Sequence
atgc intronic sequence ATGC exonic sequence...atgatttgaaatgcatatttttcagctttccccttttggattatatgttgcatgcttgcatagtctgacctagtcctctttttatttgaatttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT
Basic information
species | Glycine max |
transcript | GLYMA07G39380.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G059151_T01 (Zea mays), 3'ss of exon 6
----------------------------------------------------------------------------atgatttgaaatgcatatttttcagctttcccc---ttttggatta---tatgttgcatgcttgcat-----agtctgacctagtcctctttttatttgaatttaa----tgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT
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gtatctaattcttgattgttgactatgtatgaagtctcagtctaggtttttaattagctacaatggtgatgggctaattgctcaccgcacacctgctcgagcattctttcaatttgaaattaaggcattctacacagatgcatttgaaaacccatcatgaatatatcatgacaaggaatcatatttttcagATATACTCTGAAATGATTGGCAATGTTATGACTGATGCGAGATCCACTGGAAAATACTACCACT
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 3'ss of exon 6
atgatttgaaatgcatatttttcagctttccccttttggattatatgttgcatgcttgcatagtctgacctagtcctctttttatttgaatttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT
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----------gtaagtaactttaaaatttatgcat--aactta---gttgtctttttatagaa---gacct--tccattttgtgattatataca-tgtagATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACT
upper sequence: GLYMA07G39380.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 6
atgatttgaaatgcatatttttcagctttccccttttggattatatgttgcatgcttgcatagtc---tgacctagtcctctttttatttgaatttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT
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atcatcc-atgtgactaatggttgaaatgcctcttatggttgcagtagtaagt-tttgcattgtaaaataatcaatggtatgttgtatttttaacca-tgcagATTTATGCAGAAATGATTGGGAATGTCATGATAGATGCTCGCTCAACTGGAAAATACTATCACTMapped 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|7591049|gb|AW706790.1|AW706790EST: TGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAG ATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGA
genomic: TGAAATGCAAAGAAGTTCCCACAAGTTTTGGGTTTGATACAGCATGCAAGgtgaatgaag ... tttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgcatgcttgcatagtctgacctagtcctctttttatttgaatttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT
tctttttatttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatttgaaatgcatatttttcagctttccccttttggattatatgttgcatgcttgcatagtctgacctagtcctctttttatttgaatttaatgcagATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATT
-tgatttg
- - - - - -tgcatat
- - - - - - - - - - - - - tttcccc
- - - - - - - - - - - - - - - - - - - - - - - - -gcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacct