Sequence
atgc intronic sequence ATGC exonic sequence...attcatatagtaatctatactttagtcctctccaaaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
Basic information
species | Glycine max |
transcript | GLYMA07G09820.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 6
attcatatagtaatctatactttagtcctctccaaaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttcta-tgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
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-------------------gtttgttcatttccataaa--atcattgacttcatgttttttccagaaacatttataaatctttttgaggaatttgatgcagGGGAGAGCTGGACTATCTTGTTATCGACATGCCTCCTGGAACTGGTGATATACAACTGACCTTATGCCAG
upper sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0016g04250.t01 (Vitis vinifera), 3'ss of exon 6
attcatatagtaatctatactttagtcctctcca---aaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
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---tattcatctatctttgtttaggtcatcgccacttagtaccattttgaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
upper sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ08337 (Selaginella moellendorffii), 3'ss of exon 6
attcatatagtaatctatactttagtcctctccaaaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgt-agGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
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----------------------------------------------gtatgtttcatgcgtgct--ctgaggaacaggcataattcagagttgattttcagGGGAGAGCTGGATTATCTGATAATTGACATGCCGCCTGGAACAGGAGACATTCAGCTTACACTCTGCCAG
upper sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ30155 (Selaginella moellendorffii), 3'ss of exon 5
attcatatagtaatctatactttagtcctctccaaaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgt-agGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
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----------------------------------------------gtatgtttcatgcgtgct-cttgaggaacaggcataattcagagttgattttcagGGGAGAGCTGGATTATCTGATAATTGACATGCCGCCTGGAACAGGAGACATTCAGCTTACACTCTGCCAGMapped 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|51345383|gb|CO986116.1|CO986116EST: GGCCCCATGGTTTCTGGAGTCATTAATCAACTTCTGACTACTACTGAGTG GGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATAT
genomic: GGCCCCATGGTTTCTGGAGTCATTAATCAACTTCTGACTACTACTGAGTGgtatgcattt ... tgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
tcctgat putative branch site (score: 3)
ttttctat CT-rich tract
ttgatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcatatagtaatctatactttagtcctctccaaaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - -tcctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgatt