Sequence
atgc intronic sequence ATGC exonic sequencegtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
Basic information
species | Glycine max |
transcript | GLYMA17G07290.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g36660.1 (Oryza sativa), 3'ss of exon 5
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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------gtatgattccatatacttta---ctgatcttgtgtaactgtt------------aca-tgtcttaacatat---agatcttaaattataatccctcttgtagTGTACAAGAAACACTACCCTCCTGCCCTAAAGGATGATGTTTGGAGATTGGAGAAGATTGGAAAGGATGGTGCATTTCACAAGAAGCTAAACTCAAATGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 3'ss of exon 5
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccc-tgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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-----------------------gtaagtcctctgaagcaaccatgatatgatacgattcttcatgatatt----tctattaactgtttgaatttca---tttgattagTGTATAAGAAGCACTACCCACCTGCGTTGAAAGATGAGGTCTGGAGGTTAGAAAAGATAGGGAAGGATGGATCTTTCCATAAGAGACTGAACAAAGCTGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G018837_T04 (Zea mays), 3'ss of exon 5
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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--------------------------gtaagtcccaaaaatgtatctgtgtactgtattcccact-tgaca-tatatctaaactatttcaatttcatttatct---agTGTACAAGAAGCACTATCCACCTACACTGAAAGATGAGGTCTGGAGGTTGGAAAAAATAGGGAAGGATGGGTCATTCCATAAGAGGCTGAACAAATCTGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G010471_T01 (Zea mays), 3'ss of exon 1
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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--------------------------gtaagtcccaaaaatgtatttgtgtgctgtattctcact-tgaca-tatatctaaactatttcaatttcatttatct---agTGTACAAGAAGCACTATCCACCTACACTGAAAGATGAGGTCTGGAGGTTGGAAAAAATAGGGAAGGATGGGTCATTCCATAAGAGGCTGAACAAATCTGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: AC202073.4_FGT001 (Zea mays), 3'ss of exon 4
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcc-tacactgtaatagcatcttttaaattttatattttgac---ctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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------------------------gtatgtttatttagt----gtgatgtcattgttaaataatctaacatataggctttaaacatgaatacgttaactaactcttttgtagTGTATAAGAAGCATTATCCTCCTGCACTAAAGGATGAGGTATGGAGATTAGAAAAGATTGGAAAGGATGGTTCATTCCACAAGAGATTAAACTCAAGTGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G57580.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatcttttaaattt-tatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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------gtatggtcttaaaagctccccttttcttct-----cactgtaccatctg----------gtgtttacttcttttagtttgatgcacatttcttttatgtgcagTGTACAAGAAGCATTATCCACCTGCTCTGAATGATGATGTGTGGAGATTGGACAAGATCGGCAAGGATGGGGCATTCCATAAAAAGCTTACTGCTGAAGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G25800.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctcc-ctgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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------gtatgtgttttcttttcttgttctctttttgcctt--gtgcttgccacttgttttcttctaaatcaacatgttgttggattggttatgtg----------tagTGTACAAGAAGCATTATCCACCTGCTTTGAATGATGAGGTGTGGAGGTTAGAGAAGATTGGTAAAGATGGGGCGTTTCATAAGAGGCTAACCGCTGCAGG
upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0052g01380.t01 (Vitis vinifera), 3'ss of exon 4
gtagggttatgct--tctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatctt-ttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
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gtaggttcaggctcatccttgtcttttatttattgaattattttattgttcttttt---cttat-ctgtgatgacatgttattgaatctgctgtttttccctgggt---agTGTATAAGAAACACTATCCACCTGCATTAACTGATGATGTGTGGAGATTGGAGAAGATTGGCAAGGATGGTTCATTCCACAAGAGGCTAAATAATTCCCAMapped 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|208076488|gb|GD874367.1|GD874367EST: TAGAGGAGAAT TATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGG
genomic: TAGAGGAGAATgtagggttat ... tttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
ttttgac putative branch site (score: 3)
ttttgacctttttctc CT-rich tract
tgtaatagcatctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagggttatgcttctacatcttttagtttttctctagcatcagtgctctccctgctcctacactgtaatagcatcttttaaattttatattttgacctttttctcagTATATAAGAAGCATTATCCACCTGCATTGACTGATGAAGTGTGGAGATTGGAGAAGATAGGCAAGGATGGGTCATTTCATAAGAAGCTGAATAGTGCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA