Sequence
atgc intronic sequence ATGC exonic sequencegtacatccattgcttttgctttcgtgtacttttccattaacacagttggggttttattatactgttgctagctatgtttttttgttaacttttagttatttaacatattagtttttggatggatcatggatgaatttatgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
Basic information
species | Glycine max |
transcript | GLYMA12G35840.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G473001_T01 (Zea mays), 3'ss of exon 7
gtacatccattgcttttgctttcgtgtacttttccattaacacagttggggttttattatactgttgctagctatgtttttttgttaacttttagttatttaacatattagtttttggatgg-atcatggatgaatttatgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
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----------------------------------------------------------------------------------------------------------gttgagaattaaccagtaatattcagaaaataatattgatttt---tgtttttcctcagcgggttctgatagatgccatcttttgtagCTGTTGGAGCCCTTGGAACTATGTTACAGATCACTCTGTGCTTGTGGTGACTCTGTAATTGCTGATGGAACCCTTCTGGATTTCTTGCGTCAAGTGTCCA
upper sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
gtacatccattgcttttgctttcgtgtacttttccattaacacagttggggttttattatactgttgctagctatgtttttttgttaacttttagttatttaacatattagtttttggatggatcatggatgaatttatgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
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--------------------------------------------------------------------------------caggttgaaacataaccaa--gataaaggatctttctaaccgttttgggatatatt-atgtttta--tggat-tctcgtctcgagtgagtctt-------ttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
upper sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 7
gtacatccattgcttttgctttcgtgtacttttccattaacacagttggggttttattatactgttgctagctatgtttttttgttaacttttagttatttaacatattagtttttggatggatcatggatgaatttatgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
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-------------------------------------------------------------------------------------cagattgcattttattaatctaccattttttt------tcctttttgca--tagttcttgtctgtttagctggattaggtactgattgggaattatatttttttgtagTTCTTGGAACCTCTTGAACTCTGTTACAGATCACTCTGTGCTTGTGGTGACCGACCAATTGCTGATGGAAGCCTTCTCGATTTTCTGAGACAAGTGTCCAMapped 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|192295301|gb|FG985955.1|FG985955EST: ATGGGTACTCTGACATTCCAGAGGAAGCCACTTTCACCAATGTTGAGGAG TTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGAT
genomic: ATGGGTACTCTGACATTCCAGAGGAAGCCACTTTCACCAATGTTGAGGAGgtacatccat ... atttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
taactaaagttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatccattgcttttgctttcgtgtacttttccattaacacagttggggttttattatactgttgctagctatgtttttttgttaacttttagttatttaacatattagtttttggatggatcatggatgaatttatgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG