Sequence
atgc intronic sequence ATGC exonic sequencegtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggtcaagattttcatgtgattctattctgtaagttcaattttcttatatgtttgtcattgcacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
Basic information
species | Glycine max |
transcript | GLYMA05G26100.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g48270.1 (Oryza sativa), 3'ss of exon 4
gtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggtcaagattttcatgtgattctattctgtaagttcaattttc-ttatatgtttgtcattgcacatct-tagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
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---------------------------------------------gtaacactgcct--tttggtaaatgtggccagacttatctatttggtactgtaatgtatacagacttataaccataccttcttggtgtaatgccaatagGGATATCATTCGTGGGAGTCCAGATGTCAAATGGGAAAGCATTAAAGGTTTGGAGAATGCAAAGCGTCTTCTGAAAGAAGCAGTTGTGATGCCTATAAAA
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g55260.1 (Oryza sativa), 3'ss of exon 4
gtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggtcaagattttcatgtgattctattctgtaagttcaat--tttcttatatgtttgtcattgcacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
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-----------------------------------------------------------gtaattcaagattcac--aaactttcgaaaaataggaaagcacaaatttggccattgactatatattcttgccttcatctttcagGGACATTATTCGCGGCAGTCCAGATGTGAAATGGGAAAGCATCAAAGGACTGGAGAATGCCAAACGCCTTCTAAAAGAGGCAGTTGTCATGCCCATAAAG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G115766_T02 (Zea mays), 3'ss of exon 3
gtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggt-caagattttca---tgtgattctattctgtaagttcaatt----ttcttatatgtttgtcattgcacatct-tagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
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------------------------------------------------------gtaaactgtttcaaaatctgtacatgacatcaatagtgcggtactgtaatgtattctcgactgctgttactatagcttccttctccaatgcctacagGGATATAATTCGTGGAAGTCCAGATGTTAAATGGGAAAGCATAAAAGGTCTGGAGAATGCAAAGCGTCTTCTCAAAGAAGCAGTTGTAATGCCAATTAAA
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 4
gtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggtcaagattttcatgtg-attctattctgtaagttcaattttcttatatgtttgtcattgcacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
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-----------------------------------------------------gtaatctaaacatcattgtggctttaacattcagggacggtgtggtctagctgttgaaacattttat---cccatcatttggcctttcagGGATATTATTCGCGGGAGCCCAGATGTGAAATGGGAGAGCATCAAAGGACTGGAAAATGCAAAACGCCTTCTAAAAGAGGCTGTTGTCATGCCCATAAAG
upper sequence: GLYMA05G26100.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 4
gtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggtcaagattttcatgtgattctat----tctgtaagttcaattttcttatatgtt-tgtcattgcacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
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gtaattgaacttcttacttt----ggacctgtaatatatctgttatttttgca-atctgtattgtgcatgt-ggccaggattttcatattctaacagaagatctgaaaattgtataccatgcttcctcgcgttattgcctgtcc-agGGATATCATTCGTGGGAGTCCAGATGTGAAGTGGGACAGCATCAAGGGTTTAGAGAATGCCAAACGTCTGCTTAAAGAAGCAGTTGTCATGCCAATAAAGMapped 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|13789838|gb|BG652429.1|BG652429EST: CCACCCTTTGAATCTGCAGAAATGCGAGCTTTAGCAGAGAGCCTAAGTAG GGAT-TCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTT
genomic: CCACCCTTTGAATCTGCAGAAATGCGAGCTTTAGCAGAGAGCCTAAGTAGgtaaattttc ... cacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgattctattctgtaagttcaattttcttatatgtttgtcattgcacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
aattttcttatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattttctctcaatctcttcaataccttggatagaaccaatgactacatggagaaattatttgcatgttggtcaagattttcatgtgattctattctgtaagttcaattttcttatatgtttgtcattgcacatcttagGGATATCATTCGTGGAAGTCCAGATGTGAAGTGGGAAAGCATCAAGGGGTTAGAGAATGCCAAACGTTTATTAAAAGAGGCTGTTGTGATGCCGATTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT