Sequence
atgc intronic sequence ATGC exonic sequenceGTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
Basic information
species | Glycine max |
transcript | GLYMA16G04580.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaata-ttattatctaattctcacatttgtaatttgacattgataag
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GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagt---tgagtattacaatcttagagataggatctcagagac--tcggacataataaaagttattgtgcaatatcttgattcttgcct-------------
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G116086_T01 (Zea mays), 5'ss of exon 4
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
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GTTGCTTTGAAATTTGAGCACCGAAACAGCAAGGGCTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaatta-------cattatattaagccgaaagtgtatattatgctcttatagaataatttt-agggatcatggttataaaaaatgtactctaaacatggtgtatcat---------
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 4
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
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GTAGCATTGAAGTTTGAGCACCGGAATAGCAAAGGATGCAATTATGGCCCTCCTTATGAGTGGCAAGTCTACAAgtaag------actaattgtggttaaat--ttgttttaaatttaaaggcttaaattatcattttgatttt----tgtttttctttctttttcccccttgaaaag-------------
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggt---------aatctgttctttgtatt-taaacaacattatca--agaatacatgtttt--ttttaatctt----cagatgttctaatattattatctaattc--tcacatttgtaatttgacattgataag--------------------------
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GTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtctcgaaccgactcagtcctttctatcctttgctacaatgtcattggaattgctgttccaattctagcctcatcgtggaggttatttttgtgctgtcgggttcaatctaattaggtcataaatgttaatggtgatgataatccttggttgttgcgcag
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ13521 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaat-ctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
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GTTGCTCTCAAGTTCGAGCATAGGAGCAGCAAAGGTTGCAACTACGGGCCTCCTTACGAATGGCAGGTTTACGAgtgagtagttctaccatgagtcttttctctatagtttc-------taagttttggttgatag--------------------------------------------------------
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ19085 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaat-ctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
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GTTGCTCTCAAGTTCGAGCATAGGAGCAGCAAAGGTTGCAACTATGGGCCTCCTTACGAATGGCAGGTTTACGAgtgagtagttctaccatgagtcttttctctatagtttc-------taagttttggttgatag--------------------------------------------------------
upper sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
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GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggcttttt-------ttttctt---tgtgttttgtttctaagctatcg-tgttttatgtttgcag-----------------------------------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|193666102|gb|FK612189.1|FK612189EST: AACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAG CACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCA
genomic: AACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatc ... cattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag
- - - - - - - - - - - - - - GCAAAG