Sequence
atgc intronic sequence ATGC exonic sequence...tgagtgttcaaagaatcgtcctattgtggatttccatatctgttgatgtcgctatatgttttatagaacacatatttcaatctttgtaggtttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGATCATTTTGTATGTTCCGAATGTTCATCTGATGATGATATGAAGAAACCC
Basic information
species | Glycine max |
transcript | GLYMA06G34850.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G34850.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22140.2 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------tgagtgttcaaagaatcgtcctattgtggat---ttccatatctgttgatgtcgctatatgttttat---agaacacat--atttcaatctttgtaggtttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGATCATTTTGTATGTTCCGAATGTTCATCTGATGATGATATGAAGAAACCC
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gtaaatgttgatatttgtcttttttattaacttccttacttgtgtttcaacagaaaagagactatatgtctgtttttaaacttacgtattcttttccaggaattattgataataagcattaattcgctgttgtagGTATCATCCTGCGTGTGTTGGCATGACGATTGAAGAAGCAAAGAAGCTTGATCACTTTGTATGTGCTGAATGCAGTTCTGATGACGATGTCAAAAAATCGMapped 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|193621714|gb|FK568572.1|FK568572EST: TTCGAGTACAAGGCCGCTTCTGGGGCTTTTACCCCTGACCGTGTTGCTGT GTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGA
genomic: TTCGAGTACAAGGCCGCTTCTGGGGCTTTTACCCCTGACCGTGTTGCTGTgtgagttgtt ... tttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGA
EST:
gi|21595480|gb|BQ610494.1|BQ610494EST: TTCGAGTACAAGGCCGCTTCTGGGGCTTTTACCCCTGACCGTGTTGCTGT GTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGA
genomic: TTCGAGTACAAGGCCGCTTCTGGGGCTTTTACCCCTGACCGTGTTGCTGTgtgagttgtt ... tttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtcgctatatgttttatagaacacatatttcaatctttgtaggtttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGATCATTTTGTATGTTCCGAATGTTCATCTGATGATGATATGAAGAAACCC
tgttgat putative branch site (score: 4)
tttcttgt putative PPT
tatatgttttatagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagtgttcaaagaatcgtcctattgtggatttccatatctgttgatgtcgctatatgttttatagaacacatatttcaatctttgtaggtttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCTAAGAAACTAGATCATTTTGTATGTTCCGAATGTTCATCTGATGATGATATGAAGAAACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA