Sequence
atgc intronic sequence ATGC exonic sequenceAGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatccttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa...
Basic information
species | Glycine max |
transcript | GLYMA16G28290.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 5'ss of exon 9
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagt-atccttgagtccttttgcttccatgaacatgttgaacatttgggaaaat--gtgagggttgcttatagtattctacgctgacgttaatttgatgaa
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AGGCAAGCTGCGCAATGTGTTGGCCGTGTGATCCGTTCTAAAGCAGATTATGGAATGATGATATTTGCTGACAAGAGgtacttgatcactgccttgacttttaactcagaaaat-tagaacctcgccaatcatcaagaaagcctcgttatagttagctgc-ctatggttgacaagaaag-
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G097605_T01 (Zea mays), 5'ss of exon 9
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGg----ttagtatccttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa---
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AGGCAAGCGGCCCAATGTGTCGGTCGTGTTATTCGCTCCAAAGCTGATTATGGGATGATGATATTTGCTGACAAGAGgtacctgattactgccttaacgcacggagtcctagcata-gctgagcatgaagcaacccaca----tcacatgcatagttgtatgctggcg--aaccagctccagtc
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: AT1G03190.2 (Arabidopsis thaliana), 5'ss of exon 10
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatccttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa----
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AGGCAAGCAGCTCAATGTGTAGGGCGAGTAATCCGGTCAAAGGCTGATTATGGGATGATGATATTTGCAGACAAAAGgtacatgcccgccttaagttttctctctctgagt---ctggtcatttagattcttgctattttactaaatgggattct-ctctataatctatctagtatgataa
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv07s0104g00060.t01 (Vitis vinifera), 5'ss of exon 10
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatcc---ttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa-
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AGGCAAGCTGCACAATGTGTGGGCCGAGTAATCCGTTCAAAGGCAGATTATGGGATGATGATTTTCGCTGACAAAAGgtttgtatcccttttatgtaaattttcctttttggatgaga-aatccctctgacaagtgc-acaattctgtatgcaaaggaaaataaatgt--atatagtaaaa
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S145_26V6.2 (Physcomitrella patens), 5'ss of exon 12
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgt-tagtatcc-ttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa
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CGTCAAGCTGCACAGTGTGTGGGACGCGTTATTCGTTCTAAAGCAGATTATGGAATGATGATTTTTGCTGACAAGAGgtatgccatctgttccatctctttccaactctgaataaattttaagttcctagttctcgatgttttccaagtggtacatgacttcaaaggt--ttcgttggg
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ08988 (Selaginella moellendorffii), 5'ss of exon 9
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatccttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa
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AGACAAGCTGCTCAATGCGTAGGCCGTGTCATTCGCTCAAAAGCAGATTACGGAATGATGATATTTGCAGACAAGAGgttttcccctgtcgtttctttttctttttt---tccttttcttttttctaattttgttgacattgaa-acag----------------------------
upper sequence: GLYMA16G28290.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ30044 (Selaginella moellendorffii), 5'ss of exon 8
-----------------------AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatccttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa
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GCTTATTCGTTTACCTGTACCAGAGACAAGCTGCTCAATGCGTAGGCCGTGTCATTCGCTCAAAAGCAGATTACGGAATGATGATATTTGCAGACAAGAGgttatcccctgtcgtttctttttcttttttccttttcttt----tttctaattttgttgacattgaa-acag----------------------------Mapped 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|208096357|gb|GD892106.1|GD892106EST: GTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAG GTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCA
genomic: GTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatcc ... cactctgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGACAAGCTGCTCAATGTGTGGGTCGTGTAATCCGTTCAAAGGCTGATTATGGAATGATGATTTTTGCAGACAAAAGgttagtatccttgagtccttttgcttccatgaacatgttgaacatttgggaaaatgtgagggttgcttatagtattctacgctgacgttaatttgatgaa
- - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgaggg