Sequence
atgc intronic sequence ATGC exonic sequence...tttttcatttattttctttttcctaagctatactttattcatttctctcctttccttgtgtttgctttgaactaaaaactcagatcaatatgtctagaagATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGTGGAGTATGCAATGGAGGCCATTGGGAATGCTGGAACTGCAATAGGGATC
Basic information
species | Glycine max |
transcript | GLYMA07G19170.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G19170.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G22110.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------tttttcatttattttctttttcctaagct--atactttattcatttctctcctttccttgtgtttgctttgaactaaaaactcagatcaatatgtctagaagATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGTGGAGTATGCAATGGAGGCCATTGGGAATGCTGGAACTGCAATAGGGATC
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tgtgatgtcgaaaaccctagttttcgtgttttcggaacttgccctgtgtctaatggagtatgaattagttgtgtagaccaatgcatttgttgtggtgcagGTGTTAA--AGAATGTCTCGGAGATATGATAGCCGTACCACAATCTTCTCGCCAGAAGGTCGTCTTTACCAGGTAGAGTATGCTATGGAGGCCATTGGAAAC---------------------
upper sequence: GLYMA07G19170.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0042g00070.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------tttttcatttattttctttttcctaagct-atactttattcatttctctcctttccttgtgtttgctttga---actaaaaactcagatcaatatgtctagaagATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGTGGAGTATGCAATGGAGGCCATTGGGAATGCTGGAACTGCAATAGGGATC
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ctcatttgtctctgtttttgaatttcatatctaagttgtacttctttcttgtaccttctgagctgataactttgctattccattgttgtactcttgacagACTTATTTCGTTTCCAGTGTGATACAAAATGTCTCGGAGGTATGATAGCCGTACAACAATCTTTTCCCCTGAAGGGCGTCTCTACCAAGTCGAGTATGCA---------------------------------------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|7042303|gb|AW472197.1|AW472197EST: GCTCGGTTCTCCGATCGCCGTCTTCGCCTTGCCCATTCCTG ATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGT
genomic: GCTCGGTTCTCCGATCGCCGTCTTCGCCTTGCCCATTCCTGgtaaactttt ... tgtctagaagATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcctttccttgtgtttgctttgaactaaaaactcagatcaatatgtctagaagATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGTGGAGTATGCAATGGAGGCCATTGGGAATGCTGGAACTGCAATAGGGATC
aactaaa putative branch site (score: 2)
aactaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttcatttattttctttttcctaagctatactttattcatttctctcctttccttgtgtttgctttgaactaaaaactcagatcaatatgtctagaagATATGATAGCCGTACAACAATCTTCTCCCCCGAAGGACGTCTTTACCAAGTGGAGTATGCAATGGAGGCCATTGGGAATGCTGGAACTGCAATAGGGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaac