Sequence
atgc intronic sequence ATGC exonic sequence...attatcttcagtagtatgttattaatctattaggtacttcttgttttatgtttttagtgttttgtgtgatgctaacccttcgtcttacttggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAG
Basic information
species | Glycine max |
transcript | GLYMA10G05130.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05130.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g02310.1 (Oryza sativa), 3'ss of exon 5
---attatcttcagtagtatgttattaatctattaggtact--tcttgttttatgtttttagtgttttgtgtgatgctaacccttcgtcttacttggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAG
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tacctcttgtccaataatag--tatcattctattaggttatattcacatctcactccttttgtttggggaaccatattaaattctaatttt---tgttcaaacagGAGCCCGTTATACCAGGATGCTTCCTACGAGCAAAGGCCATTGGTCTCATGCCTATGATTGACCAG
upper sequence: GLYMA10G05130.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 5
-------attatcttcagtagtatgttattaatctattaggtacttcttgttttatgtttttagtgttttgtgtgatgctaacccttcgtcttacttggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAG
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ttaatcaatcaagtctataagcat--catcagcatctcag-tctgtcttatttgac-tggtagaaaacacatctcatgtgaatcttgttgaatattttct---acagGAACCGGTGATCCCAGGATGCTTTCTTCGGGCCAAAGCTATTGGTCTGATGCCAATGATTGATCAG
upper sequence: GLYMA10G05130.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 3'ss of exon 5
-attatcttcagtagtatgttattaatctattaggtacttcttgttttatgtttttagtgttttgtgtgatgctaacccttcgtcttacttggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAG
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aattttttggatgtgcttggtttctgaatattccatattacaaagcaatggttataaatggaaactctcatattc-cttatggcttttcaaacatttacagGAACCAGTTCTTCCAGGATGCTTTCTCCGGGCTAAAGCTATTGGTCTCATGCCTATGATTGATCAGMapped 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|13480494|gb|BG509837.1|BG509837EST: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST:
gi|192331411|gb|FK022716.1|FK022716EST: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAA GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgtttttagtgttttgtgtgatgctaacccttcgtcttacttggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAG
tttttagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attatcttcagtagtatgttattaatctattaggtacttcttgttttatgtttttagtgttttgtgtgatgctaacccttcgtcttacttggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATGCCTATGATTGATCAG
- - - - - - - - - - - - - - - - - - cttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct