Sequence
atgc intronic sequence ATGC exonic sequencegtaattaacactttttcttatgcctatggtgttaatttcttgattgtggttcctcaaaaattggttgaaatctgtgctcacatatgtgtcttttttttttgtgtgtgtagcactgctcatatataattgttggttgtggttggtgttttgagttgtgaaaaaagtttggttttggtgttattgacttgtttgttgtccagGTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGCCACATCCAACAAAAGAGGTGCCCATATTAGACTATGATCTGGCTCTTCT
Basic information
species | Glycine max |
transcript | GLYMA13G21310.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G21310.2 (Glycine max), 3'ss of exon 2
lower sequence: AT2G36630.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaattaacactttttcttatgcctatggtgttaatttcttgattgtggttcctcaaaaattggttgaaatctgtgctcacatatgtgtcttttttttttgtgtgtgtagcactgctcatatataattgttggttgtggttggtgttttgagttgtgaaaaaagtttggttttggtgttattgacttgtttgttgtcca--gGTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGCCACATCCAACAAAAGAGGTGCCCATATTAGACTATGATCTGGCTCTTCT
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---------------------------------------------------------------------------------------------------------------------gtaatgaattcatcaatcattgtatagatctt---tcatgagagaatgcttgagttaat-ttggtatgttgtttggtggtgaaagGTATGATAATGGGAGCATCAGCATCATCAGTTTGGTACAATGTACGAGTTCGTCATCCGACAAAAGAAGTACCAATCTTAGATTATGATCTTGCTCTTCT
upper sequence: GLYMA13G21310.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g04230.t01 (Vitis vinifera), 3'ss of exon 2
gtaattaacactttttcttatgcctatggtgttaatttcttgattgtggttcctcaaaaattggttgaaatctgtgctcacatatgtgtcttttttttttgtgtgtgtagcactgctcatatataattgttggttgtggttggtgttttgag---ttgtgaaaaaagtttggttttggtgttattgacttgtttgttgtccagGTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGCCACATCCAACAAAAGAGGTGCCCATATTAGACTATGATCTGGCTCTTCT
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------------------------------------------------------------------------------------------tctttttcaaacttcttagacgcagtaaaatggctttaaaagggcatagttgaaaattcaaagatttgtagtcaaagattgg----agtgt----gatatgattg-----cagGTATGATAATGGGGGCATCGACATCGTCAGTCTGGTATAATCTAAGAGTAAATCATCCAACCAAGGAAGCACCCATCATAGACTACGACTTGGCCCTTCTMapped 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|151406326|gb|EV276141.1|EV276141EST: CAATCTGATTCTTGGCTTTGATACTAAGTCTGCTGCTGCTCTTTCTAAAT GTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGC
genomic: CAATCTGATTCTTGGCTTTGATACTAAGTCTGCTGCTGCTCTTTCTAAATgtaattaaca ... tgttgtccagGTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgagttgtgaaaaaagtttggttttggtgttattgacttgtttgttgtccagGTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGCCACATCCAACAAAAGAGGTGCCCATATTAGACTATGATCTGGCTCTTCT
tattgac putative branch site (score: 2)
cttgttt CT-rich tract
aaaaaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattaacactttttcttatgcctatggtgttaatttcttgattgtggttcctcaaaaattggttgaaatctgtgctcacatatgtgtcttttttttttgtgtgtgtagcactgctcatatataattgttggttgtggttggtgttttgagttgtgaaaaaagtttggttttggtgttattgacttgtttgttgtccagGTATGATAATGGGGGCATCAACATCATCGGTTTGGTATAATGTGAGAGTGCCACATCCAACAAAAGAGGTGCCCATATTAGACTATGATCTGGCTCTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG