Sequence
atgc intronic sequence ATGC exonic sequencegtaaatatcattgcttatggtttaccatttatacctcttttcattttcttatttgtagtggtggattattttccttccctgtatatcttgaaatagaagaccagaatttgttcttttacatcaaaatcttttgctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAAGATAGAGCTTCCTCCATATTTTATGGAGTGGATTAATCTCAAAGATGTC
Basic information
species | Glycine max |
transcript | GLYMA06G35090.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G35090.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G143525_T03 (Zea mays), 3'ss of exon 2
gtaaatatcattgcttatggtttaccatttatacctcttttcattttcttatttgtagtggtggattattttccttccctgtatatcttgaaatagaagaccagaattt-gttcttttacatcaaaatcttttgctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAAGATAGAGCTTCCTCCATATTTTATGGAGTGGATTAATCTCAAAGATGTC
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------------------------------------------attcaacaaaatatatgtttgagttgttttttttaaatgactag-ttgtttcaatgcttcagactttagagactgaacttctcatgcttcaaatgtggcagTGGAAACTGGGATTTGAAGACAAAGGTCCCTGAGCAGTGCAAGGTTTCAAAAATAAATTTACCTACCTATTTTATGGAATGGATTAACTTGAAGGATATC
upper sequence: GLYMA06G35090.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G15140.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaatatcattgcttatggtttaccatttatacctcttttcattttcttatttgtagtggtggattattttccttccctgtatatcttgaaatagaagaccagaatttgttcttttacat-caaaatcttttgctattg-cagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAAGATAGAGCTTCCTCCATATTTTATGGAGTGGATTAATCTCAAAGATGTC
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--------------------------------------------gtgagaattaatgataagagatggggctgctt--atgtaaatctttgagtttctcattactgatt-tcctttgggatactgattatgttaatgttatcagTGGAAACTGGGATATAAAGACAAAGATTCCTGAGCAATGCGTAGTTTCAAACATCAATCTTCCGCCATATTTTATGGAGTGGATCAATCTCAAAGACGTC
upper sequence: GLYMA06G35090.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0014g02090.t01 (Vitis vinifera), 3'ss of exon 4
gtaaatatcattgcttatggtttaccatttatacctcttttcattttcttatttgtagtggtggattattttccttccctgtatatcttgaaataga---agaccagaatttgttcttttacatcaaaatcttttgctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAAGATAGAGCTTCCTCCATATTTTATGGAGTGGATTAATCTCAAAGATGTC
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-------------------------------------------caggttagtttatgatattcatttgatatgggctgtaagaaattaagaatcacttctaaaactcggtttgtttaacttcttcttgttctacttgtatt--agTGGGAACTGGGACTTGAAAACAAAAGTCCCTCAGCAATGCAAAGTATCGAAGATGAAGCTTCCCCCATACTTTATGGAGTGGATCAACTTGAAGGATGTTMapped 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|7639174|gb|AW733502.1|AW733502EST: ATTCGTGCAGCATTTGTAACATG TGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAA
genomic: ATTCGTGCAGCATTTGTAACATGgtaaatatca ... gctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAA
EST:
gi|10252655|gb|BE820421.1|BE820421EST: CATCAATTGTGGATGGGTGAGAAACTTATTCGTGCAGCATTTGTAACATG TGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAA
genomic: CATCAATTGTGGATGGGTGAGAAACTTATTCGTGCAGCATTTGTAACATGgtaaatatca ... gctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaaatagaagaccagaatttgttcttttacatcaaaatcttttgctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAAGATAGAGCTTCCTCCATATTTTATGGAGTGGATTAATCTCAAAGATGTC
tcttttgct CT-rich tract
aatttgttctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatatcattgcttatggtttaccatttatacctcttttcattttcttatttgtagtggtggattattttccttccctgtatatcttgaaatagaagaccagaatttgttcttttacatcaaaatcttttgctattgcagTGGAAATTGGGATTTGAAAACAAAGGTCCCTCAGCAATGTGAAGTGTCAAAGATAGAGCTTCCTCCATATTTTATGGAGTGGATTAATCTCAAAGATGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG