Sequence
atgc intronic sequence ATGC exonic sequence...ttctaaaataactggcagaatgtgttagtttaaatatctcaagtgatattattaattttgatgcgctccattcattgacttattttcattttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCCGTTATGGTGAAAATCCTCATCAAAAAGCTGCATTCTATGTTGACAAAAG
Basic information
species | Glycine max |
transcript | GLYMA11G25900.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G25900.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os08g10570.1 (Oryza sativa), 3'ss of exon 7
-ttctaaaa-taactggcag-aatgtgttagtttaaatatctcaagtgatattattaattttgatgcgctccattcattgacttattttcattttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCCGTTATGGTGAAAATCCTCATCAAAAAGCTGCATTCTATGTTGACAAAAG
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gtattaacactaactttttgtaatgatctagtttatatatgatg-gttttgtcaacatttcctcagatatcattacactatcatgttctcatgtagG----AGATGTATTCCCCCCGAACTTCACCGTGCCCCTGTCCCTGAAATCTACACTTCGTTATGGTGAAAATCCTCATCAAAAAGCTGCCTTCTATGGGGACAA---
upper sequence: GLYMA11G25900.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G306374_T01 (Zea mays), 3'ss of exon 7
---ttctaaaataactggcagaa--tgtgttagtttaaatatctcaagtgatattattaattttgatgcgctccattcattgacttattttcattttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCCGTTATGGTGAAAATCCTCATCAAAAAGCTGCATTCTATGTTGACAAAAG
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ggttacaacaacagctctcagaagctgctataacaccactatttacaac-acagattgaatttttaagtgacat-ttgactgcatgcatgttattttggtagGAGAGATGTTCCCCCCAAGCTTTACTGTGCCACTGGAGCTGAAGTCTACACTCCGGTATGGCGAAAATCCTCATCAGAGTGCTGCATTCTATGCTGACAA---
upper sequence: GLYMA11G25900.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g01460.t01 (Vitis vinifera), 3'ss of exon 7
ttctaaaataactggcagaatgtgttagtttaaatatctcaagtgatattattaattttgatgcgctccattcattgac--------ttattttcattttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCCGTTATGGTGAAAATCCTCATCAAAAAGCTGCATTCTATGTTGACAAAAG
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------aatagg-atcatggta-gttatatttaatgtggttgcccattgtgcttattatgatgtggtacatacatttatgggtatcattctttgttttttgtttgaagACAAATTTCCTCCCAGTCTGACAGTTCCTCTCTCACTCAAAAGTTCTCTTCGTTATGGTGAAAACCCTCATCAAAAGGCTGCATTTTATGTTGACAAGAGMapped 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|208282891|gb|GE078917.1|GE078917EST: TTCCTATGACTCAGCAGTATCTGAGTGGTTGTGGAAACAGAGTGTGGGAG ATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCC
genomic: TTCCTATGACTCAGCAGTATCTGAGTGGTTGTGGAAACAGAGTGTGGGAGgtacttctgt ... ttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattattaattttgatgcgctccattcattgacttattttcattttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCCGTTATGGTGAAAATCCTCATCAAAAAGCTGCATTCTATGTTGACAAAAG
cttattttcatttt CT-rich tract
ttattttcattttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctaaaataactggcagaatgtgttagtttaaatatctcaagtgatattattaattttgatgcgctccattcattgacttattttcattttgatgacagATAAATTCCCTCCTAGCTTGACAGTGCCCCTCTCTCTCAAAAGTCCTCTCCGTTATGGTGAAAATCCTCATCAAAAAGCTGCATTCTATGTTGACAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - aaaataa
- - - - - - - - -gaatgtg
- - - - - - - - - - - - - - - - - - - -caagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattca