Sequence
atgc intronic sequence ATGC exonic sequencegtgaaacaccattcttataatgacattttttttgttcaaattgttttgagattaatgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
Basic information
species | Glycine max |
transcript | GLYMA10G33680.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 3'ss of exon 2
gtgaaacaccattcttataatg-acattttttttgttcaaatt-gttttgagattaatgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
||| || || || ||| || | | ||| ||| ||| |||| | ||| || | ||||||| || ||| | | ||| | || ||||||| |||||| || | | | || || ||||||||||| ||||| ||||||||||| ||||||||||| |||||| | | ||||||||| ||| | |
-----gcactcttatttccatacacacttgtgtggtttggatttaatttctgattgaa-------cttata-tggtaatctgcgtgctt----------gcttttcgtttgggtgctgagcagATTGGGAGTAGGCTCGCCTTGCATAGAAACTATGCTGCCAAGGACATCAAGTTTGGTGTCGAGGCCCGGGCCTTGATGTTGAGGGGTGTTGAGGAGTTGG
upper sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 2
gtgaaacaccattcttataatgacattttttttgttcaaattgttttgagattaatgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
| | | | ||| | | | || | ||| || | ||||| | |||||| | | || || | ||||||||| ||| ||||||| ||| | | || |||||| ||||||||||| || || |||||||| || |||||||| ||||||||||| | ||||||||| ||| | |
-cactggtctgtaatcgtcgtgagttgatggtggtcagagttggttgtaatcaaatgaactttcttttttgctttgtttcc-ttatatatgatgata-------------------tgtagGTTGGAAGCAGGCTTGCCTTGAGCAGGAACTATGCTGCCAAGGATATCAAGTTTGGAGTTGAGGCCCGTGCTTTGATGCTGAGGGGTGTTGAGGAGTTGG
upper sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G416120_T01 (Zea mays), 3'ss of exon 1
gtgaaacaccattcttataatgacattttttttgttcaaattgttttgagatta--atgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgc---atagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
| | |||| || | ||| | ||| || | || | | | ||||| | | | | || | || ||| |||| ||||||| ||| | |||| |||||| ||||||||||| ||||| ||||||||||| |||||||| ||| ||||| | | ||||||||| ||| | |
--------------------------atgtcttgtgaaattcgttattttattgtcgtgtaaccttggggcatggcagtctctaattgatcacgcactcacctctgttgtgtgtgatgctttatagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCCAAGGACATCAAGTTTGGTGTTGAGGCCCGTGCTCTGATGTTGAGGGGTGTTGAGGAGTTGG
upper sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G458208_T01 (Zea mays), 3'ss of exon 1
--gtgaaacaccattcttataatgacatttttt--ttgttcaaattgttttgagattaatgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
|| | | || | | || | | | || ||| | | || | | |||| | | | | | ||||| | | |||||||| |||| ||| ||||||| ||| | |||| |||||| |||||||| || ||||| ||||||||||| |||||||| ||| ||||| | | ||||||||| ||| | |
ttgttgtgtaaccttgggggtacggcagtctctaactgatcacgtggcttaaaattgaatgtggccattctcag---------ctgttgtgtgtgatgatg---------ctttg-------tagGTTGGAAGCAGGCTTGCCTGGAGCAGGAACTATGCTGCGAAGGACATCAAGTTTGGTGTTGAGGCCCGTGCTCTGATGTTGAGGGGTGTTGAGGAGTTGG
upper sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgaaacaccattcttataatgacattttttttgttcaaattgttttgagattaatgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
|| ||||| | ||||| |||| | | |||| || | | | | ||| ||||| ||| ||| | | |||| ||||||||||| ||| ||| || | ||||||||||| || |||||||| | ||| ||||| || || |||||||| ||||||| ||||||||| || || |
---------------------------gttcgtgttc--ttcattttgtatctaatt---tgtggtttagccgt--ttgtgggtatgtat--tgatg-tgaatttgt---gtattgt-tagATTGGAAGCAGGCTCAATTCTACTAGGAATTATGCAGCAAAAGACATAAGGTTCGGTGTTGAAGCTCGGGCTTTAATGCTTAGGGGTGTTGAGGATCTTGMapped 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|192326928|gb|FK015155.1|FK015155EST: AATTGCTAGGAGCAGCACTCAACAG ATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAG
genomic: AATTGCTAGGAGCAGCACTCAACAGgtgaaacacc ... cattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAG
EST:
gi|208272105|gb|GE068775.1|GE068775EST: AATTGCTAGGAGCAGCACTCAACAG ATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAG
genomic: AATTGCTAGGAGCAGCACTCAACAGgtgaaacacc ... cattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAG
EST:
gi|213593632|gb|DB971654.1|DB971654EST: AATTGCTAGGAGCAGCACTCAACAG ATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAG
genomic: AATTGCTAGGAGCAGCACTCAACAGgtgaaacacc ... cattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
ttttttttgc CT-rich tract
agtttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaacaccattcttataatgacattttttttgttcaaattgttttgagattaatgagatctcttttacttgtaatctctgttctttatgatgatggtgagttttttttgcattgcatagATTGGAAGTAGGGTCAGTTGGAACAGGAATTATGCTGCCAAAGACATTAAGTTTGGTGTGGAGGCCCGGGCTTTGATGCTTAAGGGTGTTGAAGAGCTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT