Sequence
atgc intronic sequence ATGC exonic sequencegtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattgataactaataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
Basic information
species | Glycine max |
transcript | GLYMA01G35650.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 5
gtaattgaaatagttgcctcaatattattgattttacatttttt-tgatgcatacattcattgataactaataata-tctggtatta-tggttatg---cagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
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gtgacagcatcagtctatgcatgtttgttg-ttgagcacttaatgtattttctactaatatttttaacagaagatcctttggttctactaattatttaccagACCATGAACAAAGTCTTTGAGCATGCTGGAGATCTTGTCAACATCCGAGTTGCACATAATTTAATGCGACTTATTGCTGAAGGCTTTGGAGAGGAGGATG
upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 4
gtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattgataact-aataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
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gttatcacatgagtattgtcctaaatattg-tcatgcatctttt-gttgcctc------ttgagagctgaaccttttcttcctctattctcttacagACCATGAACAGAGTTTTTGAGCATGCTGGAGATCTTGTCAACATCAGAGTGGCACACAATTTGATGCGGCTAATTGCTGAAGGCTTTGGAGATGAGGACG
upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 5
gtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattgataact-aataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
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gtaatcacatgagtattgtccaacatattg--tcaagcatcctttgttgc------ttcttgagagctgaactctttcttcctctattttcttacagACCATGAACAAAGTCTTTGAGCATGCCGGAGATCTTGTCAACATCAGAGTGGCGCACAATCTGATGCGGCTAATTGCTGAAGGCTTTGGAGAGGAGGATG
upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattgataactaataatatctgg-tattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
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gtagc-aagccaacctccattgtaactgtggcctgaca----ataaacatatatactctttgtttctgacagaagtttaactgtttctgtactgcagATCATGAATAAAGTCTTCGAGCATGCAGGAGATCTGGTAAATATTAAAGTGGCACATAATCTGATGCGTTTGATTGCTGAAGGATTTGGAGAGGACGATG
upper sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
gtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattga-----taactaataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
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gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATGMapped 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|193421718|gb|FK388337.1|FK388337EST: GTGTGGAACTTGCTGAGCAATTTGCACCAAGTAATCATTGGTTTATACAG ACCATGAANAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTG
genomic: GTGTGGAACTTGCTGAGCAATTTGCACCAAGTAATCATTGGTTTATACAGgtaattgaaa ... ggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgatgcatacattcattgataactaataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
aactaat putative branch site (score: 2)
attcattgataactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattgataactaataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA