Sequence
atgc intronic sequence ATGC exonic sequenceGCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagcttaatttttctgtgtttagaatacattatatattgtcttaatttttgaaacaggatattaggatctatttttc...
Basic information
species | Glycine max |
transcript | GLYMA06G13140.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g43150.1 (Oryza sativa), 5'ss of exon 8
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagcttaatttt-tctgtgtttagaatacattatatattgtcttaatttttgaaacaggatattaggatctatttttc-
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GCTATCGCTGGTGAAGCTGGTGTGCCATTTTTTTATCGGGCAGGTTCTGAATTTGAGGAAATgtaagatctccttgtgaataatattttttggtcttgtttagccgttgagta-ataaaatgcaattattggttattttgcaaagtatt-ggttttatctacat
upper sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G156069_T01 (Zea mays), 5'ss of exon 8
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttt----tgc-attttatagcttaatttttctgtgtttagaatacattatatattgtcttaatttttgaaacaggatattaggatctatttttc
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GCCATTGCTGGAGAAGCTGGTGTACCATTCTTTTACCGAGCAGGCTCTGAATTTGAGGAAATgtaagatctcttgtaaggtgctatctggcattacaatttttttgtgtttattggaagttatttggaaccttactctaccaaattg--caattgtctttactg---
upper sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G004040_T01 (Zea mays), 5'ss of exon 8
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagcttaatttttctgtgtttagaatacattatatattgtcttaatttttgaaacaggatattaggatctatttttc-------
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GCCATTGCTGGAGAAGCTGGCGTACCATTCTTTTACCGAGCAGGTTCTGAATTTGAGGAAATgtaagatctcttgtaaggtgctat--ctggcattatatattttctttgt-tgttctgta--atcttgatctgccaaatt--acaattgtctttactggatcagaaaa
upper sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 8
lower sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 8
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagctta-atttttctgtgtttagaata-cattatatattgtcttaatttttgaaacagg-----------atattaggatctatttttc-------------------------------
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GCAATTGCTGGAGAAGCTGGAGTACCCTTCTTCTATAGAGCTGGATCTGAATTTGAAGAGATgtgagccttcttctagctatctttctctggcatttgccttaggcaacattatcattatctatttagtaattatttcaatcaggtggcttcttcaataatggataatgtcttctaatatcatgtttttttcccttcgatttacag
upper sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv16s0050g02630.t01 (Vitis vinifera), 5'ss of exon 8
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagcttaatttttctgtgtttagaatacattatatattgtcttaatttttgaaacaggatatt----aggatctatttttc
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GCTATTGCTGGAGAGGCTGGAGTACCATTTTTCTATAGAGCAGGTTCTGAATTTGAAGAAATgtgagccata-tactgctctccttaatacaagcttcactagcttatagtaatttagttctgttgttaatctctgatgctggctttttgtgagggccaggtg---
upper sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S9_238V6.1 (Physcomitrella patens), 5'ss of exon 8
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagcttaatttttctgtgtttagaatacattatatattgtcttaatttttgaaacaggatattaggatctatttttc--
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GCCATTGCTGGAGAAGCCGGGGTTCCATTCTTCTACCGCGCAGGGTCTGAGTTTGAGGAAATgtaaggtgccacgtcttatggaatactgcaggtttcattcattccactaacgattcagatcattaaaaacttgtggatgg--tccccatctttgtgcaccggMapped 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|19348886|gb|BM893418.1|BM893418EST: GAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGAT GTATGTTGGAGTTGGTGCTCGACGTGTAAGATCCTTATTTCAAGCAGCAAA
genomic: GAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttc ... tccatttcagGTATGTTGGAGTTGGTGCTCGACGTGTAAGATCCTTATTTCAAGCAGCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTATTGCTGGAGAAGCTGGTGTTCCATTTTTCTATCGGGCAGGATCAGAATTTGAGGAGATgtaagtcttccttttgcattttatagcttaatttttctgtgtttagaatacattatatattgtcttaatttttgaaacaggatattaggatctatttttc
- - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT