Sequence
atgc intronic sequence ATGC exonic sequenceGTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
Basic information
species | Glycine max |
transcript | GLYMA07G03890.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtgga-tcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
|| || || |||| ||| ||||| || ||||||||||||||||||||||| || | ||||| || ||| | || ||||| |||||||||| || | || | | | | ||| || | || ||| | | || || || ||
GTCACCACGATGTATCACTTGGATCGCCCTATGTACTTGTTGGGATATCTAGCGAATCAAAGCCGAGTTTATCTTATTGACAAGGAATTCAAgtgtgttttcttgataatactgcctgcttattgtct---ggtgttgaattcttgaactaacatatttttctt--gttgcag-------
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G000645_T01 (Zea mays), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
|| |||||||||| ||||||||| || ||||||||||||||||||||| |||| | ||||||| || ||| | || ||||| || || ||||| || | | | || | | || | ||| ||| | ||| ||| | || | | |||
GTCACTACAATGTATCATTTGGATCGCCCTATGTACTTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAAgtatgt---tttctcgaaaacaatgcttcctttcctttgtagca-----tctgttaatttctctgactaacaaatagcttggtacag
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G095348_T01 (Zea mays), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcag-tggtcctgattttttttcttcttttttaactgtgttactcag
|| |||||||||| ||||||||| || ||||||||| | |||||||||||||| | ||||||| || ||| | || ||||| || || |||| | | | || | || ||| | || || | | |||| | | | | ||| || |||
GTCACTACAATGTATCATTTGGATCGCCCTATGTACCTATTGGGATATCTTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTTAAgtgcgc---tttctctaaaacaatgtttcctttcttttgtaacatctgctgttaatttctgtgactaacatataagcttgatacag--
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 1
--------GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
|| |||||||||| ||||||||| || ||||||||| ||||||||||| |||| | ||||||| || ||| | || ||||| || || ||||| || | | | || | | || | ||| ||| | ||| ||| | || | | |||
ACTTACAGGTCACTACAATGTATCATTTGGATCGCCCTATGTACCTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAAgtatgt---tttctcgaaaacaatgcttcctttcctttgtagca-----tctgttaatttctctgactaacaaatagcttggtacag
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G443953_T03 (Zea mays), 5'ss of exon 17
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctca-atgcagtggtcctgatttttt-ttcttcttttttaactgtgttactcag
||||||||||||||||| ||||| || |||||||| || || ||||||||||| | ||||||| || ||| | || ||||| ||||| ||||||| | | | | | ||| | ||| | ||| ||| | || || | |||||| | |
GTTACTACAATGTTTCACTTGGATCGGCCTATGTATTTATTAGGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAAgtaagcagcatg-cagcatacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttattacag-------
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 20
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
|| |||||||||| |||| ||||||||||||||||||||||||| ||||| || | ||||| | ||| |||||||| |||||||| |||||||||| ||| | | || ||| || || | | |||| || | | ||| | | |
GTAACTACAATGTATCATCTGGACCGTCCTATGTACTTGTTGGGTTATCTCGCTAATCAAAGCAGGGTTTATTTGATTGACAAAGAGTTCAAgtaagcagatgttttactgttatgattgctaacaatgttttgtaact-tactgacttctgtgtccactttatgattacag-------
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttt---tttaactgtgttactcag
|| || ||||||| |||||||||||| || ||||| ||||| || ||| |||||| |||||| ||| || ||| ||||||||||||||||||| || | || | || ||||| | | | || | | | |||| | | | ||| ||| || | | |||
GTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTAGGCTATATTGCCAACCAAAGCCGGGTTTACTTGGTAGACAAAGAATTCAAgtacgttcctttata-tatgt-ttatttgagactgttttatcttgcatacataatttgctaacatatttccctttttcttgggaatgcag
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtg----gatcaatg-gtttgcattattcaaaatctctcaatgcagtggtcctgatttt-ttttcttcttttttaactgtgttactcag
|| || ||||||| |||||||||||| || ||||| ||||||||||||||||| || |||||| ||| | ||| ||||||||||||||||||||||| ||| || |||| || ||| | | | | | | ||| | ||||| | || | | |||| | ||
GTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTGGGATATCTTGCAAGTCAAAGTCGGGTTTTCTTGGTAGACAAAGAATTCAAgtaagtgcttagatttgtgtgtttatataattgagattgttcta--gaagt--ttctgatgctgttcccctgttttgtggatgcag-------
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgt-tactcag-----
|| || |||||||||||||||||||| |||||||| |||||||||||||| || | ||||| ||| ||| | ||||||||||| ||||||| |||||| ||| | | || || | || | | ||| | | || | | | |||
GTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAAgtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgctaacatctttattattaagttggtttttccttttcaatgcag
upper sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 16
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
|| || || |||||||| |||||||| |||||||| ||||| |||||||||||||| |||||| || ||| | ||||||||||| || |||| || | | |||| | | || | || | | ||| | | | | ||| | | ||| |||
GTAACCACCATGTTTCACTTGGACCGGCCTATGTATTTGTTAGGATATCTTGCCAGTCAAAGTCGCGTTTATCTTATAGACAAAGAGTTTAAgtgagggagcttgggagctgcacttctgcaatctgactgcttttgttcttgtaattgatctaaatttatttatgttatcttatgcagMapped 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|254341657|gb|GR852794.1|GR852794EST: GGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAA TGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGT
genomic: GGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggat ... tgttactcagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcag
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