATTCCCACAAATTAAAGCCCACCCATGGCACAAG
upper sequence: GLYMA02G01220.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S306_62V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------atccataataatagtccccttgttttatttttcccttttgcctcattcagtgccgtgttatctttgagtacttgtaaagag---atttgggattcacatg---cagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
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gtgggacacacgtggtacacgttgtttgtgtggaagggtcgccttctgggttggcggtttggtttgtagctgt--ggtatcttgttcgtgttggatgtgagtatggcgttgaccagacgtttccgtgtggcagGTTTTGGGGACACCGACTCGTGAGGAGATCAAGTGCATGAATCCGAACTACACAGAGTTCAAGTTTCCACAAATCAAGGCGCACCCGTGGCACAAAMapped 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|17023669|gb|BM094703.1|BM094703EST: TTGATATCTGGTCAGCCGGTTGTGTACTTGGTGAACTATTGCTTGGCCAG GTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTAC
genomic: TTGATATCTGGTCAGCCGGTTGTGTACTTGGTGAACTATTGCTTGGCCAGgtatcttgct ... tcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagtgccgtgttatctttgagtacttgtaaagagatttgggattcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
ttatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atccataataatagtccccttgttttatttttcccttttgcctcattcagtgccgtgttatctttgagtacttgtaaagagatttgggattcacatgcagGTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA