Sequence
atgc intronic sequence ATGC exonic sequenceGGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtactatagtgccatagttattattttagagcatgatctcctcccatacgtttcaccttaggagatctatgctcatgatatctaaaatacttttaa...
Basic information
species | Glycine max |
transcript | GLYMA01G44190.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G44190.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os01g66240.1 (Oryza sativa), 5'ss of exon 12
GGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatg--tactatagtgccatagttattattttagagcatgatctcctcccatacgtttcaccttaggagatctatgctcatgatatctaaaatacttttaa
||||||||| || || ||| | || ||| | ||||| || || |||| || || || || |||||||||||||| || |||||||||||||| || |||||||| ||||||| || ||| | | | || | | | | | | | | | | | || | | ||
GGCTCTTGATGATCTCCAGAGAATTCATACTGCTGAGGAACTGGCTGCAGATGAGGGTGGAGGAGTTGAAATGCACGTGCTTGAAGATGCTGGACATTGGgtatgcttactatatccttgtaattactcctagatcttctggcagcattctccataagatagtactgtgatgaaaaagtagtattctttactacagctta--
upper sequence: GLYMA01G44190.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G007160_T02 (Zea mays), 5'ss of exon 12
GGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtactatagtgccatagttattattttagagcatgatctcctcccatacgtttcaccttaggagatctatgctcatgatatctaaaatacttttaa-
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GGCTCTCGAAGACCTCCAAAGAATTTATACTGCGGAGGAATTAGCTGCAGATGAGGGTGGAGGAGTTGAAATGCACGTGCTTGAAGACGCTGGACACTGGgtattt----tggcacccgccttttttttct------ttttttttacaataaagctgcaaaccaaaatatttg-----attatttgcatgtttccttccag
upper sequence: GLYMA01G44190.1 (Glycine max), 5'ss of exon 12
lower sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 12
GGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtacta-tagtgccatagttattattttagagcatgatctcctcccatacgtttc-accttaggagatctatgctcatgatatctaaaatacttttaa
||| || |||||||||||||| ||||| || ||||||||||| || ||| ||||| || || || |||||||||||| | |||||||| || || |||||| | | || | | | | | | || | |||| | || | | | | | | || | | | | | || |
GGCCCTAGAAGACCTTCAGCGAATCCACGCCGCTGAAGAGCTAGCCTCTGAAGAAGGCGGTGGTGTAGAAATGCATGTCTTGGAAGATGCCGGTCATTGGgtaaattaaactaactacgcatctgcttctacattgcttcatctttgttattctattactgaacccgtaaaccagtattccggttgt-----gtccgttcag
upper sequence: GLYMA01G44190.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv18s0001g06010.t01 (Vitis vinifera), 5'ss of exon 12
GGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtactatagtgccatagttattattttagagcatgatctcctcc-catacgtttcaccttaggagatctatgctcatgatatctaaaatacttttaa------
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GGCCCTTGAGGATCTTCAGAGGATTCATGCTGCTGAGGATCTGGCTGCTGATGAAGGTGGTGGAGTGGAAATGCATGTTCTTGAAGATGCTGGTCATTGGgtatgtggc-tctcacctgcttcaattcttacaattatcttctgaaccacctagtatacactttacagg---tgtgcttatg---cttgcatttcttttaacaaaaa
upper sequence: GLYMA01G44190.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S90_13V6.1 (Physcomitrella patens), 5'ss of exon 12
GGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtactatagtgccatagttattattttagagca-tgatctcctcccatac-gtttcaccttaggagatctatgctcatgatatctaaaatacttttaa
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GGCCCACGAAGATGTGCAAAGGATTCATATGGCTGAGCAGATTGCATCCACAGAAGGTGCAGGAGTGCAAATGCATGTGCTTGAGGATGCTGGTCACTGGgtatgtttcctcattgtgcttgttttgttttggttcgcttatcttttcttaaagagcacctacgtttaaagttta-attca-gaccttggtgatagttttgaMapped 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|31459430|gb|CD401458.1|CD401458EST: AGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGG GTGCATACTGATAACCCGGATGGACTCTTTAGGATACTGTCATCATCTTTC
genomic: AGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtacta ... ccatcaacagGTGCATACTGATAACCCGGATGGACTCTTTAGGATACTGTCATCATCTTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCTCTTGAAGACCTTCAGCGGATCCATGCAGCTGAAGAGCTTGCTGTTGAGGAAGGAGGGGGAGTTGAAATGCATGTCCTTGAAGATGCTGGCCACTGGgtatgtactatagtgccatagttattattttagagcatgatctcctcccatacgtttcaccttaggagatctatgctcatgatatctaaaatacttttaa
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctcc