Sequence
atgc intronic sequence ATGC exonic sequence...taattgctaaaattgaaagttaaggggtgtgctgtgattctcccttcccctctgttatgatgatatcattaatcataacatttcattaatttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
Basic information
species | Glycine max |
transcript | GLYMA15G41690.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G41690.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 11
---------------------------------------------taattgctaaaattgaaagttaaggggtgtgctgtgattctcccttcccctctgttatgatgatatcattaatcataacat---ttcattaat-----ttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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gtaagcaaaaaaaaaaaagacttatctaccatttcaacatttttttttgtggtgtactttgtttctcattgatatactgaccaacatacatcatcattaattgcattttatattctattatgatgcatgtttatcaacactacttctgttcagCTTGCTGCTAAGTTCCGTAACAGCGGACAGACATGTGTATGTGCAAACAGGATATTGGTGCAAGAAG
upper sequence: GLYMA15G41690.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G128114_T01 (Zea mays), 3'ss of exon 11
---taattgctaaaattgaaagttaaggggtgtgctgtgattctcccttcccctctgttatgatgatatcattaatcataacatttcattaatttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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tcattatgtatataatactttgtttggctttgttgttgaagtattgcattgccattgt-attttaatataatcaatatt--caccaagtccatatgtgtgcagCTTGCTGCCAAGTTCCGTAACAGTGGACAGACATGTGTTTGTGCAAACAGGATATTGGTGCAAGAAG
upper sequence: GLYMA15G41690.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G119482_T01 (Zea mays), 3'ss of exon 11
----taattgctaaaattgaaagttaaggggtgtgctgtgattctccctt-cccctctgttatgatgatatcattaatcataacatttcattaatttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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atgaggttcatttgagatagacttcgtttgacttgttgaaatattgcattgcccttgcattttaatgtgatcaatgttcatgaaatcc-----atatgtgtgcagCTTGCTGCCAAGTTTCGTAACAGTGGACAGACATGTGTTTGTGCAAACAGGATATTGGTGCAAGAAG
upper sequence: GLYMA15G41690.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv19s0085g00880.t01 (Vitis vinifera), 3'ss of exon 11
taattgctaaaattgaaa--gttaaggggtgtg-ctgtgattctcccttcccctctgttatgatgatatcattaatcataacatttcattaatttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
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-agtagtgaaaatggactttgttatttaatttgacaacatttctgcattctcagtttctgtgcaccattgtttaactaaaatgtggaatc--ttcttttgcagCTTGGTACAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATACTTGTGCAGGAAGMapped 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|151400125|gb|EV269939.1|EV269939EST: CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT CTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
genomic: CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttaga ... ttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
EST:
gi|151404401|gb|EV274211.1|EV274211EST: CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT CTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
genomic: CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttaga ... ttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcccctctgttatgatgatatcattaatcataacatttcattaatttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
atatcattaatcataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattgctaaaattgaaagttaaggggtgtgctgtgattctcccttcccctctgttatgatgatatcattaatcataacatttcattaatttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGAATTATTGTGCAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - gggtgtg