Sequence
atgc intronic sequence ATGC exonic sequenceAAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc...
Basic information
species | Glycine max |
transcript | GLYMA11G15010.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 5'ss of exon 8
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaa--atcctttaactt-----aataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
| || || ||||| || || |||||||| |||||||| | ||||| |||||||||||||||||||| ||||||||||||||||| || | |||||| || | ||||| || | | | ||| | | || | | | | |||| | || | || |||
AGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACGgtaatgctcgctgaacttctttcaacattctctcaggttgtgtccagttggtcctggagcttattttcatacataattttacag-----------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 5'ss of exon 9
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaa--tcctttaactt-----aataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
| || || ||||| || || |||||||| |||||||| | ||||| |||||||||||||||||||| ||||||||||||||||| || | |||||| || | ||||| || | | | ||| | | || | | | | |||| | |
AGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTgttagtaacttcattgctcaggccgtacggtaatgctcgctgaacttctttcaacattctctcaggttgtgtccagttggtcctggagcttattttcata------------------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 9
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| || ||||| || || |||||||| ||||||||| | ||||| ||||| ||||| |||||||| || |||||||||||||| || | |||||| | | | ||| | ||| | | ||| | |||||||| | | ||||| || | | ||
AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttgttg------aattctttagtttcttcccagcttctgccagatagttttggtgg--ctaatattttcatgatcttgtag------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G157772_T02 (Zea mays), 5'ss of exon 5
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggata-tgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| || ||||| || || |||||||| ||||| || | ||||| ||||||||||| |||||||| || |||||||||||||| || | |||||| | |||| | | |||| | | || ||| |||| || | ||| |||| | |||| |
AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaa-tgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaat-cttttcacaatctttag-------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 8
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggata-tgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| || ||||| || || |||||||| ||||| || | ||||| ||||||||||| |||||||| || |||||||||||||| || | |||||| | |||| | | |||| | | || ||| |||| || | ||| |||| | |||| |
AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaa-tgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaat-cttttcacaatctttag-------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 15
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| || ||||| || || |||||||| ||||| || | ||||| ||||||||||| |||||||| || |||||||||||||| || | |||||| | |||| || | | || || | | ||| | ||| | || | || || || ||| | |
AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaa-tgctttg--ttgaatgtcttttattttctcctcagctactg-cagata---tattggcggctaatcttttcacaatctttag-------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 9
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| || ||||| || || || ||||| ||||| || | ||||| ||||||||||| |||||||| || |||||||||||||| || | |||||| | |||| || | | || || | || | ||| | ||| | || | || || || ||| | |
AAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaa-tgctttg--ttgaatgtattttattttctcttgagctactg-cagata---tattggcggctaatcttttcacaatctttag-------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 10
AAATACGCATTGCGAGAATCTTCAACACATATGGACC-ACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| || ||||| || || || ||||| ||||| || | | ||||| ||||||||||| |||||||| || |||||||||||||| || | |||||| | |||| || | | || || | || | ||| | ||| | || | || || || ||| | |
AAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaa-tgctttg--ttgaatgtattttattttctcttgagctactg-cagata---tattggcggctaatcttttcacaatctttag-------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 5'ss of exon 8
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| |||||||| |||||||||||||| ||||| ||||||||||| || |||||||| |||||||| || ||||||||||| |||||| | |||| | | || || || | | ||| | || | | || ||| || | | | | |||| | ||| ||| ||
AAATCCGCATTGCTAGAATCTTCAACACTTATGGTCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCGgtgagcctctttgctcaa---tccaacgaacaaattttattttccgagctataaattactc--atctcttgttattgttcttgtcatgaatacttag---
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: AT2G28760.3 (Arabidopsis thaliana), 5'ss of exon 7
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagact--ttatattatctcaactctcaagaaacattgatgc----------------------------------------
| |||||||| ||||| || |||||||||||||| || || ||||| ||||||||||| || ||||| || |||||||||||||| || | ||| || | | | || || | ||| | | || | | | | | | || || | | | || | | || | | | | || |
AGATACGCATAGCGAGGATATTCAACACATATGGTCCTCGTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAGgtgaaac--taatctccatcaagttcttgaatttatcttttttttttttttttttcttgaaaaaatagccgagtaattttgagtcgaatcctagactaattctaaagcctttttgtttgataaaattgttttgggtttgcag
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaat-aatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
|||| |||||||| |||||||||||||||||||| || || ||||| || ||||||||||||||||| || |||||||||||||||||| | ||||||| | ||| || | || | || | | | | | | || | || | | ||| |||| | | |
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtg--tttccattaaatgtgttgtag--------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 9
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaata-gttttttaagactttatattatctcaactctcaagaaacattgatgc
||||||||||||| ||||| |||||||||||||| || |||||||||||||||||||| ||||||||||| || ||||| ||||||||| ||||||| ||||| | | | | | || || ||| || | ||| | | |||| | | || || | | | | || |||
AAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCGgtatgtccttatgtagtccttagctgttgatcatatttgtaagctactattttcatttaatcatgctttgtttaatttccaagat-gacatccactgaact
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 9
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatct-caactctcaagaaacattgatgc
|||| || | || |||| || ||||| ||||| || ||||||||||| || |||||||| || ||||| || || |||||||||||| | |||| | | | | | | | | || | | ||| | | | || | || || | | | | ||
AAATCCGTGTAGCACGAATTTTTAACACCTATGGGCCTCGCATGAATATCGACGATGGGCGAGTAGTCAGCAATTTTATTGCTCAAGCATTAAGgta-----ctggtcctcaaggtctca-aaattcaatatttccttaacttaatgaactcaacacatttgacatgatgtacgggtgtgtag------------Mapped 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|22525432|gb|BU084243.1|BU084243EST: AATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCG TGGTGAACCCTTGACTGTCCAAGTTCCAGGAACTCAA
genomic: AATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctt ... tttgttatagTGGTGAACCCTTGACTGTCCAAGTTCCAGGAACTCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaataatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA