Sequence
atgc intronic sequence ATGC exonic sequencegtatgttgtcctcttaaagttttgaattaatgtacttctgttaacattttattcaaactgttttaggagttgagtgaacaaaaagacaatatgatgattgaaccctctatttgactgtatgaaaactggtagttgacaattcaattttctttccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGCTTTGATTATCGCCTGCACATGGCCATTGCAGACAAGTGGATTGAGATTC
Basic information
species | Glycine max |
transcript | GLYMA03G35020.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 14
gtatgttgtcctcttaaagttttgaattaatgtacttctgttaacattttattcaaactgttttaggagttgagtgaacaaaaagacaatatgatgattgaaccctctatttgactgtatgaaaactggtagttgacaattcaattttctttccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGCTTTGATTATCGCCTGCACATGGCCATTGCAGACAAGTGGATTGAGATTC
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--------------------------------------tagtaacaat--actctaa--atcccatacgtaaacctaactctattgcaaaa-gataacttaatt-tcaactgttctgtggttaaa-tggcatataactactt-----------------cagGTCAGTGGAATGCCTACATTTGCCCTTCCTGTTCAAGATGGTGGGGTTGGTTTTGATTATCGCCTTCATATGGCTGTTCCTGACAAATGGATTGAACTCC
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 14
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 14
gtatgttgtcctcttaaagttttgaattaatgtacttctgt-taacattttattcaaactgttt-taggagttgagtgaacaaaaagacaatatgatg---attgaaccctctatttgactgtatgaaaactggtagttgacaattcaattttctttccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGCTTTGATTATCGCCTGCACATGGCCATTGCAGACAAGTGGATTGAGATTC
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gtaagttttctgattggctaaataaaaaagtgctctacagaaccataagggatacatattgtgtatcatattaaagatagtccaaaaccaaattagtgtgaactgacaagagaaagttagtatatattttttggtgatctatgctaataaaatcgtttcatttc-agGTTAGTGGTATGCCAACATTCTGTATTCCTGTCCAAGATGGTGGCGTTGGATTTGACTACCGTTTACACATGGCCATAGCTGATAAGTGGATAGAAATGC
upper sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 14
lower sequence: EDP05581 (Chlamydomonas reinhardtii), 3'ss of exon 11
gtatgttgtcctcttaaagttttgaattaatgtacttctgttaacattttattcaaactgttttaggagttgagtgaacaaaaagacaatatgatgattgaaccctctatttgactgtatgaaaactggtagttgacaattcaattttctttccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCC-TACGCAAGATGGTGGGGTTGGCTTTGATTATCGCCTGCACATGGCCATTGCAGACAAGTGGATTGAGATTC--------------------------------
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-----------------------------------------------------------------------------------------gacaggagtcacatgcccgggctggccgcctcccaatcgctccctgccgacc---tctgacgcccatgtc---gtccgtatgcgcgcggcgctgtgcaccccgcagGCAGGAGGGCGGTGTGGGCTTCGACTACCGCCTGCAGATGGCCATTGCGGACAAGTGGATTGAGGTGATGAAGCTGCACGACGACTACGCCTGGAACATGMapped 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|20448926|gb|BQ253050.1|BQ253050EST: ATGATGTCATTCATGGGCTGTTCCCTGAGGCTGTTACAATTGGTGAAGAT GTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGC
genomic: ATGATGTCATTCATGGGCTGTTCCCTGAGGCTGTTACAATTGGTGAAGATgtatgttgtc ... ccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttgactgtatgaaaactggtagttgacaattcaattttctttccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGCTTTGATTATCGCCTGCACATGGCCATTGCAGACAAGTGGATTGAGATTC
agttgac putative branch site (score: 4)
ttcaattttctttcca putative PPT
aattcaattttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttgtcctcttaaagttttgaattaatgtacttctgttaacattttattcaaactgttttaggagttgagtgaacaaaaagacaatatgatgattgaaccctctatttgactgtatgaaaactggtagttgacaattcaattttctttccatttccagGTGAGTGGAATGCCAACATTCTGCCTTCCTACGCAAGATGGTGGGGTTGGCTTTGATTATCGCCTGCACATGGCCATTGCAGACAAGTGGATTGAGATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA