Sequence
atgc intronic sequence ATGC exonic sequenceggtatggtgtaataattatgagtttcatctgttggaatccctatttttttatgggctaaggtttaccagaactcgtgtatcagtctagaatacttgtcttgttgtgtttgctttgtcataccttttcataatgtaagaggcgtttcttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCA
Basic information
species | Glycine max |
transcript | GLYMA17G37820.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 11
ggtatggtgtaataattatgagtttcatctgttggaatccctatttttttatgggctaaggtttaccagaactcgtgtatcagtctagaatacttgtcttgttgtgtttgctttgtcataccttttcataatgtaagaggcgtttcttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCA-
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--------------------------------------------------------------------------------------------------------------gtaagattgggttttccgcagtg---aatgcaagtcacatactctgta-attatctttaaagtactgaaaagatttttctctaat---cagATGAAGAGAAAAGCGAGATGGAGGAGAAGAAGGGCCAGTACGCCAAGTTCTGGAATGAGTTTGGCAAATCAATCAAGCTGGGTATCATCGAAGACGCGAC
upper sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G399073_T02 (Zea mays), 3'ss of exon 13
ggtatggtgtaataattatgagtttcatctgttggaatccctatttttttatgggctaaggtttaccagaactcgtgtatcagtctagaatacttgtcttgttgtgtttgctttgtcataccttttcataatgtaagaggcgtttcttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCA-
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-------------------------------------------------------------------------------------------------------------gtaatgtctttccccccc-tgctgtga-atgcaagtcacatgctctatat-ttgtcattacaatgctaaaagtaggaacaactg-taatcagATGAAGAGAAAAATGAGATGGAGGAGAAGAAGGGCCAGTACGCCAAGTTCTGGAATGAGTTTGGCAAATCAATCAAGCTGGGTATCATTGAAGACGCAAC
upper sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
ggtatggtgtaataattatgagtttcatctgttggaatccctatttttttatgggctaaggtttaccagaactcgtgtatcagtctagaatacttgtcttgttgtgtttgctttgtcataccttttcataatgtaagaggcgtttcttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcaca-
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-gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttt---------tctcccagaa---gcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaac---tgttgctgctctctcatttctcttgccatctttat--tgatgttgagttccaatat-attgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC--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|193352039|gb|FK315494.1|FK315494EST: GTAGGATTGCTGATGAGGATCCTGATGAGTCCACTGACAAAGAAAAGAAA GAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTC
genomic: GTAGGATTGCTGATGAGGATCCTGATGAGTCCACTGACAAAGAAAAGAAAggtatggtgt ... ttgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTC
EST:
gi|10848102|gb|BF071680.1|BF071680EST: GTAGGATTGCTGATGAGGATCCTGATGAGTCCACTGACAAAGAAAAGAAA GAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTC
genomic: GTAGGATTGCTGATGAGGATCCTGATGAGTCCACTGACAAAGAAAAGAAAggtatggtgt ... ttgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTC
EST:
gi|193590608|gb|FK544499.1|FK544499EST: GATGAGGAT-CTGGATGAGTCCACTGACAAAGAAAAGAAA GAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTC
genomic: GATGAGGATCCT-GATGAGTCCACTGACAAAGAAAAGAAAggtatggtgt ... ttgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCA
tattgat putative branch site (score: 3)
atcaatattaaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtatggtgtaataattatgagtttcatctgttggaatccctatttttttatgggctaaggtttaccagaactcgtgtatcagtctagaatacttgtcttgttgtgtttgctttgtcataccttttcataatgtaagaggcgtttcttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcacaGAAGATACGTCATCTGACAATAATGAGAAGAAAGGTCAATATTCCAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG