Sequence
atgc intronic sequence ATGC exonic sequencegtacgtcaattatcataacagaaaagaaaaaaaaaacccagcaaatttaactgtagaattgcaatttaggaaatttgattattactaacttcttaaccatcatggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATG
Basic information
species | Glycine max |
transcript | GLYMA14G06230.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G06230.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G56050.2 (Arabidopsis thaliana), 3'ss of exon 5
gtacgtcaattatcataacagaaaagaaaaaaaaaacccagcaaatttaactgtagaattgcaatttaggaaatttgattattactaacttcttaaccatc------atggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATG
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-----------------------------------gtatttccggtcaaccagttttcttatattttaaggattttgatttctatcaccttatcgattatggtttcgatgatttcagATCGAAATGTTATCCAAGATAAACCACAAGAATTTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATG
upper sequence: GLYMA14G06230.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacgtcaattatcataacagaaaagaaaaaaaaaacccagcaaatttaactgtagaattgcaatttaggaaatttgattattactaacttcttaaccatcatggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATG
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-----------------------------gtattgttttccccatttttgttttcttataacaacaacatatagtcgac--ttagcgcgttct--gttttcacgatttcagATCGAAATGTTATCGAAGATCAACCACAAGAATTTTGCAAACCTTCTTGGTTATTGTGAAGAAAAGGAACCTTTCACCAGGATCTTGATCTTTGAGTATG
upper sequence: GLYMA14G06230.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 3'ss of exon 7
gtacgtcaattatcataacagaaaagaaaaaaaaaacccagcaaatttaactgtagaattgcaatttaggaaatttgattattactaacttcttaaccatcatggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATG
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-------------------gtacttgagagattacatccactaaactt---tgtgg--ttttgattc----atcttggtagtccttacattttctttggttgtggtttcagATCGAAAGGTTATCAAAAGTGAACCACAAGAATTTTGTCAACCTTCTCGGATATTGTGAAGAAGAGGAACCTTTCACCAGAATGATGGTTTTTGAATATGMapped 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|12774632|gb|BG239559.1|BG239559EST: CATCATCCAAGAATTGGTCAAAAACTTTAGAAGCTCAATTTAGAAGCAAG ATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGA
genomic: CATCATCCAAGAATTGGTCAAAAACTTTAGAAGCTCAATTTAGAAGCAAGgtacgtcaat ... atggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattgcaatttaggaaatttgattattactaacttcttaaccatcatggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATG
aatttaggaaatttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtcaattatcataacagaaaagaaaaaaaaaacccagcaaatttaactgtagaattgcaatttaggaaatttgattattactaacttcttaaccatcatggtttcagATAGATAAATTGTCGAAAGTGAACCACAAGAATTTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG