Sequence
atgc intronic sequence ATGC exonic sequencegttcgtgtgcccgcgttctgttctggaatcttctatttttctttttttacccctttggaattgaatattggaagtttttggtttttttttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
Basic information
species | Glycine max |
transcript | GLYMA10G26890.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G31610.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcgtgtgcccgcgttctgttctggaatcttctatttttctttttttacccctttggaatt-gaatattggaagtttttggtttttttttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
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-------------------------gtatgtttgtttgatcatttcttctctctttcgattttgaatgt----gtttcgagatctgatatcgaaaatgttgggttt-tagGTGAGAAGGGGAGGAGAATTAGGGAATTGACATCTCTTGTCCAGAAGAGATTCAAGTTTCCAGTTGACAGTGTTGAGCTCTATGCTGAGAAGGTTAACAA
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcgtgtgcccgcgttctgttctggaatcttctatttttctttttttacccctttggaattgaatattggaagtttttggtttttttttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
|| || | | | ||| || ||| ||| || ||| ||| || || | | ||| | | || | || || ||| |||||||||||||||||| || |||||| | || ||| | || || ||||| ||||| ||||| || |||||||||| ||||||||||| ||||| ||
----gtatgttggtgcatt-ttcgttaaccttg-----ctctgattcgacctttttttgtttctatgatatcaattt--gatgattctctgtttggttt--------agGTGAGAAGGGAAGGAGGATTAGGGAATTGACATCTCTTGTACAAAAGAGATTCAAATTTCCTCAGGACAGTGTTGAGCTTTATGCTGAGAAGGTTGCTAA
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G53870.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcgtgtgcccgcgttctgttctggaatcttctatttttctttttttacccctttggaattgaatattggaagtttttggtttttttttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
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------------------------------gtatgtttttgatcttcgagcttaatcatttcttctattatacgg---tagtgactgtaaaatttgattgtattt-cagGTGAGAAGGGGAGGAGAATTAGGGAATTGACTTCCCTTGTTCAGAAGAGATTCAAGTTTCCAGTTGACAGTGTTGAGCTTTATGCCGAGAAGGTTAACAA
upper sequence: GLYMA10G26890.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S127_74V6.1 (Physcomitrella patens), 3'ss of exon 2
--------gttcg-tgtgcccgcgttctgttctg-gaatcttctatttttc-------tt----tttttacccctt---tggaattgaatat-tggaagtttttggtttttttttggtt-attttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
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gtgagtctcttggctgcactgacattatgcgctatggatctggtagtctttgagataattagggttttttctctttggccggaggtgaatttgcgggggtagtcggattgaagtagggtgactgctccctggtagGTGAGAAGGGACGAAGGATCAGGGAACTGACCTCCGTGGTACAGAAGAGGTTTCAGTTCCCGGAGGGTACTGTGGAGTTGTACGCCGAGAAGGTGAACAAMapped 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|298167771|gb|HO013034.1|HO013034EST: GATGCGCACCGAAATCATAATTAGAGCCACCAGAACCCAAGCTGTTCTCG GTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGT
genomic: GATGCGCACCGAAATCATAATTAGAGCCACCAGAACCCAAGCTGTTCTCGgttcgtgtgc ... gtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggaattgaatattggaagtttttggtttttttttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
tttttggttttttttt 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 |
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gttcgtgtgcccgcgttctgttctggaatcttctatttttctttttttacccctttggaattgaatattggaagtttttggtttttttttggttattttgtattaatagGTGAGAAGGGAAGGAGAATAAGGGAACTTACCTCTGTGGTTCAGAAGAGGTTCAAGTTTCCCGAGAACAGTGTTGAACTTTATGCTGAAAAGGTCAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG