Sequence
atgc intronic sequence ATGC exonic sequencegtgcatgaaatatttgataaaatttattgcattcttgagttagtatgtatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
Basic information
species | Glycine max |
transcript | GLYMA10G30930.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 3'ss of exon 11
gtgcatgaaatatttgataaaatttattgcattcttgagttagtatgtatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
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----------------------gtgatcacaacttcttgccataaagca-gtgaattcactgttaatcatctaaataacaagttggatcatctttttattt---cagGAACGTGAAAATCCAACTTTAACCGAGTGGGATCGGTTCGCACATAGAGAGTATATTAGATTGTCCATGGAAGAAGATGGTGAAGATGCTTCAAATGGAA
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G148323_T01 (Zea mays), 3'ss of exon 11
gtgcatgaaatatttgataaaatttattgcattcttgagttagtatgtatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
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----------------------gtgattataatccttaataaactt-tagatttgctgccaagtattaagtta---aataattggc-----taatgtttaattgtagGAACGTGAAAATCCAACTCTAACTGAGTGGGACCGGTTTGCACATAGAGAATATATTAGATTGTCCATGGAAGAAGATGGTGAGGATGCTTCAAATGGAA
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 3'ss of exon 11
gtgcatgaaatatttgataaaatttattgcattcttgagttagtatg-tatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
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-----------------------gtactaatcatctaatttaccttgctacttcttcacaccaccacatgcgtcttataacatttcta---atgtcaaacggaaacagGAGCGAGAGAACCCTACATTGACAGATTGGGACCGTTTTGCACATAGAGAGTATATTAGGCTATCAATGGAAGAAGATGTTGAAGATGCATCTAATGGAA
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgcatgaaatatttgataaaatttattgcattcttgagttagtatgtatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
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------------------gtactactccacgtttgatattcaaccttgctgttttcttgacacaatgggcctctt--ataac-atttcaaatgtcaaacgaaaacagGAGCGCGAGAACCCGACATTGACAGACTGGGACCGTTTTGCACATAGAGAGTATATTCGGCTATCAATGGAAGAAGATGTTGAAGATGCATCCAATGGAA
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G54450.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgcatgaaatatttgataaaatttattgcattctt--gagttag-tatgtatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
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-----------gtatcacaaaatatagtaaataccttaaagctagctatacatactta--tagagatattca-tttctcaatgattgat-tgctgatac-------atagGAGCGCGCAAATCCGACATGGACAGAGTGGGATCGTTTTGCTCATAGAGAATATATTAGGCTATCAATGGAAGAAGATGTCGAAGATGCTTCTAATGGAAMapped 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|57574654|gb|CX547629.1|CX547629EST: TAAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATCCGTCAG GAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAA
genomic: TAAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATCCGTCAGgtgcatgaaa ... gtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAA
EST:
gi|58019797|gb|CX706539.1|CX706539EST: TAAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATCCGTCAG GAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAA
genomic: TAAATAAGTTCATGGCCTTTGAAACTCGTGACCCATTTTTGATCCGTCAGgtgcatgaaa ... gtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
atatctt 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
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gtgcatgaaatatttgataaaatttattgcattcttgagttagtatgtatgcttggctactgttagtgacttccttggtaattggtatgcatatcttgtgtgaatagGAACGTGAGAACCCAACATTGACAGAGTGGGATCGATTTGCTCATCGAGAATATATTAGGCTTTCAATGGAAGAAGATGTAGAAGATGCCTCTAATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG