Sequence
atgc intronic sequence ATGC exonic sequenceGAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
Basic information
species | Glycine max |
transcript | GLYMA11G15010.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 5'ss of exon 8
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaat-----atttttagttcatacctttttgtcttgtgatgtactg--gattgtagttctccttaataagtattttccaatctatctctgtag----------------------------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 9
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaac--atctcattgattgagg-gcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGATGTTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaata-ttagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgac-agtatttatcatctatgtctgtag------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 8
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactg-ctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGATGTTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaatatt----agtagctcat--------------agccctctttgttatgtgataactctgggcttatgatttttttcttaacg--gtatttatcatc-tatgtctgtag---
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 14
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCTGAGACGTTGATGTTTGACTATCACAAGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaata-ttagtagctcatagtcctctttgttatgtgataactctgggcttatgattttttttcttaaca-gtgtttatcatctatgtctgtag--------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 7
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaatatt----agtagctcatagccctctttgttatgtgata---actctgggcttatgattttttattaacagtatttatcatctatgtctgtag-----------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G157772_T01 (Zea mays), 5'ss of exon 5
GAGTTC-GGAGTTGTTATGATGAGGGCAAGCGTGTTGCA-GAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttatttt---ttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTTAGGAGTTGTTATGATGAGGGTAAGCGTGTAGCAAGAGACGTTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataa-ctctgggcttatgatttttttcttaac-agtatttatcatctatgtctgtag------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctct---ttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 7
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgag-ggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagt-----tttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtag-------------------------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 5'ss of exon 6
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctca--ttgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTAGAAGCTGTTATGATGAAGGAAAACGTGTTGCCGAGACTCTTATGTTTGATTACCATAGGCAACATGGGATTGgtaaaat-taatcactcttttaccattttcttgaaaactttgatttaagcttattggctgattagttattacttctattgtctggccattg--tag----------------------------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 5'ss of exon 7
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTTAGGAGCTGTTATGATGAAGGCAAGCGTGTTGCTGAGACCTTGATGTTTGACTACCACAGGCAACATGGAATTGgtaagt-------tgcattttctcaggctctcgctt-caactttctccctgtaatttgcatcaaca-----tattct-cattgtcctttattcctta-----aattgtttttgtttcttctttgtag-------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 8
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GTGTGCGGAGCTGCTATGATGAGGGGAAGCGTGTGGCTGAGACTTTGATGTTTGATTATCATAGGCAACATGGGATAGgtaact-----tttgtgtttttttttttaatcctgaacaa-acttcaatgaatatgaagttt--taatatgtatgttgtttctttatattttggacag------------------------------------------
upper sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 8
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
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GAGTAAGAAGCTGCTATGACGAGGGAAAGCGTGTTGCTGAGACTCTTATGTTTGACTACCATAGGCAGCATGGCGTTGgtatatacattcctcgtgttgtatcttttctaagttaacacgctctacgcttttatgtcg-gtccaatgtgtactagaagc----gtaaaatatttaaacctggc-----------------------------------Mapped 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|22525432|gb|BU084243.1|BU084243EST: GCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCG AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTG
genomic: GCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattcctt ... tttctctcagAAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA