Sequence
atgc intronic sequence ATGC exonic sequenceGAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
Basic information
species | Glycine max |
transcript | GLYMA04G29250.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g72330.1 (Oryza sativa), 5'ss of exon 4
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
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GGATCATCTTCATTGAAGGACATACCAGTTGTGATCATGTCTTCTGAGAATGTGCCTGCAAGGATCAACAGgtgag-----ctgaa------------aattctatctgagct--gtccccttattttagcttatcctggaaattattgctgctggtc-catgaggc-atactcctacaaatctaccaaggt---------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03430.t01 (Vitis vinifera), 5'ss of exon 4
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
|| |||| |||||| |||||||||||||| ||||| |||||||| ||||| |||| ||||||| |||||||||| || | || ||| | | || |||| | | ||||| | || |||| || ||||| | |||| || | ||| ||| | | || || ||
GAGTCTACATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAGgtgagaaaact---attgaatatcttggaattgaattcttctcatccaaaagaaatgaaattttgtt--gattca--atttctaatatga--gaatgtttga--tgggtatttatcag------------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03490.t01 (Vitis vinifera), 5'ss of exon 5
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
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GAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAGgtgagaaaact--acttaaggattctggaattgaattttctcatc-caaaagaaaatgaaatttagttgaat---caatttctgatgtgagaatgtatgtttaatgggtattgatcag------------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03510.t01 (Vitis vinifera), 5'ss of exon 4
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtca---agacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
|||||| |||||| |||||||||||||| ||||| |||||||| |||||| |||| ||||||| ||||||||||| |||| | | | | |||| | | | ||| | | |||| | | | || |||| ||| || | ||||| | | || | | |
GAATCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAATATCCCCTCAAGGATTAACAGgtgaggaaaat--attgaagattttggaattgaattcttctcatccaaaagaaatgaaaatttgttgattcagtttc-taacctgggattggttaatgggaattgatcag-----------------------------------
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03460.t01 (Vitis vinifera), 5'ss of exon 4
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaa--attgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
|| |||| ||||||||||| ||| ||||| ||||| |||||||| |||||| |||| | ||||| |||||||||| | |||||| ||| | | |||| || | || | ||| | || || || ||| |||||| | || | ||| | | || ||||| | || ||| | || | |||||
GAGTCTACATCTCTTAAAGGCATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAGgtgagaacattattgaa---gattgtccactttttccttttt----gatacaattgaattcttcacatttaaa---acaaatc---aatggtttgt-tgattcactttctaatctgagaatgg--tcaatgg-gtattgatcag
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03480.t01 (Vitis vinifera), 5'ss of exon 3
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
|| |||| ||||||||||||||| ||||| ||||| |||||||| |||||| |||| | ||||| | |||||||| || |||| || ||| | | | || | ||| || ||||| ||||| || ||| || || ||| | | || |||| | || || || | || |||||
GAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTACCAGgtgag--------aacataatt---gaagatttgtccacacccttttga--tacaattgaatt-cttcacattcagaataaatgaatggctcgt-tgattcactttctgatctgagaatgg-ttaatgggtattg--atcag
upper sequence: GLYMA04G29250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03450.t01 (Vitis vinifera), 5'ss of exon 3
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
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GAGTCTACATCTCTTAAAGACATCCCAGTTGTGATCATGTCCTCTGAGAATATCCCTTCTAGGATTAACAGgtaagaacaatattgaagacttatccattttttccttctg---atacaattca-attcctcacattagaaagaaatgaaagtttgttgattcactttctaatatgagaatggttaatgggtattgatcag------------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|192327765|gb|FK022058.1|FK022058EST: ATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAG ATGCCTAGAAGATGGAGCTGATGAATTCTTTTTGAAACCAGTTCAACAGTC
genomic: ATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaa ... tttgtatcagATGCCTAGAAGATGGAGCTGATGAATTCTTTTTGAAACCAGTTCAACAGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAGgtgagggaaattgaatccaattaccaaaattttaattatgtcaagacaaaatatatttgtttttcttcaaattcacaaattctgattgcatcacatgactgaacttgaaatctaacaagaccttcatttttgtttgtatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG